[{"hash":"1646388867869586039","title":"Centromeric and Telomeric Chromatin Regulation","description":"This cluster is dominated by chromatin-related functions: CENP-A\u2013containing chromatin assembly, rDNA and subtelomeric heterochromatin formation, and regulation of transcription and the cell cycle linked to chromatin state. While translation appears, the prevailing signal points to chromatin organization and genome stability at centromeres and telomeres, hence the label.","confidence":"High","size":29,"edges":14,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0007050","count":3},{"id":"GO:0006412","count":2},{"id":"GO:1904815","count":2},{"id":"GO:0043457","count":2}]},{"hash":"987595600497076058","title":"Growth signaling and ribosome biogenesis","description":"The cluster centers on pathways coordinating growth and protein synthesis, highlighted by TORC1 signaling and ribosome biogenesis, along with proliferation and cytoskeletal morphogenesis. The presence of GTPase activity regulation and mRNA transport further supports a cohesive growth-control module that links nutrient sensing to transcription/translation and cell growth.","confidence":"High","size":29,"edges":362,"triangles":2664,"max_degree":28,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043547","count":10},{"id":"GO:0042254","count":6},{"id":"GO:0000902","count":5},{"id":"GO:0070262","count":5},{"id":"GO:0051028","count":5}]},{"hash":"1425390491063363358","title":"Cardiac development and regeneration signaling","description":"Top terms show strong enrichment for heart development and cardiac muscle cell proliferation, with regulatory signals such as Wnt pathway modulation and axon regeneration also represented. While there are ancillary terms related to DNA replication and endosome transport, the dominant theme points to cardiac development and tissue regeneration, suggesting this cluster centers on heart formation and regenerative signaling mechanisms.","confidence":"Medium","size":29,"edges":252,"triangles":924,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":29},{"id":"GO:0032801","count":28},{"id":"GO:0009611","count":28},{"id":"GO:0042220","count":28},{"id":"GO:2000641","count":28}]},{"hash":"1996159010746558707","title":"Chromatin Remodeling and Transcription Regulation","description":"The cluster shows enrichment for chromatin- and transcription-related terms (RNA polymerase II transcription initiation, histone acetylation, nucleosome mobilization, heterochromatin formation) along with RNA processing and cell division, suggesting a coherent module where chromatin dynamics regulate gene expression during the cell cycle. ","confidence":"High","size":29,"edges":84,"triangles":97,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006367","count":5},{"id":"GO:0043981","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0042254","count":4}]},{"hash":"2235080342939943298","title":"Retina and Visual System Development with Dopaminergic Signaling","description":"The top terms cluster around retina/visual system development, visual perception, and visual learning, with strong dopaminergic synaptic signaling and related behavioral responses (e.g., cocaine). ERK cascade regulation also aligns with neuronal signaling, supporting a theme of vision-related neural development coupled to dopaminergic pathways and associated behaviors.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":20},{"id":"GO:0007601","count":20},{"id":"GO:0060041","count":19},{"id":"GO:0007626","count":19},{"id":"GO:0001963","count":16}]},{"hash":"718863660012682458","title":"Unknown","description":"The GO terms span translation, multiple cofactor/vitamin biosynthetic pathways (biotin, thiamine, menaquinone, PQQ), tRNA methylation, cristae formation, and DNA repair/recombination, with no single clear functional theme tying all proteins together. The diversity and lack of connectivity suggest no cohesive function for the cluster.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0009102","count":2},{"id":"GO:0018189","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0009228","count":2}]},{"hash":"1368128895306423268","title":"Apoptosis and Innate Immune Activation","description":"This cluster is dominated by GO terms for apoptotic process and innate immune response, with additional signals for cell migration, T cell proliferation, and cytokine responses (IL-7, PDGF). Although a heart development term and a few obsolete annotations appear, the core theme centers on immune signaling, apoptosis regulation, and related cell movement, suggesting a cohesive group of proteins involved in immune activation and programmed cell death.","confidence":"High","size":29,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006915","count":10},{"id":"GO:0045087","count":10},{"id":"GO:0043552","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0010863","count":9}]},{"hash":"2118062414294194803","title":"Organ development and morphogenesis","description":"These 29 proteins are enriched for GO terms spanning retina development, lung epithelial tube branching, uterine epithelium development, muscle organ development, ureteric bud elongation, dorsal spinal cord development, somitogenesis, and amacrine cell differentiation, with an additional regulatory term (negative regulation of transcription by RNA polymerase II). Together they point to broad involvement in organogenesis and tissue differentiation across multiple organs, rather than a single pathway. Therefore, the label Organ development and morphogenesis is representative and specific to this cluster.","confidence":"High","size":29,"edges":12,"triangles":1,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060041","count":12},{"id":"GO:0000122","count":12},{"id":"GO:0060441","count":12},{"id":"GO:0014807","count":11},{"id":"GO:0035847","count":11}]},{"hash":"1536091366602109128","title":"Coagulation and Fibrinolysis Regulation","description":"Dominant terms involve fibrinolysis, plasminogen activation, blood coagulation, and ECM component secretion, including negative regulation of fibrinolysis and plasminogen activation. This suggests a cluster centered on hemostasis and extracellular matrix remodeling. The occasionally noted neuronal secretion terms likely reflect multi-functional proteins but do not outweigh the main coagulation/fibrinolysis theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007205","count":5},{"id":"GO:0042730","count":5},{"id":"GO:0007269","count":4},{"id":"GO:0051497","count":4},{"id":"GO:0051968","count":4}]},{"hash":"660318249721373931","title":"Developmental Cell Adhesion and Signaling","description":"This cluster is dominated by GO terms for development (bone ossification, nervous system and multicellular development, synapse assembly) and cell\u2013cell adhesion (homophilic and heterophilic). These features point to proteins involved in developmental processes and intercellular communication, with adhesion playing a central role in both tissue formation and synapse organization. Immune-related terms are present but seem less defining than the adhesion/development theme, suggesting a broader signaling role rather than a single immune function.","confidence":"Medium","size":29,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043931","count":17},{"id":"GO:0007157","count":16},{"id":"GO:0007399","count":14},{"id":"GO:0007156","count":13},{"id":"GO:0051965","count":13}]},{"hash":"2173126842745689520","title":"Dopaminergic neural signaling and sensory perception","description":"This cluster is dominated by GO terms tied to neural signaling and sensory processing, especially dopaminergic synaptic transmission, behavioral responses to cocaine, and visual and pain perception. The repeated appearance of terms like synaptic transmission (dopaminergic), behavioral response to cocaine, visual learning/perception, and sensory perception of pain points to a theme centered on dopamine-mediated neural communication and sensory processing. Some terms related to vasopressin and blood pressure suggest broader neuroendocrine regulation, but the strongest signal is neural signaling and sensory function. Unknown aspects like heart development may reflect pleiotropic or non-neural roles, but they do not outweigh the dominant neural/sensory theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":23},{"id":"GO:0048148","count":23},{"id":"GO:0070374","count":23},{"id":"GO:0010759","count":23},{"id":"GO:0071380","count":23}]},{"hash":"2119703061282697573","title":"Mitochondrial respiration and translation","description":"Top terms indicate mitochondrial electron transport and complex II assembly (NADH to ubiquinone; succinate to ubiquinone) and redox homeostasis, pointing to respiration and ROS management. The translation and valyl-tRNA aminoacylation terms suggest mitochondrial protein synthesis. Together, they reflect coordinated mitochondrial energy production and mitochondrial translation, possibly modulated by stress signals like corticosterone.","confidence":"High","size":29,"edges":45,"triangles":7,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0034553","count":3},{"id":"GO:0051412","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0045454","count":3},{"id":"GO:0006120","count":3}]},{"hash":"1659975255659000363","title":"Cell cycle transcriptional regulation","description":"This cluster is dominated by GO terms linking DNA-templated transcription and cell-cycle control, including G1/S transition and regulation of cyclin-dependent kinase activity, plus overall cell growth. The recurring theme is transcriptional regulation of proteins that govern the cell cycle, with some developmental differentiation terms present as broader roles of transcription factors. Confidence: High","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0045737","count":7},{"id":"GO:0016049","count":6},{"id":"GO:0000082","count":6},{"id":"GO:0000083","count":5}]},{"hash":"1378142899374574309","title":"Neuronal development and synaptic signaling","description":"The protein set is enriched for brain development, neurotransmitter secretion, regulation of synaptic vesicle exocytosis, long-term potentiation, and calcium- and PI-mediated signaling, with Rho/GTPase regulation contributing to cytoskeletal dynamics essential for synapse formation and plasticity; the VEGF signaling term may reflect neural signaling and vascular interactions in the brain. This combination points to a cohesive theme of neuronal maturation and synaptic function.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":9},{"id":"GO:0007269","count":8},{"id":"GO:0035023","count":8},{"id":"GO:0043065","count":8},{"id":"GO:2000300","count":8}]},{"hash":"973196847324343527","title":"Integrin signaling and epithelial morphogenesis","description":"This cluster is dominated by GO terms related to cell adhesion and integrin-mediated signaling, which drive epithelial cell spreading, morphogenesis, and EMT, including responses to TGF-beta. The presence of terminal web assembly further supports epithelial cell organization, while other terms like axonogenesis and NOS regulation reflect broader regulatory connections. Overall, the core theme is adhesion-driven epithelial remodeling and development.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0034446","count":5},{"id":"GO:0007229","count":5},{"id":"GO:0009887","count":5},{"id":"GO:1902896","count":5},{"id":"GO:0001837","count":5}]},{"hash":"2051341162812269595","title":"ERAD-Ubiquitin Proteostasis Network","description":"The cluster is strongly characterized by ubiquitin- and ERAD-related functions (ubiquitin-dependent ERAD pathway, protein deubiquitination, autoubiquitination, protein deglycosylation), indicating a cohesive theme of protein quality control and turnover via the ubiquitin-proteasome system, especially at the endoplasmic reticulum. Translation and transcription-related terms are present but appear secondary to the dominant proteostasis signal.","confidence":"High","size":29,"edges":355,"triangles":2502,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":10},{"id":"GO:0045648","count":9},{"id":"GO:0006517","count":9},{"id":"GO:0016579","count":9},{"id":"GO:1904378","count":8}]},{"hash":"1771170299158880049","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":43,"triangles":2,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":5},{"id":"GO:0035023","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0006284","count":4},{"id":"GO:0006915","count":4}]},{"hash":"225218522761379654","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":13},{"id":"GO:0001731","count":12},{"id":"GO:0002188","count":12},{"id":"GO:0031047","count":10},{"id":"GO:0048026","count":9}]},{"hash":"1716586379523409642","title":"Glycan biosynthesis and glycosphingolipid metabolism","description":"This cluster is dominated by GO terms for N-linked glycosylation, N-glycan processing, protein sialylation, and glycosphingolipid metabolism (ganglioside and glycosylceramide biosynthesis), indicating a cohesive role in glycan assembly and glycolipid production; a few terms related to pollen and olfactory development appear as separate notes but do not outweigh the glycosylation/glycolipid theme.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0018279","count":5},{"id":"GO:0009311","count":4},{"id":"GO:0009860","count":4},{"id":"GO:0009846","count":4},{"id":"GO:0006491","count":4}]},{"hash":"801094991882286796","title":"Unknown","description":"The top GO terms cover a highly diverse set of processes\u2014from cell cycle regulation and kinetochore localization to immune tolerance, development of vagina and heart valves, receptor trafficking, wound response, cytokine production, and responses to drugs\u2014indicating no single cohesive biological function tying these proteins together. This suggests a heterogeneous cluster without a common theme.","confidence":"","size":29,"edges":139,"triangles":247,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045736","count":29},{"id":"GO:0034501","count":29},{"id":"GO:0002651","count":28},{"id":"GO:0060068","count":28},{"id":"GO:0032801","count":28}]},{"hash":"1873357948429250547","title":"Signaling and stress-response regulation","description":"The cluster shows diverse GO terms spanning signaling (GTPase regulation, TORC1 signaling), RNA transport, protein modification, and broad stress/immune responses (defense against Gram-positive bacteria, LPS response, mitochondrial depolarization, ciliary docking). This points to a broad network of regulatory signaling and stress-response functions rather than a single, narrow pathway.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0070262","count":6},{"id":"GO:0051028","count":6},{"id":"GO:0038202","count":6},{"id":"GO:0050830","count":5}]},{"hash":"183551280593194596","title":"CNS neuron development and dendrite morphogenesis","description":"The top GO terms strongly point to neuronal development and neurite formation, including central nervous system neuron development, neuron projection development, and dendrite morphogenesis, with accompanying cytoskeletal rearrangements (microtubule bundle formation). Additional terms about synaptic protein localization and organelle transport fit the context of neuronal maturation and dendritic growth rather than general housekeeping processes. Overall, the cluster appears to center on neuronal differentiation and dendritic morphogenesis.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048813","count":6},{"id":"GO:0031175","count":5},{"id":"GO:1902474","count":5},{"id":"GO:1902953","count":4},{"id":"GO:0071901","count":4}]},{"hash":"1328039496915905433","title":"Cytoskeletal dynamics and cell junction signaling","description":"Reasoning: The terms emphasize actin-driven structures (lamellipodium assembly), Rho-mediated signaling, apical junctions, and related trafficking processes (endocytic recycling), alongside cell division and tissue polarity cues. Together they point to a cohesive theme of cytoskeletal remodeling coupled with cell adhesion and signaling, hence the label.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030032","count":4},{"id":"GO:0051291","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0032456","count":3},{"id":"GO:0001675","count":3}]},{"hash":"576483961637754104","title":"Chromatin remodeling and transcription regulation","description":"The cluster shows recurring GO terms for nucleosome assembly/disassembly and gene expression, supported by cytoplasmic translation and UV-C response entries, pointing to chromatin dynamics governing transcription. While Golgi trafficking and meiosis terms appear, the strongest signal centers on chromatin remodeling and transcriptional control.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002181","count":2},{"id":"GO:0071494","count":2},{"id":"GO:0006337","count":2},{"id":"GO:0006334","count":2},{"id":"GO:0050714","count":2}]},{"hash":"1833979895683148143","title":"Insulin Signaling and Fatty Acid Metabolism","description":"The top GO terms cluster around insulin/IGF receptor signaling, insulin receptor signaling pathway, regulation of glycogen biosynthesis, and fatty acid metabolism (beta-oxidation and fatty acid import), suggesting a cohesive theme of metabolic regulation driven by insulin signaling. Some terms are peripheral or older (e.g., dorsal closure, B cell apoptotic processes), but the dominant pattern points to coordinated lipid and carbohydrate metabolism under insulin signaling. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010748","count":5},{"id":"GO:0014065","count":5},{"id":"GO:0008286","count":5},{"id":"GO:0032000","count":5},{"id":"GO:2001275","count":5}]},{"hash":"2269147651517142515","title":"Neuronal synapse assembly and transmission proteins","description":"This cluster is dominated by terms related to synapse formation and function\u2014postsynaptic scaffold components like neuroligins and gephyrin, chemical synaptic transmission, and neurotransmitter secretion\u2014indicating a cohesive role in neuronal synapse assembly and communication. The presence of prepulse inhibition and dendrite morphogenesis terms further supports involvement in neural circuit organization. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0060134","count":4},{"id":"GO:0007268","count":4},{"id":"GO:0097118","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0097116","count":3}]},{"hash":"1116230500578901217","title":"Developmental signaling and vascular-immune regulation","description":"This cluster shows enrichment for developmental and signaling terms (Wnt signaling, midbrain development, pancreas morphogenesis) alongside vascular/immune processes (establishment of endothelial barrier, leukocyte tethering/rolling), suggesting proteins involved in developmental signaling with vascular and immune regulation. Some terms appear broader or outdated, but the dominant theme links development with vascular-immune regulation.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:1903142","count":7},{"id":"GO:0044130","count":6},{"id":"GO:0007586","count":6},{"id":"GO:0016055","count":6}]},{"hash":"984118018924358573","title":"Embryonic Development and Organ Morphogenesis","description":"The proteins map to broad embryonic development and organ formation processes, including palate and craniofacial development, EMT in heart development, placenta-associated differentiation, mesoderm formation, cartilage morphogenesis, and left-right patterning, indicating a cohesive theme of embryogenesis across multiple tissues.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":20},{"id":"GO:0003198","count":18},{"id":"GO:0060707","count":18},{"id":"GO:0060806","count":18},{"id":"GO:0060536","count":18}]},{"hash":"2125909320636886803","title":"Neural development and synaptic signaling","description":"The terms point strongly to CNS development (substantia nigra development, retina layer formation) and to synaptic function (regulation of synaptic vesicle exocytosis/endocytosis) plus memory (short-term memory) and calcium/NFAT signaling. While a couple of terms mention heart-related development, the dominant pattern is brain development and neural communication. This label captures the cluster\u2019s core theme without overreaching.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0010842","count":4},{"id":"GO:2000300","count":4},{"id":"GO:0002027","count":4}]},{"hash":"1971368382055978376","title":"TLR signaling and antibacterial defense","description":"Dominant GO terms include toll-like receptor signaling pathways (TLR2/3/9) and cellular response to lipopolysaccharide, plus defense responses to Gram-negative and Gram-positive bacteria, pointing to an innate immune response theme. Some terms about brain development and DNA repair appear less connected to this cluster. Overall the proteins cluster around TLR-mediated recognition of bacteria and ensuing defense responses.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034162","count":4},{"id":"GO:0034138","count":4},{"id":"GO:0034134","count":4},{"id":"GO:0071222","count":4},{"id":"GO:0007420","count":4}]},{"hash":"126694787860846810","title":"Rho GTPase-driven cytoskeletal remodeling","description":"The dominant GO terms point to Rho GTPase signaling and cytoskeletal dynamics, including lamellipodium and stress fiber assembly, and activation of GTPase activity. Although there are some developmental and NF-kB-related terms, the strongest, recurring theme is Rho/GTPase\u2013mediated remodeling of the actin cytoskeleton, key for cell migration and shape during development.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0007266","count":3},{"id":"GO:0030032","count":3}]},{"hash":"614925324858462614","title":"Embryogenesis and morphogenesis","description":"The GO terms point to embryonic development, tissue morphogenesis, and patterning (EMT in endocardial cushion formation, cartilage morphogenesis, left-right patterning, placenta and endocrine system development, trophoblast and pancreatic cell differentiation), with supporting general transcription/spliceosome and cell division processes. This suggests the cluster reflects genes involved in development and organ formation rather than a single downstream pathway.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":10},{"id":"GO:0060806","count":10},{"id":"GO:0060536","count":10},{"id":"GO:0035270","count":10},{"id":"GO:0060972","count":10}]},{"hash":"326884722051931425","title":"Mitochondrial Energy Production and Translation","description":"The cluster is dominated by GO terms related to mitochondrial function\u2014electron transport and ATP synthesis\u2014and includes mitochondrial translation as well as cytoplasmic translation, pointing to a core role in mitochondrial energy production and general protein synthesis. Neuronal apoptotic process reflects mitochondria\u2019s role in neuron apoptosis, while the bacterial flagellum terms likely represent annotation noise rather than a real shared function. Overall, the terms suggest a cohesive module centered on mitochondrial biogenesis, energy metabolism, and translation. ","confidence":"Medium","size":28,"edges":370,"triangles":3096,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0006123","count":4},{"id":"GO:0042776","count":2},{"id":"GO:0051402","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0071973","count":2}]},{"hash":"1559422142739706325","title":"Immune Regulation and Inflammatory Signaling","description":"The enriched GO terms center on inflammatory response, immune modulation (negative regulation of MHC class II biosynthesis), and stress/hormone signaling (cellular response to transforming growth factor beta and dexamethasone). There is also transcriptional regulation (negative regulation of transcription by RNA polymerase II). Together these point to a cluster of proteins involved in regulating immune/inflammatory signaling and related transcriptional responses, with some developmental terms likely reflecting pleiotropy rather than core function.","confidence":"Medium","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0006954","count":4},{"id":"GO:0003323","count":4},{"id":"GO:0071560","count":3},{"id":"GO:0007420","count":3}]},{"hash":"1219402567383609392","title":"Nucleolar ribosome biogenesis and RNA processing","description":"The top GO terms are dominated by ribosome biogenesis and rRNA maturation (maturation of SSU-rRNA, ribosomal large subunit biogenesis, ribosome assembly), pointing to nucleolar roles in ribosome production. Additional terms related to transcription initiation and DNA replication indicate broader nuclear functions often linked to ribosome biogenesis machinery, while entries like cellular response to cold or embryonic morphogenesis may reflect pleiotropic roles. Overall, the cluster appears centered on ribosome production and RNA processing, justifying this label.","confidence":"Medium","size":28,"edges":356,"triangles":2863,"max_degree":27,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000462","count":9},{"id":"GO:0006367","count":7},{"id":"GO:0042273","count":7},{"id":"GO:0048701","count":7},{"id":"GO:0042255","count":7}]},{"hash":"822671183695956803","title":"Spliceosome-regulated mRNA splicing and RNA silencing","description":"The top terms center on mRNA processing and spliceosome-mediated splicing (including alternative splicing) and regulation of mRNA stability, plus regulatory ncRNA and miRNA-mediated silencing, indicating a cohesive theme of post-transcriptional control by the spliceosome and RNA silencing pathways.","confidence":"High","size":28,"edges":378,"triangles":3276,"max_degree":27,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":21},{"id":"GO:0031047","count":21},{"id":"GO:0010610","count":21},{"id":"GO:0006378","count":18},{"id":"GO:1901407","count":17}]},{"hash":"1680811533736803758","title":"Ribosome biogenesis and translation control","description":"Dominant signals are ribosome biogenesis and translation regulation: LSU rRNA maturation, large subunit biogenesis, translation preinitiation complex formation, and translation reinitiation, with TORC1 signaling linking growth to ribosome production; other terms hint at broader RNA processing and nuclear context accompanying ribosome assembly.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0038202","count":8},{"id":"GO:0043547","count":8},{"id":"GO:0000447","count":8},{"id":"GO:0042273","count":7},{"id":"GO:0031497","count":7}]},{"hash":"1875252598213513589","title":"Ribosome biogenesis and RNA processing","description":"The top terms center on LSU/5.8S rRNA maturation and SSU processome assembly, pointing to ribosome biogenesis; additional terms involve spliceosome-mediated mRNA splicing, mRNA stabilization, and miRNA-mediated translation regulation, indicating broader RNA processing and transcript-level regulation. Thus, the cluster likely comprises proteins involved in ribosome assembly together with RNA processing pathways.","confidence":"High","size":28,"edges":34,"triangles":11,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000463","count":3},{"id":"GO:0000466","count":3},{"id":"GO:0000380","count":3},{"id":"GO:0001825","count":3},{"id":"GO:0075525","count":3}]},{"hash":"1744904025583669632","title":"Developmental Morphogenesis and Signaling","description":"This cluster's top GO terms cluster around developmental and morphogenesis processes across multiple tissues (parathyroid and bone development, hard palate and mammary gland duct morphogenesis, endothelial barrier establishment) and include signaling-related activities (lamellipodium morphogenesis, tyrosine phosphorylation/STAT signaling). The convergence on tissue morphogenesis and its regulation by signaling suggests these proteins function in coordinating developmental processes rather than a single tissue-specific role. A concise label emphasizing both development and signaling is therefore appropriate.","confidence":"Medium","size":28,"edges":26,"triangles":0,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060017","count":6},{"id":"GO:2000394","count":5},{"id":"GO:0050731","count":5},{"id":"GO:0060022","count":5},{"id":"GO:0060335","count":5}]},{"hash":"187513004531011330","title":"Ribosome maturation and RNA processing","description":"This cluster is anchored by terms for maturation and processing of ribosomal RNA (LSU rRNA and 5.8S rRNA) and RNA guanine-N7 methylation, pointing to ribosome biogenesis and RNA modification as the core theme. The SCF-dependent ubiquitin-proteasome term suggests proteostasis tied to ribosome assembly quality control, while other terms like ER-to-Golgi transport or defense responses may reflect broader roles in the same proteome set. Overall, the strongest signal is ribosome biogenesis and RNA processing.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0036265","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0008584","count":3},{"id":"GO:0051260","count":3}]},{"hash":"457610245032497937","title":"RNA processing and translation initiation regulation","description":"The cluster is enriched for terms involved in RNA processing (mRNA splicing via spliceosome) and regulation of translational initiation (formation of translation preinitiation complex, regulation of translational initiation, and IRES-dependent viral translational initiation), pointing to control of gene expression at RNA and translation levels. Additional proteostasis terms (proteasome-mediated ubiquitin-dependent protein catabolic process; protein deneddylation) suggest coordination of protein turnover with expression, while mitochondrial fission and germ-line encapsulation indicate broader cellular remodeling. Overall, the dominant theme is regulation of gene expression at RNA and translation stages, with links to protein turnover. ","confidence":"Medium","size":28,"edges":97,"triangles":119,"max_degree":22,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0010950","count":7},{"id":"GO:0043161","count":6},{"id":"GO:0075522","count":6},{"id":"GO:0000338","count":6},{"id":"GO:0000266","count":6}]},{"hash":"811068811909583125","title":"RNA processing and translation initiation","description":"The cluster is dominated by GO terms for translation initiation and reinitiation (formation of translation preinitiation complex, translation reinitiation, IRES-dependent initiation) alongside mRNA processing/splicing (cis and alternative splicing via spliceosome). This suggests a cohesive theme around RNA maturation and controlled translation, justifying a combined label. Some obsolete terms and an unrelated blastocyst term appear but do not define the core function.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":14},{"id":"GO:0002188","count":14},{"id":"GO:0075525","count":10},{"id":"GO:0075522","count":10},{"id":"GO:0006446","count":10}]},{"hash":"1018264032597338354","title":"B and Mast Cell Immune Tolerance Regulation","description":"This cluster is dominated by GO terms related to immune tolerance (positive regulation of tolerance induction to self antigen; positive regulation of B cell tolerance induction) and mast cell cytokine production, suggesting a module that controls self-tolerance and cytokine signaling in B and mast cells; additional terms on receptor catabolic process and endosome transport point to linked receptor turnover and trafficking, with a few unrelated developmental terms likely noise.","confidence":"Medium","size":28,"edges":366,"triangles":2992,"max_degree":27,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0002651","count":28},{"id":"GO:0060068","count":28},{"id":"GO:0032801","count":28},{"id":"GO:0009611","count":28},{"id":"GO:0032762","count":28}]},{"hash":"324828268435466550","title":"Embryo and organ morphogenesis","description":"The top GO terms point to developmental and morphogenetic processes, notably embryonic body morphogenesis, renal vesicle formation, and root development, suggesting a cluster centered on tissue and organ formation during development. Supporting terms about nuclear import and chromatid/cohesion regulation reflect cellular logistics active during proliferation in developing tissues. Overall, the common theme is developmental morphogenesis and organ formation.","confidence":"Medium","size":28,"edges":333,"triangles":2288,"max_degree":27,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0015991","count":12},{"id":"GO:0006607","count":12},{"id":"GO:0048364","count":12},{"id":"GO:0043547","count":12},{"id":"GO:0010909","count":11}]},{"hash":"2139176174515102651","title":"Vesicle trafficking and cell division in plants","description":"The terms cluster around intracellular transport between ER and Golgi, vesicle-mediated trafficking in general, and cell division processes (cell division, meiotic spindle elongation), with amyloplast organization pointing to plant plastids. This suggests a cohesive role in vesicle trafficking linked to growth and division in plant cells.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0006888","count":4},{"id":"GO:0038202","count":4},{"id":"GO:0099590","count":3},{"id":"GO:0000188","count":3}]},{"hash":"568180562415389298","title":"Developmental and cellular growth processes","description":"The listed GO terms span fertilization, skin and neuron development, cell division, secretory transport, transcription, ubiquitination, and signaling, suggesting involvement in broad developmental and general cellular maintenance rather than a single, cohesive pathway.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007338","count":6},{"id":"GO:0043588","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0006888","count":5},{"id":"GO:0006351","count":5}]},{"hash":"458748789417638551","title":"Transcriptional Regulation in Development and Stress","description":"The cluster shows enrichment for transcription regulation terms (GO:0006355, GO:0045944) alongside developmental processes (lung development, coronary vasculature development) and a stress signal (cellular response to heat), with some antibiotic-related terms present. This suggests a core theme of modulation of transcription during development and under stress, with some potential annotation noise from antibiotic-related terms. ","confidence":"Medium","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0046677","count":10},{"id":"GO:0055114","count":8},{"id":"GO:0030324","count":6},{"id":"GO:0042127","count":6},{"id":"GO:0060976","count":6}]},{"hash":"1010573714466574234","title":"RNA Splicing and Translation Initiation Regulation","description":"The top GO terms center on spliceosome-mediated mRNA processing (splicing, polyadenylation, preinitiation complex formation) and various aspects of translation initiation and reinitiation (including IRES-dependent and viral mechanisms), plus ncRNA-mediated gene silencing. This suggests a cohesive cluster focused on post-transcriptional RNA maturation and the regulation of protein synthesis, with regulatory ncRNAs contributing to RNA-level control. ","confidence":"High","size":28,"edges":64,"triangles":39,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":17},{"id":"GO:0006378","count":17},{"id":"GO:0001731","count":17},{"id":"GO:0002188","count":17},{"id":"GO:0045292","count":17}]},{"hash":"2203394118796046","title":"Rho GTPase\u2013actin Cytoskeleton Signaling","description":"The cluster\u2019s top GO terms center on activation of GTPase activity, regulation of Rho signaling, and actin cytoskeleton organization, pointing to a core program of cytoskeletal dynamics and signal transduction. Additional terms related to NF-\u03baB signaling, heart-related processes, and immune signaling suggest these proteins participate in diverse, but connected, signaling networks across cell types, including cardiac and immune contexts.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0043123","count":4},{"id":"GO:0030036","count":4},{"id":"GO:0098907","count":3}]},{"hash":"569037774910687085","title":"Dopaminergic Signaling and Sensory Perception","description":"The top GO terms center on neural signaling and sensory processing: dopaminergic synaptic transmission, visual perception and learning, behavioral response to cocaine, ERK1/ERK2 cascade, and related phosphorylation events. While \"heart development\" is less aligned, the prominence of ERK signaling, protein phosphorylation, and sensory/neural functions suggests a cluster focused on neural signaling and sensory modulation, including drug-response aspects. This label captures the core theme without overextending to unrelated terms.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":12},{"id":"GO:0070374","count":12},{"id":"GO:0007601","count":11},{"id":"GO:0019233","count":11},{"id":"GO:0006468","count":10}]},{"hash":"699125137897335923","title":"Cardiac fatty acid oxidation and heart development","description":"The cluster is enriched for fatty-acid beta-oxidation terms (acyl-CoA oxidase/dehydrogenase, medium-chain fatty acids, fatty-acyl-CoA biosynthesis) alongside cardiac-specific development terms (cardiac muscle cell differentiation, heart development), suggesting a module tied to cardiac energy metabolism and heart formation.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":2},{"id":"GO:0033540","count":2},{"id":"GO:0055007","count":2},{"id":"GO:0005978","count":2},{"id":"GO:0033539","count":2}]},{"hash":"639903780855828396","title":"Mixed metabolic and stress-response processes","description":"The proteins show a mix of metabolic biosynthetic activities (biotin, beta-alanine, protoporphyrinogen IX, ornithine) and energy metabolism (mitochondrial electron transport), plus RNA modification and some stress-related terms (response to cold, cytolysis). The lack of a cohesive single pathway and the diverse GO terms suggest a heterogeneous cluster centered on general metabolism with incidental stress-related functions.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0009409","count":3},{"id":"GO:0006120","count":3},{"id":"GO:0019835","count":3},{"id":"GO:0002098","count":3}]},{"hash":"1686753176857973389","title":"Adaptive immune development and leukocyte signaling","description":"The cluster is strongly enriched for adaptive immunity (adaptive immune response, thymus development, NK cell regulation) and includes phagocytosis and cytoskeletal/motility signals (Rho signaling, lamellipodium morphogenesis), pointing to immune cell development, activation, and migration as the core theme.","confidence":"High","size":28,"edges":38,"triangles":11,"max_degree":26,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0002250","count":18},{"id":"GO:0051968","count":17},{"id":"GO:2000394","count":13},{"id":"GO:0006909","count":13},{"id":"GO:0043552","count":13}]},{"hash":"154408828399672791","title":"Unknown","description":"The top GO terms include telomere maintenance and telomerase-related regulation, chromosome telomeric localization, plus several unrelated processes like spindle assembly, Wnt signaling, GPCR signaling, bone development, and synaptic regulation, indicating no single cohesive function for the cluster.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0051225","count":4},{"id":"GO:0060348","count":4},{"id":"GO:0070213","count":3},{"id":"GO:0071260","count":3}]},{"hash":"1306505245074358420","title":"Dopaminergic Signaling and Retina Development","description":"The top terms are strongly clustered around retina development and vision-related signaling (retina development, regulation of opsin-mediated signaling, saliva secretion is an outlier but the vision terms dominate; also dopaminergic synaptic transmission and cocaine-responsive behavior point to dopamine pathways). The presence of positive regulation of GTPase activity suggests broader signaling regulation within these networks. Overall, the cluster seems to tie eye/retina development with dopamine-mediated neural signaling. ","confidence":"High","size":28,"edges":343,"triangles":2482,"max_degree":27,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":24},{"id":"GO:0060041","count":23},{"id":"GO:0008284","count":23},{"id":"GO:0008283","count":23},{"id":"GO:0046541","count":22}]},{"hash":"1822874693018852192","title":"Neuropeptide and Vision Signaling","description":"This cluster is dominated by GO terms related to neural communication: neuropeptide signaling, opsin/vision signaling, visual learning, and sensory perception of pain, indicating roles in sensory pathway signaling with a focus on vision. The inclusion of protein phosphorylation and temperature-response terms supports a broader signaling regulatory theme accompanying these sensory processes.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":19},{"id":"GO:0040015","count":18},{"id":"GO:0007218","count":18},{"id":"GO:0008542","count":18},{"id":"GO:0045986","count":17}]},{"hash":"1247801359631102541","title":"Neural development and axon guidance","description":"The top GO terms cluster around neural development, including neuron differentiation and axonogenesis, motor neuron migration, axon guidance, dopaminergic and Purkinje cell lineages, as well as cell adhesion and junction organization, all pointing to neuronal connectivity and maturation. While a few terms (like uterine epithelium development and platelet aggregation) are less central, the dominant signal supports a cohesive theme of neural development and pathfinding.","confidence":"High","size":28,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":28},{"id":"GO:0070527","count":28},{"id":"GO:0097477","count":28},{"id":"GO:0048936","count":28},{"id":"GO:0008045","count":28}]},{"hash":"2207246279495725841","title":"Ubiquitin-Dependent Protein Degradation","description":"The top GO terms indicate ubiquitin-dependent proteolysis, multiple ubiquitin linkages (K48, K63), ERAD involvement, SCF-mediated proteasomal degradation, and downstream signaling such as NF-\u03baB and TNF pathways, pointing to a cohesive theme of ubiquitin tagging for protein turnover and related signaling.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":21},{"id":"GO:0070936","count":12},{"id":"GO:0030433","count":12},{"id":"GO:1903378","count":12},{"id":"GO:0051865","count":11}]},{"hash":"1849664740508991193","title":"Neutrophil Activation and Trafficking Regulation","description":"The cluster is dominated by neutrophil-related processes (chemotaxis, phagocytosis, and regulation of degranulation and respiratory burst) and regulation of extravasation and Rho signaling, suggesting coordinated control of neutrophil recruitment and activation and leukocyte trafficking, with vascular remodeling playing a supportive role.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060313","count":6},{"id":"GO:0035023","count":5},{"id":"GO:0043314","count":4},{"id":"GO:0002692","count":4},{"id":"GO:0010765","count":4}]},{"hash":"922799139734370702","title":"Transcriptional Regulation and Neural Development","description":"The cluster is dominated by GO terms for transcriptional regulation (negative regulation of transcription by RNA Pol II and regulation of DNA-templated transcription) and several development terms tied to neural/sensory tissues (midbrain, visual perception, inner ear, pituitary gland). This suggests proteins that regulate gene expression during neural/sensory organ development, with an incidental lipopolysaccharide response term that may be less related. Confidence reflects a cohesive transcription-and-development theme rather than a single pathway.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0021983","count":8},{"id":"GO:0032496","count":7},{"id":"GO:0045648","count":6},{"id":"GO:0034720","count":6}]},{"hash":"660457768455251646","title":"Neural development and synapse formation","description":"The cluster is dominated by GO terms related to nervous system development, synapse assembly, and cell\u2013cell adhesion (both heterophilic and homophilic), with strong signals for axonal fasciculation and myelination, indicating roles in neural connectivity and maturation. Some other terms (bone ossification, angiogenesis, symbiont entry) are less central to the core neural theme but appear in the set.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":16},{"id":"GO:0007157","count":16},{"id":"GO:0046718","count":14},{"id":"GO:0007156","count":13},{"id":"GO:0007399","count":13}]},{"hash":"1469881081778554150","title":"Inflammation-Associated Transcriptional Regulation","description":"The cluster features DNA-templated transcription and IL-6 production, along with inflammatory response terms, pointing to transcriptional control of inflammatory signaling. Additional terms about regulation of GTPase and kinase activities suggest connected signaling layers. Some tissue-development terms may reflect context-specific expression or annotation noise, but the core signal centers on transcriptional regulation in inflammatory pathways.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0006954","count":4},{"id":"GO:1903709","count":3},{"id":"GO:1903699","count":3}]},{"hash":"166524924238352976","title":"Translation machinery and translational regulation","description":"The Top Terms are dominated by all stages of mRNA translation and related processes: translation, initiation, termination, elongation, and regulation of these steps, plus selenocysteine incorporation. The prominence of positive regulation of translational fidelity and elongation, along with termination regulation, points to a cluster of proteins involved in the protein synthesis machinery and its control. A few terms like glial cell proliferation or viral genome replication may reflect incidental associations in the dataset but do not redefine the core theme. Overall, the cluster seems to group ribosomal/translation factors and regulators.","confidence":"High","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":15},{"id":"GO:0046677","count":11},{"id":"GO:0006415","count":9},{"id":"GO:0045903","count":8},{"id":"GO:0001514","count":7}]},{"hash":"1317215954114761534","title":"Unknown","description":"The top GO terms are highly heterogeneous across tissues and species (translation, antibiotic response, uterine/pancreatic/plant development, sulfur oxidation), with no single unifying function or network connectivity to tie the proteins together, so a coherent label cannot be assigned.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0046677","count":4},{"id":"GO:0035847","count":4},{"id":"GO:0019417","count":4},{"id":"GO:2000744","count":4}]},{"hash":"665362433555785003","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":5},{"id":"GO:0000082","count":5},{"id":"GO:0006261","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0071897","count":3}]},{"hash":"1574226686666583016","title":"Multitissue developmental differentiation","description":"These proteins cluster around broad developmental differentiation and morphogenesis across multiple tissues\u2014muscle, bone, vascular/heart structures, retina, and neural lineages (floor plate, amacrine cells, melanocytes), including somitogenesis. The shared theme is embryonic lineage specification and tissue morphogenesis rather than a single tissue-specific process.","confidence":"High","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":22},{"id":"GO:0035914","count":12},{"id":"GO:0045669","count":12},{"id":"GO:0035470","count":12},{"id":"GO:0003151","count":12}]},{"hash":"254867004830754145","title":"Developmental transcriptional regulation","description":"This cluster combines GO terms for DNA-templated transcription and regulation of gene expression with broad developmental processes such as cerebral cortex and forebrain development, multicellular organism development, and morphogenesis, suggesting proteins that act as transcriptional regulators guiding development (including neural development). Some terms (e.g., NK cell differentiation, cell cycle) are more general, but the strongest signals point to transcriptional control during development. Confidence: Medium","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0006349","count":4},{"id":"GO:0021987","count":3},{"id":"GO:0031100","count":3},{"id":"GO:0051301","count":3}]},{"hash":"49155930538842012","title":"Proteolysis and Protein Processing","description":"The cluster is dominated by GO terms related to protein processing and proteolysis, including insulin processing, ubiquitin-dependent ERAD, C-terminal deglutamylation, and regulation of plasminogen activation and fibrinolysis. These indicate a common theme of post-translational modification and protein turnover. A few terms (hatching behavior, Purkinje cell differentiation, angiotensin regulation, heat response) are less directly tied to proteolysis, suggesting some noise, but the core signal points to proteolytic pathways and protein processing.","confidence":"Medium","size":27,"edges":76,"triangles":102,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0030070","count":6},{"id":"GO:0035187","count":6},{"id":"GO:0030433","count":5},{"id":"GO:0001302","count":5},{"id":"GO:0009408","count":5}]},{"hash":"530254145935033027","title":"Embryonic Organogenesis and Cell Cycle Regulation","description":"The cluster includes GO terms for development across multiple organs (medulla oblongata, renal outer medulla, oviduct, prostate) and embryonic cell-cycle regulation, along with neural differentiation and organ identity maintenance. This suggests a broad developmental program governing organ formation and proliferation control, rather than a single specific pathway.","confidence":"Medium","size":27,"edges":346,"triangles":2807,"max_degree":26,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":20},{"id":"GO:0021550","count":18},{"id":"GO:0072054","count":18},{"id":"GO:0060066","count":18},{"id":"GO:0045976","count":18}]},{"hash":"2246382852166173376","title":"Neuronal signaling and synapse dynamics","description":"This cluster is enriched in terms tied to neural communication and synaptic structure/function, including auditory perception, vocalization behavior, dendritic spine morphogenesis, excitatory postsynaptic potential, and signaling activities (dephosphorylation, GTPase activation). The mix points to neural circuits and synaptic plasticity rather than metabolic processes, supporting a coherent theme around neuron signaling and synapse remodeling.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0007605","count":6},{"id":"GO:0035176","count":6},{"id":"GO:0006470","count":6},{"id":"GO:0071260","count":6},{"id":"GO:2001275","count":6}]},{"hash":"266723819787970782","title":"Hair Cycle and Keratinization","description":"This cluster is dominated by GO terms for hair biology, especially hair cycle and keratinization, pointing to proteins involved in keratin-based hair structure and its renewal. Although there are splicing and viral-related terms present, the strongest, recurring signals are epithelial differentiation and keratinization. Therefore, the most representative label is a hair-cycle/keratinization module.","confidence":"High","size":27,"edges":129,"triangles":145,"max_degree":20,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0042633","count":10},{"id":"GO:0031424","count":10},{"id":"GO:0006376","count":7},{"id":"GO:1901407","count":4},{"id":"GO:0000381","count":4}]},{"hash":"134795600354176665","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030511","count":2},{"id":"GO:0002107","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0071044","count":2},{"id":"GO:0000738","count":2}]},{"hash":"2169027502324232160","title":"Mammary gland development and lactation transcriptional regulation","description":"This cluster centers on mammary gland biology and lactation, with strong representations for mammary gland alveolus development, lactation, and mammary epithelial proliferation, plus hormonal response (leptin). It is complemented by transcriptional regulation terms (DNA-templated transcription and negative regulation of RNA polymerase II), and cell cycle processes, suggesting a module of transcriptional regulators coordinating mammary development and milk production.","confidence":"High","size":27,"edges":13,"triangles":2,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":16},{"id":"GO:0060749","count":14},{"id":"GO:0033327","count":14},{"id":"GO:0071157","count":14},{"id":"GO:0000122","count":13}]},{"hash":"1019005479440167026","title":"Unknown","description":"The top GO terms span signaling (Rho pathway, B cell receptor signaling, phosphorylation regulation), cell migration, apoptosis, DNA replication, and development, with no clear unifying process. The lack of edges and diverse functions prevent a coherent functional label from emerging.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0075015","count":5},{"id":"GO:0008542","count":4},{"id":"GO:0006486","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0016477","count":3}]},{"hash":"2025408776860041606","title":"Cell migration and adhesion dynamics","description":"The top terms converge on processes that regulate how cells adhere to substrates and move, including substrate adhesion-dependent spreading, hyaluronan metabolism, filopodium assembly, and Rho-mediated signaling, plus general cell migration and fibroblast migration. T cell activation and GPCR internalization point to immune and receptor-trafficking aspects that accompany adhesion and motility. Taken together, the cluster highlights coordinated adhesion, cytoskeletal remodeling, and migration across cell types.","confidence":"Medium","size":27,"edges":19,"triangles":0,"max_degree":10,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1900026","count":17},{"id":"GO:0030212","count":17},{"id":"GO:0002291","count":17},{"id":"GO:0016477","count":16},{"id":"GO:0035023","count":16}]},{"hash":"598489227364797775","title":"Mitochondrial translation and Complex I assembly","description":"The top terms center on mitochondrial protein synthesis (mitochondrial translation, elongation/termination, and regulation) and assembly of the mitochondrial respiratory chain, especially Complex I, plus related proton transmembrane transport, indicating a cohesive mitochondrial gene-expression and biogenesis functional theme.","confidence":"High","size":27,"edges":329,"triangles":2431,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0070125","count":2},{"id":"GO:0070126","count":2},{"id":"GO:0006412","count":2},{"id":"GO:1902600","count":2}]},{"hash":"1452674133268723365","title":"Hair Follicle Morphogenesis and Endosomal Trafficking","description":"The cluster prominently features terms related to hair follicle development (morphogenesis and proliferation) alongside endosomal transport and vesicle exocytosis, ERK signaling, and mechanosensitive responses. This suggests a cohesive theme where endocytic trafficking and signaling regulate skin appendage formation, with exocytosis and calcium-dependent processes potentially supporting morphogenetic signaling and tissue remodeling. Confidence: Medium","confidence":"","size":27,"edges":17,"triangles":2,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010796","count":7},{"id":"GO:0071338","count":6},{"id":"GO:0045022","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0071260","count":6}]},{"hash":"301704915621887741","title":"Chromatin regulation and spindle dynamics in spermatogenesis","description":"Most terms point to chromatin state control (histone methylation, DNA methylation, heterochromatin) and to cell division processes (spindle assembly, centrosome cycle) within germ cells (spermatogenesis/spermatid differentiation). Taken together, the cluster appears to group proteins involved in regulating chromatin and chromosome dynamics during meiosis and germline development, despite several terms being obsolete in current GO. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051225","count":7},{"id":"GO:0098532","count":6},{"id":"GO:0080182","count":6},{"id":"GO:0010216","count":6},{"id":"GO:0007289","count":6}]},{"hash":"303182039609535814","title":"T cell activation and development","description":"This cluster centers on immune-related activities such as T cell costimulation and positive regulation of T cell proliferation, while also including broader developmental terms (multicellular organism development, CNS and skeletal system development, bone remodeling). This suggests a core function in T cell signaling with supplementary roles in developmental processes, hence a label focused on T cell activation linked to development.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031295","count":3},{"id":"GO:0050731","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0007417","count":2}]},{"hash":"2188171137988761127","title":"Bacterial Polymer and Envelope Biosynthesis","description":"This cluster shows strong enrichment for biosynthetic processes of bacterial polymers and envelope components, including lipopolysaccharide, colanic acid, and poly-hydroxybutyrate biosynthesis, suggesting a cohesive role in bacterial surface/mexp polysaccharide and storage polymer production; other terms (retinoid/lipid metabolism, transcription regulation, antibiotic response) appear ancillary. ","confidence":"Medium","size":27,"edges":8,"triangles":1,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":10},{"id":"GO:0046677","count":8},{"id":"GO:0042619","count":8},{"id":"GO:0009103","count":7},{"id":"GO:0042574","count":7}]},{"hash":"62235325150791049","title":"Redox Homeostasis and ER Protein Quality Control","description":"The cluster is dominated by GO terms related to maintaining redox balance and detoxifying oxidants (cell redox homeostasis, cellular oxidant detoxification), together with protein quality control in the endoplasmic reticulum (protein folding in ER and protein repair). There are also signals of transcriptional regulation (DNA-templated transcription, negative regulation of transcription by RNA Pol II), suggesting a stress-responsive regulatory program. A prolyl hydroxylation term hints at oxygen-dependent processes linked to redox state. Overall, these terms converge on oxidative stress response coupled with ER-associated protein maintenance.","confidence":"Medium","size":27,"edges":24,"triangles":9,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045454","count":15},{"id":"GO:0055114","count":14},{"id":"GO:0098869","count":13},{"id":"GO:0043388","count":9},{"id":"GO:0018401","count":8}]},{"hash":"723392945099714774","title":"Metabolic Biosynthesis and Xenobiotic Detoxification","description":"This cluster shows a mix of biosynthetic processes (menaquinone and antibiotic biosynthesis) and a range of catabolic/detoxification processes (stilbene, glucuronoside, and 1,2-dichloroethane catabolism; cellular oxidant detoxification), suggesting proteins involved in broad metabolism of small molecules, including production and degradation pathways. Confidence: Medium","confidence":"","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0098869","count":8},{"id":"GO:0009234","count":8},{"id":"GO:0017000","count":8},{"id":"GO:0046272","count":7}]},{"hash":"2301422177929065545","title":"Neutrophil chemotaxis and adhesion signaling","description":"The cluster shows strong enrichment for GO terms tied to immune cell movement and adhesion, notably neutrophil chemotaxis, integrin-mediated signaling, actin cytoskeleton reorganization, and substrate adhesion\u2013dependent spreading, indicating coordinated migration and adhesion during inflammatory responses. Some development-related terms appear but do not dominate the signal.","confidence":"High","size":27,"edges":38,"triangles":18,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071226","count":21},{"id":"GO:0032496","count":20},{"id":"GO:0030593","count":20},{"id":"GO:0007229","count":20},{"id":"GO:0060325","count":19}]},{"hash":"432912755692251446","title":"Cardiovascular signaling and metabolic regulation","description":"This cluster centers on GPCR-mediated signaling that influences blood pressure and heart development, with links to dopaminergic synaptic transmission and thermogenic/metabolic processes (diet-induced thermogenesis and electron transport chain activity). The co-occurrence of these GO terms suggests a coordinated program coordinating cardiovascular signaling with energy metabolism and neural signaling.","confidence":"High","size":27,"edges":55,"triangles":8,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":20},{"id":"GO:0010579","count":20},{"id":"GO:0022900","count":20},{"id":"GO:0019233","count":19},{"id":"GO:0071502","count":18}]},{"hash":"419601533354848529","title":"Thermogenic GPCR-cAMP signaling","description":"This cluster is dominated by terms tied to activating adenylate cyclase via G protein-coupled receptors, particularly in the context of thermogenesis and temperature response (diet-induced thermogenesis). The presence of GO terms for cellular response to temperature stimulus, activation of adenylate cyclase, and the electron transport chain indicates a coordinated metabolic and signaling program for energy expenditure. Additional terms like positive regulation of blood pressure and EGFR transactivation via GPCR signaling reflect autonomic/vascular regulation that often accompanies thermogenic and metabolic responses. A few terms like sensory perception of pain and saliva secretion point to broader physiological roles of GPCR signaling in diverse tissues but do not overturn the core thermogenic signaling theme. Overall, the cluster appears to capture GPCR-cAMP\u2013mediated metabolic regulation and thermogenesis.","confidence":"High","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":18},{"id":"GO:0002024","count":18},{"id":"GO:0045777","count":18},{"id":"GO:0010579","count":18},{"id":"GO:0022900","count":18}]},{"hash":"397192100107413377","title":"Vision and retina signaling","description":"Based on the top GO terms, the cluster is enriched for retina development, phototransduction, and visible light processing, along with related vision functions (visual learning) and circadian rhythm linked to retinal signaling. While there are immune/defense terms also listed, the strongest and most recurrent themes are eye/retina\u2013related processes, suggesting proteins that participate in vision and light-entrained signaling. Therefore this label captures the dominant functional theme, with some pleiotropic annotations likely causing secondary terms.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006955","count":10},{"id":"GO:0040015","count":10},{"id":"GO:0042742","count":10},{"id":"GO:0046849","count":10},{"id":"GO:0008542","count":10}]},{"hash":"1914342717983991708","title":"Cardiac development and morphogenesis with adhesion","description":"GO terms indicate strong emphasis on cardiac development (cardiac muscle tissue growth, ventricle morphogenesis, endocardial differentiation, aorta morphogenesis) and adhesion (heterophilic/homophilic cell-cell adhesion, cell-matrix adhesion). The combination suggests a cluster of proteins coordinating heart tissue formation through cell adhesion and morphogenetic processes.","confidence":"High","size":27,"edges":22,"triangles":2,"max_degree":7,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0007157","count":26},{"id":"GO:0007160","count":22},{"id":"GO:0014807","count":18},{"id":"GO:0055017","count":18},{"id":"GO:0045669","count":18}]},{"hash":"37610705322877891","title":"Dopaminergic signaling and neural plasticity","description":"The terms cluster around dopamine neurotransmission, cocaine-related behavioral responses, and neural processing (visual perception/learning), with supporting cues from calcium release and ERK signaling, all suggesting neuronal signaling and synaptic plasticity. A couple of terms (heart development, macrophage chemotaxis) are less related, but the core theme points to neural signaling.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051209","count":16},{"id":"GO:0007507","count":16},{"id":"GO:0001963","count":16},{"id":"GO:0048148","count":16},{"id":"GO:0071380","count":16}]},{"hash":"749860073604394784","title":"Cell Cycle and Cytoskeleton Regulation","description":"Dominant GO terms include mitotic cell cycle, mitotic spindle assembly, and cilium assembly, plus actin filament depolymerization and GTPase activity regulation. This points to coordinated control of cell division and cytoskeletal dynamics as the core theme; other terms like hypoxia response or splicing are peripheral.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":9},{"id":"GO:0060271","count":7},{"id":"GO:0030042","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0090307","count":7}]},{"hash":"731998859057821011","title":"DNA Damage Response and Innate Immunity","description":"The cluster centers on DNA repair (base-excision repair) and DNA damage\u2013related signaling, complemented by stress- and immune-related responses (inflammatory response, LPS signaling, gamma radiation response) and apoptosis, suggesting a combined DNA damage response with innate immune activation.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006284","count":7},{"id":"GO:0006954","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0071222","count":3},{"id":"GO:0006351","count":3}]},{"hash":"30015708870065004","title":"Embryonic Development and Organogenesis","description":"Top GO terms indicate broad embryonic development and organ formation across multiple tissues (placenta, palate, midbrain, ear, muscle, heart) and axis patterning. The shared theme is developmental differentiation and morphogenesis rather than a single pathway, suggesting these proteins represent general embryonic development programs.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0060707","count":9},{"id":"GO:0030901","count":8},{"id":"GO:0007519","count":7},{"id":"GO:0048839","count":7}]},{"hash":"1969791789548399461","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"The dominant GO terms center on actin filament bundle assembly, epithelial cell polarity, and cell migration, indicating a cluster of proteins involved in reorganizing the actin cytoskeleton to drive cell movement and tissue organization. Additional terms referencing calcium signaling, multicellular development, and cardiac cell communication suggest broader signaling roles, but the core signal is cytoskeletal rearrangement guiding migration and polarity.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":13},{"id":"GO:0090162","count":13},{"id":"GO:0016477","count":13},{"id":"GO:0010745","count":12},{"id":"GO:2000340","count":12}]},{"hash":"1362444527906719969","title":"Unknown","description":"The terms include metabolism (glucose import in response to insulin stimulus), neural processes (synaptic vesicle clustering, neuromuscular posture control), immune signaling (interferon-alpha/beta responses), intracellular trafficking (endosome to plasma membrane transport), biotic stimulus response, host defense against symbionts, and skeletal development (bone mineralization and morphogenesis). This broad, diverse set lacks a clear, single biological theme and there are no network connections among proteins, so a cohesive, specific label cannot be assigned.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044381","count":4},{"id":"GO:0097091","count":2},{"id":"GO:0035456","count":2},{"id":"GO:0035455","count":2},{"id":"GO:0099638","count":2}]},{"hash":"798419868266726091","title":"Developmental Growth and Cell Cycle Regulation","description":"The top GO terms are centered on developmental processes (multicellular organism growth, spinal cord development, negative regulation of angiogenesis) and core cell biology (cell division, mitotic segregation, DNA-templated transcription, ER-Golgi transport), suggesting proteins involved in coordinating growth and proliferation. Immune-related terms like defense response and phagocytosis are present but less dominant, so the overall theme appears to be development and cell-cycle regulation rather than a single immune pathway.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035264","count":4},{"id":"GO:0021510","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0051301","count":4}]},{"hash":"1528574162737002191","title":"Growth factor signaling and cytoskeletal remodeling","description":"Top GO terms center on responses to hepatocyte growth factor and TGF-\u03b2 signaling, together with processes that drive cell shape changes and movement, such as lamellipodium morphogenesis and neuron projection development. This points to a theme of growth-factor\u2013driven signaling influencing cytoskeletal dynamics and morphogenesis. Additional terms like tight junction assembly and peroxisome localization reflect broader effects on cellular architecture and trafficking that accompany signaling-driven remodeling. While the cluster covers diverse roles, the unifying connection appears to be signaling pathways that regulate cytoskeletal remodeling and cellular morphogenesis rather than a single specific process.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035728","count":25},{"id":"GO:1904694","count":25},{"id":"GO:2000394","count":25},{"id":"GO:0032005","count":25},{"id":"GO:0010976","count":25}]},{"hash":"1386181272808098964","title":"Adaptive immune response and phagocytosis","description":"Top GO terms indicate adaptive immune response, phagocytosis, and Fc receptor\u2013mediated signaling, with actin polymerization supporting phagocytic cytoskeletal rearrangements. While there are also ribosomal biogenesis and gland development terms present, the strongest, coherent signal is immune cell\u2013related functions and cytoskeletal remodeling, justifying this label.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":3},{"id":"GO:0006909","count":3},{"id":"GO:0060368","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0000027","count":2}]},{"hash":"729894837064687606","title":"Ubiquitin-Mediated Immune Signaling","description":"The cluster is dominated by ubiquitination-related processes (ubiquitin-dependent protein catabolic process; K33-linked ubiquitination) and immune pathways (innate immune response; B cell receptor signaling; dendritic cell differentiation), suggesting a cohesive theme of ubiquitin-driven immune signaling. Some terms like phototropism and gravitropism are plant-specific and may reflect annotation noise, but the core signal points to ubiquitin-mediated immune functions.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0045087","count":8},{"id":"GO:0009638","count":7},{"id":"GO:2001200","count":7},{"id":"GO:0070294","count":7}]},{"hash":"107953735911629610","title":"Heart and vascular development signaling","description":"The terms show a clear focus on cardiac and vascular formation, including Wnt signaling (calcium-modulating) and Notch signaling related to heart field cardioblast proliferation, cardiac right atrium morphogenesis, and venous endothelial differentiation, plus a link to mechanotransduction. While a couple of terms (complement activation, vitamin D response) are less specific, the dominant theme is cardiovascular development and its signaling pathways.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007205","count":5},{"id":"GO:0097284","count":5},{"id":"GO:0007223","count":5},{"id":"GO:0003213","count":4},{"id":"GO:0071260","count":4}]},{"hash":"2173998393196063945","title":"Multiorgan Development and Signaling","description":"The cluster shows pervasive developmental terms across multiple organs (retina, heart, glomerulus, nipple, lung, enteric nervous system) and neural signaling (neuropeptide signaling, locomotory behavior), plus stress/immune responses (inflammatory response, response to xenobiotic stimulus), suggesting a broad organogenesis and signaling theme rather than a single tissue.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060041","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0060658","count":10},{"id":"GO:0042493","count":10},{"id":"GO:0072224","count":10}]},{"hash":"1743905654592003879","title":"GPCR Signaling and Regulation","description":"This cluster is dominated by GO terms tied to G protein-coupled receptor (GPCR) signaling, particularly acetylcholine and tachykinin receptor pathways, and regulation of opsin signaling, with additional downstream effects on GTPase activity. A translation term and development-related terms appear but are less central, suggesting the core function is GPCR signaling and its regulation in diverse cellular contexts.","confidence":"High","size":26,"edges":43,"triangles":38,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007213","count":7},{"id":"GO:0043547","count":5},{"id":"GO:0006412","count":4},{"id":"GO:0010070","count":4},{"id":"GO:0045444","count":4}]},{"hash":"132979485281362817","title":"Developmental transcriptional regulation","description":"Most frequent terms center on transcription by RNA polymerase II and its negative regulation, paired with diverse developmental processes such as palate, uterine epithelium, muscle, kidney (ureteric bud), spinal cord, and retina development, suggesting a shared function in regulating gene expression during development.","confidence":"High","size":26,"edges":32,"triangles":8,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":24},{"id":"GO:0000122","count":23},{"id":"GO:0006366","count":19},{"id":"GO:0014807","count":18},{"id":"GO:0035847","count":18}]},{"hash":"213237344053764024","title":"Neuronal development and learning signaling","description":"Based on the prominent Terms: central nervous system neuron development and associative learning, the cluster points to neural development and learning-related processes. Regulatory signaling terms (NF-kappaB and JNK cascades) further support signaling activity relevant to neurons. Some immune or non-neural terms appear but are likely due to shared pathways rather than a single tissue-specific function. Overall, the dominant theme is neural development with learning-related signaling.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021954","count":5},{"id":"GO:0043124","count":5},{"id":"GO:0046330","count":4},{"id":"GO:0048538","count":4},{"id":"GO:0051092","count":4}]},{"hash":"171871936432524965","title":"Post-transcriptional RNA processing and splicing","description":"The top terms cluster around mRNA processing, stability, and spliceosome-mediated splicing (cis and alternative), plus related post-transcriptional regulatory processes (miRNA-mediated silencing, ribonucleoprotein assembly). This points to a coherent theme of RNA maturation and post-transcriptional gene regulation.","confidence":"High","size":26,"edges":324,"triangles":2576,"max_degree":25,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":20},{"id":"GO:0006378","count":17},{"id":"GO:1901407","count":16},{"id":"GO:0045292","count":16},{"id":"GO:0000380","count":15}]},{"hash":"2300463053990259166","title":"Unknown","description":"Top terms span diverse processes\u2014from signaling (GTPase regulation, calcium release, dopamine secretion, prostaglandin response) and protein transport to immune response and metabolism (thermogenesis)\u2014with an outlier peptidoglycan catabolism. No single coherent function emerges, so a concise label cannot be assigned.","confidence":"","size":26,"edges":25,"triangles":0,"max_degree":25,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0006886","count":3},{"id":"GO:0006955","count":3},{"id":"GO:0051209","count":3}]},{"hash":"2067496213292179776","title":"Chromatin and rRNA Methylation Machinery","description":"The cluster shows strong enrichment for methylation-related GO terms (rRNA methylation, histone methylation, peptidyl-lysine methylation, N-terminal glycine methylation) and chromatin-associated processes (rDNA heterochromatin formation), suggesting a cohort of methyltransferases involved in chromatin regulation and ribosome modification. While other terms like proteolysis and growth-related processes appear, they are secondary to the core methylation theme.","confidence":"High","size":26,"edges":34,"triangles":6,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0031167","count":8},{"id":"GO:0000183","count":7},{"id":"GO:0018027","count":7},{"id":"GO:0018013","count":6},{"id":"GO:0018023","count":6}]},{"hash":"172901779690419255","title":"Proteostasis and Misfolded Protein Response","description":"This cluster is dominated by terms related to protein folding/unfolding, misfolded protein handling, and stress-induced protein quality control (including inclusion body assembly and heat/cadmium stress responses). Additional terms point to proteostasis-related processes such as peroxisomal protein import and turnover (SCF complex disassembly). The occasional outliers (e.g., DNA replication) likely reflect multifunctional proteins rather than a core pathway. Overall, the theme is proteostasis under stress.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":12},{"id":"GO:0051260","count":12},{"id":"GO:0090261","count":11},{"id":"GO:0001824","count":11},{"id":"GO:0071218","count":11}]},{"hash":"495506056307320777","title":"Embryonic development and organ morphogenesis","description":"The cluster is dominated by GO terms pointing to developmental processes across multiple tissues (eye, pancreas, pituitary, skeletal muscle, ureteric bud), neural crest migration, and motor neuron guidance, indicating a broad developmental/morphogenetic theme. The presence of transcription-related terms (transcription by RNA polymerase II and negative regulation of transcription by RNA Pol II) suggests coordinated gene regulation during these developmental programs. Overall, the proteins appear to function in embryonic tissue formation and organ specification rather than a single tissue-specific role.","confidence":"High","size":26,"edges":25,"triangles":0,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0001755","count":10},{"id":"GO:0048048","count":9},{"id":"GO:0048557","count":9},{"id":"GO:0090190","count":9}]},{"hash":"1601070805302028247","title":"Neural development and signaling","description":"Reasoning: Many top terms point to neural development and function (axonogenesis, Schwann cell development, excitatory postsynaptic potential, visual perception). Other terms like heart development and multicellular organism development hint at broader developmental roles, and cell-cycle terms may reflect general proliferation during development. Overall, the dominant theme is neural development and signaling.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":13},{"id":"GO:0007507","count":12},{"id":"GO:0007275","count":12},{"id":"GO:0000086","count":11},{"id":"GO:0007409","count":11}]},{"hash":"1502372303217673833","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around nervous system development, dendritic spine morphogenesis, and key developmental signaling pathways (Hedgehog/Smo and Roundabout/Robo), pointing to a cohesive neural development and synaptic formation module. While some terms touch broader development (angiogenesis, bone ossification, kidney development) the strongest signals are neural-focused, supporting a neural development/synaptic function theme.","confidence":"High","size":26,"edges":306,"triangles":2168,"max_degree":25,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007399","count":8},{"id":"GO:0001525","count":8},{"id":"GO:0007275","count":8},{"id":"GO:0001822","count":6},{"id":"GO:0007224","count":6}]},{"hash":"2111008385690324427","title":"Axonogenesis and Schwann cell development","description":"The dominant GO terms are about axon growth and guidance (axonogenesis, positive regulation of axon extension and regeneration, fasciculation of sensory neuron axons) and Schwann cell development, indicating a neural development and nerve wiring theme. Receptor clustering and substrate adhesion-dependent spreading further support neuron-glia interactions during axon pathfinding. Some apoptotic cell recognition/engulfment and subtelomeric heterochromatin formation terms appear ancillary. Overall, the cluster seems centered on neural development and axon guidance with glial involvement.","confidence":"High","size":26,"edges":30,"triangles":38,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045773","count":9},{"id":"GO:0043113","count":8},{"id":"GO:0014044","count":8},{"id":"GO:0097155","count":8},{"id":"GO:0048680","count":8}]},{"hash":"1957812338484392246","title":"Craniofacial and inner ear development","description":"The top GO terms point to embryonic programs that shape craniofacial structures and sensory organs: inner ear development, semicircular canal formation, neural crest cell migration, odontogenesis, palate/roof of the mouth development, and cartilage formation. Additional terms like primitive streak formation and digestive tract development reflect broader embryogenesis, while negative regulation of transcription by RNA polymerase II hints at regulatory processes during these developmental events. Altogether, these proteins likely function together in craniofacial and sensory organ formation.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0048839","count":7},{"id":"GO:0001755","count":6},{"id":"GO:0090009","count":6},{"id":"GO:0048565","count":6}]},{"hash":"2066402703042916655","title":"Gene expression and translation regulation","description":"This cluster is enriched for translation-related processes (translation, tRNA modification, glycyl-tRNA aminoacylation) and for transcriptional regulation, with additional signals from NF-kappaB signaling and cell-cycle terms. The combination suggests proteins involved in core gene expression control and protein synthesis, rather than a single specialized pathway; heart development is noted but likely reflects broader regulatory roles rather than a shared function across all members. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0007049","count":2}]},{"hash":"114687639039999188","title":"Mitotic spindle and kinetochore regulation","description":"The top GO terms cluster around mitosis: cell cycle progression, mitotic cytokinesis checkpoint signaling, chromosome passenger complex localization to the spindle midzone, and attachment of spindle microtubules to kinetochores, plus kinetochore localization and actomyosin ring maturation. A few terms reference MAPK/T cell signaling, but the dominant signal is mitotic spindle dynamics and chromosome segregation, suggesting proteins coordinating mitosis and cytokinesis.","confidence":"High","size":26,"edges":323,"triangles":2553,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":21},{"id":"GO:0000200","count":21},{"id":"GO:0050860","count":21},{"id":"GO:0034501","count":18},{"id":"GO:0045736","count":18}]},{"hash":"1291764197544880851","title":"Neural development and synaptic signaling","description":"The cluster shows strong enrichment for nervous system development, hippocampus development, excitatory postsynaptic potential, dopamine response, and MAPK signaling (ERK/JNK), with PI3K-related activity and protein stability regulation. While mitotic cell cycle terms appear, the dominant theme is neuronal differentiation and synaptic function, consistent with dopaminergic signaling and hippocampal plasticity.","confidence":"High","size":26,"edges":7,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":21},{"id":"GO:0007399","count":21},{"id":"GO:0043552","count":20},{"id":"GO:0060079","count":20},{"id":"GO:0046330","count":20}]},{"hash":"1831882150681745831","title":"Heart development and hypoxia/NO signaling","description":"GO terms indicate a cardiovascular development and signaling focus, tied to heart development, vascular maintenance, oxygen transport, hypoxia response, and nitric oxide biosynthesis. Additional oxidative stress response and ECM remodeling terms suggest heart/vasculature remodeling under stress. This combination supports a cardiovascular development with NO signaling and hypoxia response module.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":3},{"id":"GO:0051291","count":3},{"id":"GO:0042542","count":2},{"id":"GO:0032966","count":2},{"id":"GO:0010764","count":2}]},{"hash":"1206215735132695373","title":"Renal Development and Urinary System Function","description":"This cluster is anchored by terms tied to kidney and urinary tract development and function, including renal sodium ion absorption, urinary bladder development, and ureteric bud branching morphogenesis, along with prostaglandin biosynthesis and apoptosis pathways that often accompany organ formation and regulation. While a few terms (e.g., circadian regulation, respiratory system process) are less directly tied, the dominant renal-related terms suggest a coherent focus on kidney/urinary system development and function.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007565","count":3},{"id":"GO:0070294","count":2},{"id":"GO:0003016","count":2},{"id":"GO:0032922","count":2},{"id":"GO:0090190","count":2}]},{"hash":"259687874557389434","title":"Inflammation and ECM remodeling","description":"The top GO terms suggest a unit where inflammatory signaling (monocyte activation; cellular responses to TNF and IL-1) coexists with extracellular matrix production/remodeling (collagen fibril organization, collagen biosynthesis) and integrin-mediated signaling, pointing to immune-ECM interplay that could relate to cartilage/connective tissue dynamics; metabolic support like L-serine biosynthesis may underpin these anabolic processes.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006564","count":6},{"id":"GO:0042117","count":6},{"id":"GO:0071356","count":6},{"id":"GO:0071347","count":6},{"id":"GO:0055114","count":5}]},{"hash":"404125421109445182","title":"Mitosis and cell-cycle regulation","description":"The cluster is dominated by terms about mitosis and cycle progression: protein localization to the kinetochore, negative regulation of CDK activity, G1/S and G2/M transitions, and mitotic cytokinesis checkpoint signaling, which together define a core cell-cycle control program. Additional terms on DNA-templated transcription and embryonic development fit with coordinated gene expression during division and development, while circadian rhythm reflects timing aspects often linked to cell-cycle regulation. Overall, the strongest signal is mitosis and cell-cycle control.","confidence":"High","size":26,"edges":295,"triangles":2000,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034501","count":19},{"id":"GO:0045736","count":17},{"id":"GO:0006351","count":13},{"id":"GO:0000082","count":13},{"id":"GO:0001701","count":12}]},{"hash":"1932396372256900386","title":"Plant cell wall glycoprotein biosynthesis and root hair development","description":"This cluster is dominated by plant-specific processes: arabinogalactan protein (AGP) metabolism, mucilage biosynthesis for seed coats, root hair cell development, and O-linked glycosylation via hydroxyproline, all pointing to hydroxyproline-rich glycoproteins and their extracellular matrix roles in plant development. While a few GO terms are related to insect structures or broader infection-related processes, the recurring theme centers on plant cell wall glycoproteins and their biosynthetic pathways.","confidence":"High","size":26,"edges":183,"triangles":662,"max_degree":25,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0075015","count":11},{"id":"GO:0018258","count":7},{"id":"GO:0080147","count":7},{"id":"GO:0007299","count":7},{"id":"GO:0030311","count":7}]},{"hash":"2089972724772775330","title":"Cardio-metabolic GPCR-cAMP Signaling","description":"The cluster centers on adrenergic receptor\u2013activated cAMP signaling with cardiovascular relevance (heart development, blood pressure regulation, coagulation) and metabolic/thermogenic responses (thermogenesis, temperature stimulus), plus related signaling process regulation (GTPase activity, phosphatidylinositol biosynthesis), indicating a cohesive cardiovascular-metabolic signaling module.","confidence":"Medium","size":26,"edges":55,"triangles":23,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007603","count":19},{"id":"GO:0043950","count":19},{"id":"GO:0007507","count":19},{"id":"GO:0071502","count":19},{"id":"GO:0071880","count":19}]},{"hash":"278776575054607397","title":"Dopaminergic Synaptic Signaling and Cocaine Response","description":"This cluster centers on dopamine-mediated synaptic signaling and cocaine-related behavior, reinforced by ERK pathway regulation and phosphorylation; vision and pain terms point to broader sensory-neural roles, but the dominant theme is dopaminergic signaling in reward and behavior.","confidence":"High","size":26,"edges":35,"triangles":0,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071380","count":16},{"id":"GO:0019233","count":16},{"id":"GO:0007507","count":15},{"id":"GO:0006468","count":15},{"id":"GO:0001963","count":15}]},{"hash":"569193139532954146","title":"Dopaminergic signaling and sensory perception","description":"This cluster is dominated by neural-related processes: dopaminergic synaptic transmission, ERK signaling modulation, visual perception/learning, and behavioral responses to drugs such as cocaine and morphine, along with sensory perception of pain. These collectively point to neuropharmacology and sensory processing as the core theme, with a few outliers like heart development and macrophage chemotaxis likely reflecting broader developmental links rather than the main function of the cluster.","confidence":"High","size":26,"edges":89,"triangles":39,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":25},{"id":"GO:0071380","count":25},{"id":"GO:0001963","count":24},{"id":"GO:0048148","count":24},{"id":"GO:0010759","count":24}]},{"hash":"1674380343212149330","title":"Thermal and Sensory Response Proteins","description":"This cluster is driven by GO terms for cellular responses to temperature and thermogenesis, as well as sensory modalities like pain and touch, plus signaling such as membrane potential regulation and calcium signaling. The combination suggests proteins coordinating environmental sensing with physiological responses, including skin and muscle-related processes.","confidence":"Medium","size":26,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071502","count":11},{"id":"GO:0002024","count":11},{"id":"GO:0019233","count":11},{"id":"GO:0042391","count":9},{"id":"GO:0050976","count":9}]},{"hash":"177734193706310117","title":"Neuronal ion transport and synaptic plasticity","description":"This cluster is dominated by GO terms tied to neuronal signaling: multiple ion transmembrane transports (Ca2+ import, Na+/K+/Cl\u2212 transport), excitatory postsynaptic potentials, and long-term potentiation, all central to synaptic transmission and plasticity. Startle response and circadian sleep/wake regulation further support a neural function theme. The ossification term is likely from a gene with multiple roles beyond bone biology, rather than a core driver of this cluster\u2019s function. Overall, the proteins appear to cluster around neuronal signaling and synaptic plasticity mechanisms.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001964","count":8},{"id":"GO:0060079","count":7},{"id":"GO:0045188","count":7},{"id":"GO:0098703","count":7},{"id":"GO:0071805","count":7}]},{"hash":"34072513704796952","title":"Growth factor signaling and smooth muscle migration","description":"Most terms describe growth factor\u2013 and receptor-mediated signaling (PDGF, insulin, TGF-beta, integrin pathways) activating ERK and calcium signaling, with a note on smooth muscle cell migration. This points to a coherent theme of signal transduction driving cell movement and remodeling, rather than a single metabolic process. Therefore, Growth factor signaling and smooth muscle migration.","confidence":"Medium","size":26,"edges":8,"triangles":0,"max_degree":5,"top_function":"wound healing","top_go_terms":[{"id":"GO:0071226","count":12},{"id":"GO:0071560","count":10},{"id":"GO:0043552","count":9},{"id":"GO:0032869","count":9},{"id":"GO:0046676","count":9}]},{"hash":"905507353511926937","title":"Cardiac development and signaling","description":"The proteins cluster around heart-related processes, including heart development, regulation of cardiac muscle cell proliferation, and signaling pathways like Hippo and Wnt, plus potassium ion transport and VEGF/vascular responses. Although some terms extend to other cell types (e.g., keratinocyte differentiation), the dominant pattern is cardiac growth, development, and associated signaling networks, so this label best captures the cluster\u2019s theme.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006915","count":21},{"id":"GO:0035329","count":21},{"id":"GO:0060044","count":21},{"id":"GO:0090263","count":21},{"id":"GO:0030216","count":21}]},{"hash":"1190422968235068112","title":"Immune signaling and cytoskeletal remodeling","description":"The cluster\u2019s GO terms converge on innate and adaptive immune signaling (innate immune response, inflammatory response, B cell receptor signaling, NOD2 signaling) and connect to cytoskeletal processes (actin filament bundle assembly) and ubiquitination, suggesting a group of proteins coordinating immune activation with cytoskeletal dynamics.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":7},{"id":"GO:0032088","count":5},{"id":"GO:0050853","count":5},{"id":"GO:0070431","count":5},{"id":"GO:0051017","count":5}]},{"hash":"1179587115895846307","title":"Neuronal development and mitochondrial dynamics","description":"The top terms cluster around neuronal growth and development (neuron projection and CNS neuron development, microtubule bundle formation) and mitochondrial dynamics (intracellular distribution of mitochondria, negative regulation of mitochondrial fission, and regulation of protein localization to mitochondria), with supporting neuron-signaling pathways. This suggests a cohesive theme of neurons growing with coordinated mitochondrial organization and signaling. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":5},{"id":"GO:0048312","count":5},{"id":"GO:0010739","count":4},{"id":"GO:0021954","count":4},{"id":"GO:1903748","count":4}]},{"hash":"814355241430544958","title":"Brain and Eye Development","description":"The cluster is dominated by neural and ocular development terms: brain development, forebrain development, midbrain development, and camera-type eye development, with supporting multicellular organism development terms. Some outliers (fertilization, gonad development, immune response, transcription regulation) are less central, but the core signal points to neural-ocular developmental processes.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0007338","count":5},{"id":"GO:0008584","count":5},{"id":"GO:0030901","count":5},{"id":"GO:0035264","count":5}]},{"hash":"283594576881810487","title":"Neuronal signaling and brain development","description":"Top terms point to neuronal signaling and brain development: excitatory postsynaptic potential, calcium-mediated signaling, and GPCR pathway activity are central to synaptic transmission and neural growth. Additional associations with morphine response, Ras signaling, and cytokine/immune-related terms suggest downstream signaling cross-talk, but the dominant theme remains neural communication and brain development.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060079","count":11},{"id":"GO:0043278","count":11},{"id":"GO:0007420","count":10},{"id":"GO:0010764","count":9},{"id":"GO:0030307","count":9}]},{"hash":"325119855179479451","title":"Neural development and myelination","description":"This cluster is dominated by terms tied to nervous system formation and maintenance\u2014myelination, paranodal junction assembly, axonal fasciculation, and synapse assembly\u2014with supporting signals for mechanosensory perception (sound). The presence of innate immune and complement-related terms suggests some neuroimmune activity, but the primary theme centers on neural development and myelination.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0014068","count":11},{"id":"GO:0006958","count":11},{"id":"GO:0045087","count":11},{"id":"GO:0042552","count":10},{"id":"GO:0030913","count":10}]},{"hash":"1739768242046435301","title":"Cardiac muscle contraction and sarcomere regulation","description":"The prominent GO terms center on cardiac muscle contraction, sarcomere organization and regulation, and heart rate modulation, indicating a cluster aligned with cardiac muscle structure and electrophysiology. Additional terms on membrane potential and potassium transport support ion-channel\u2013linked control of cardiac excitability, while a vascular smooth muscle regulation signal suggests broader cardiovascular involvement.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904753","count":15},{"id":"GO:1904706","count":15},{"id":"GO:0045214","count":14},{"id":"GO:0034609","count":14},{"id":"GO:0003065","count":14}]},{"hash":"654081823187612877","title":"Developmental morphogenesis and ECM remodeling","description":"The proteins in this cluster are enriched for developmental processes (roof of mouth development, pancreatic cell development, multicellular organism development, EMT in endocardial cushion formation) alongside extracellular matrix remodeling and signaling (proteolysis, cell-matrix adhesion, BMP signaling, axonal fasciculation, synapse assembly, response to mechanical stimulus). This combination suggests a cohesive theme of vertebrate morphogenesis driven by ECM remodeling and developmental signaling, affecting cell adhesion, movement, and differentiation.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0006508","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0060021","count":5},{"id":"GO:0003323","count":5},{"id":"GO:0007275","count":5}]},{"hash":"236264755859601623","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by GO terms related to ribosome assembly and biogenesis, rRNA maturation, and core translation processes (translation, translational fidelity, termination), indicating proteins involved in ribosome production and the protein synthesis machinery.","confidence":"High","size":25,"edges":294,"triangles":2167,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":22},{"id":"GO:0000027","count":8},{"id":"GO:0046677","count":4},{"id":"GO:0042273","count":2},{"id":"GO:0071353","count":2}]},{"hash":"1618066077714714529","title":"Spliceosome-Mediated mRNA Splicing","description":"Most terms point to mRNA processing by the spliceosome, including both cis- and alternative splicing, plus related post-transcriptional regulation (mRNA stabilization and miRNA-mediated control). A cluster dominated by spliceosome components and RNA processing factors, with hints of processing complex assembly, suggests labeling it as spliceosome-driven mRNA splicing and regulation.","confidence":"High","size":25,"edges":285,"triangles":2025,"max_degree":24,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":18},{"id":"GO:0006378","count":13},{"id":"GO:1901407","count":13},{"id":"GO:0000380","count":12},{"id":"GO:0001825","count":12}]},{"hash":"1784224553030460606","title":"RNA processing, splicing, and silencing regulation","description":"The cluster centers on post-transcriptional RNA regulation: multiple terms point to spliceosome-mediated splicing control (alternative splicing, spliceosome regulation, small-subunit processome assembly), ncRNA/miRNA-mediated gene silencing, and mRNA stability. This suggests a cohesive group of proteins involved in RNA processing, splicing regulation, and RNA-mediated gene expression control, with some developmental relevance (blastocyst formation) and translation-related regulation (viral termination-reinitiation) that fit into broader post-transcriptional regulation. ","confidence":"High","size":25,"edges":196,"triangles":815,"max_degree":22,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":17},{"id":"GO:0048026","count":16},{"id":"GO:0000380","count":13},{"id":"GO:0010610","count":13},{"id":"GO:0000381","count":13}]},{"hash":"1448715018283658583","title":"Oxidative stress response and adipose-vascular development","description":"The top GO terms cluster redox detoxification and redox homeostasis with triglyceride metabolism and fat cell differentiation, plus endothelial development and angiogenesis, suggesting a coherent theme where oxidative stress control interfaces with adipose tissue formation and vascular development. Some terms (e.g., response to selenium ion, response to symbiotic bacterium) may reflect broader stress signaling, but the dominant pattern ties redox balance to adipogenesis and angiogenesis.","confidence":"Medium","size":25,"edges":291,"triangles":2129,"max_degree":24,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0098869","count":11},{"id":"GO:0045454","count":8},{"id":"GO:0006641","count":6},{"id":"GO:0045444","count":5},{"id":"GO:0010269","count":5}]},{"hash":"704409043267906836","title":"Golgi-ER transport and SNARE-mediated vesicle fusion","description":"The cluster is dominated by GO terms for ER-to-Golgi and intra-Golgi vesicle transport, Golgi ribbon formation, vesicle fusion, and SNARE complex assembly, indicating a core role in SNARE-driven vesicle trafficking through the Golgi-ER system; additional terms touch on synaptic vesicle exocytosis and postsynaptic receptor insertion, suggesting a broader link to exocytic membrane fusion in neurons.","confidence":"High","size":25,"edges":49,"triangles":25,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0048280","count":11},{"id":"GO:0006891","count":10},{"id":"GO:0090161","count":10},{"id":"GO:0006888","count":10},{"id":"GO:0042147","count":9}]},{"hash":"788676267273090468","title":"Ribosome Biogenesis and RNA Processing","description":"The cluster is dominated by GO terms for rRNA maturation (LSU/SSU and 5.8S), ribosomal large subunit biogenesis, and mRNA splicing via the spliceosome, with additional RNA regulatory activities (ncRNA-mediated gene silencing). This points to a core theme of RNA maturation and assembly into ribosomes, complemented by RNA processing pathways. Some chromatin-related terms appear but seem ancillary. Overall, the proteins appear tied to ribosome biogenesis and RNA metabolism.","confidence":"High","size":25,"edges":290,"triangles":2115,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000463","count":24},{"id":"GO:0000466","count":24},{"id":"GO:0016584","count":24},{"id":"GO:0048026","count":24},{"id":"GO:0042273","count":24}]},{"hash":"1078175023438538006","title":"Embryonic organogenesis and neural development","description":"These terms strongly cluster around embryogenesis and organ formation, particularly neural development (peripheral nervous system, neural crest migration, hypothalamus/habenula development) and the formation of various organs (heart, eye, placenta, hindlimb), with primitive streak formation highlighting early developmental patterning. The inclusion of a broad transcriptional regulation term fits a developmental program orchestrating gene expression during embryogenesis, supporting a cohesive theme of embryonic patterning and neural lineage development.","confidence":"High","size":25,"edges":110,"triangles":111,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":16},{"id":"GO:0090009","count":13},{"id":"GO:0048935","count":13},{"id":"GO:0021986","count":12},{"id":"GO:0007507","count":11}]},{"hash":"678166389603093372","title":"Ribosome Biogenesis and Translation Machinery","description":"The terms are strongly centered on translation and ribosome biogenesis (translation, cytoplasmic translation, ribosome biogenesis, ribosomal subunit biogenesis, tRNA modification), with additional links to cell cycle. This points to a cluster of proteins involved in ribosome assembly and protein synthesis, rather than other pathways.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0042254","count":6},{"id":"GO:0051301","count":4},{"id":"GO:0042274","count":3},{"id":"GO:1901001","count":3}]},{"hash":"1502133105577843394","title":"Ubiquitin-Mediated Immune and Developmental Regulation","description":"Based on the top GO terms, the cluster centers on ubiquitin-dependent protein turnover and deubiquitination (K48, K11, mono-ubiquitination), with strong links to innate immune response and several developmental processes (heart development, lymph vessel morphogenesis, osteoblast differentiation). The common theme is regulation of signaling and protein fate via ubiquitination that influences immune function and development, making this label both specific and representative.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006511","count":4},{"id":"GO:0071108","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0043029","count":4}]},{"hash":"2178683235305038023","title":"mRNA Processing and Export Regulation","description":"These proteins cluster around post-transcriptional RNA handling: mRNA splicing via the spliceosome, polyadenylation, mRNA stabilization, export from the nucleus, and components of the small-subunit processome. They also include factors involved in translation control and miRNA-mediated silencing, highlighting a cohesive theme of RNA maturation and regulation of mRNA fate, both cellular and viral. Confidence reflects a strong, consistent connection to post-transcriptional mRNA processing and export.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":5},{"id":"GO:0075522","count":4},{"id":"GO:0000380","count":3},{"id":"GO:0001825","count":3},{"id":"GO:0075525","count":3}]},{"hash":"652920174699327939","title":"Nervous system development and signaling","description":"The cluster is dominated by GO terms related to nervous system development (and associated signaling pathways): nervous system development, Hedgehog/Smoothened and Slit-Robo signaling, ERK cascade, synapse assembly, and myelination, with dopamine response suggesting neural signaling context. While kidney development appears, the recurring theme centers on neural development and neuronal signaling processes. This suggests a coherent neural development/synaptic signaling role for the proteins.","confidence":"High","size":25,"edges":29,"triangles":0,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001822","count":13},{"id":"GO:0007399","count":13},{"id":"GO:0043552","count":12},{"id":"GO:0070374","count":12},{"id":"GO:0007224","count":12}]},{"hash":"637094426583741711","title":"Growth-factor signaling and inflammatory responses","description":"The top GO terms point to cellular responses to a variety of stimuli, notably multiple growth-factor signals (TGF-beta, PDGF, insulin, retinoic acid, M-CSF) alongside immune/inflammatory cues (neutrophil chemotaxis, response to fungal origin). The presence of a developmental term (branching involved in mammary gland duct morphogenesis) and calcium release regulation further supports a role in integrated signaling in response to external cues and development. Taken together, this cluster appears to represent broad stimulus-driven signaling with inflammatory involvement rather than a single narrow function.","confidence":"Medium","size":25,"edges":250,"triangles":1379,"max_degree":24,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071226","count":22},{"id":"GO:0071560","count":20},{"id":"GO:0030593","count":20},{"id":"GO:0043552","count":20},{"id":"GO:0060444","count":20}]},{"hash":"2051096627973411893","title":"Golgi and endosome trafficking in development","description":"This cluster is dominated by Golgi-to-plasma membrane and endosome transport terms (Golgi localization, transport between Golgi and endosomes) plus protein localization to the Golgi, suggesting a core role in intracellular trafficking. The presence of Hedgehog signaling (Smoothened pathway) and neural development terms (neural tube patterning, nervous system development) indicates these trafficking proteins support developmental signaling and tissue patterning. Additional terms related to kidney development and wound healing imply broader roles in developmental processes and cell remodeling. Taken together, the proteins likely function in coordinating Golgi/endosome trafficking with developmental signaling.","confidence":"Medium","size":25,"edges":31,"triangles":6,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043001","count":7},{"id":"GO:0051301","count":7},{"id":"GO:0001822","count":7},{"id":"GO:0048227","count":7},{"id":"GO:0007224","count":7}]},{"hash":"2107340209745749414","title":"Ubiquitin-Dependent Proteolysis and Cell Cycle Control","description":"The cluster is dominated by ubiquitin-related processes (ubiquitin-dependent protein catabolic process, proteolysis, K48-linked deubiquitination) and cell cycle regulation (negative regulation of G2/M transition, meiosis I), suggesting tight control of protein turnover linked to cell division. Developmental signals (blastocyst development) and transcription/translation regulation appear as connected themes, indicating this group may coordinate degradation with cell cycle progression and early development. Overall, a coherent theme is ubiquitin-mediated proteolysis coupled to cell cycle control and development.","confidence":"High","size":25,"edges":13,"triangles":0,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006511","count":5},{"id":"GO:0008283","count":4},{"id":"GO:0007127","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0010972","count":3}]},{"hash":"190965153649548221","title":"Pollen exine formation and anther dehiscence","description":"GOs point to pollen exine formation and anther dehiscence as dominant themes, with protein N-linked glycosylation suggesting secretory pathway involvement in pollen wall assembly. Some nucleotide sugar catabolic terms may reflect general metabolism or annotation noise, but the recurrent plant reproductive terms support the label.","confidence":"High","size":25,"edges":284,"triangles":1969,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0010584","count":11},{"id":"GO:0046706","count":11},{"id":"GO:0006256","count":11},{"id":"GO:0071405","count":11},{"id":"GO:0009901","count":11}]},{"hash":"2224604925239662909","title":"Thermal sensing and visual signaling","description":"This cluster is dominated by GO terms for temperature stimulus response and vision-related processes (cellular response to temperature stimulus, visual perception, retina development), along with GPCR-cGMP signaling and membrane potential regulation, suggesting proteins involved in sensory signaling that spans thermosensation and vision. Additional terms for circadian rhythm and vasopressin-mediated processes fit into broader regulatory signaling connected to sensory systems, supporting a cohesive theme of sensory perception and GPCR-driven signaling.","confidence":"High","size":25,"edges":178,"triangles":548,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":24},{"id":"GO:0007199","count":24},{"id":"GO:0042391","count":24},{"id":"GO:0002024","count":24},{"id":"GO:0007601","count":24}]},{"hash":"1263021918283391809","title":"Vasopressin GPCR Signaling and Blood Pressure Regulation","description":"The cluster is strongly enriched for GO terms related to blood pressure control and GPCR-cAMP signaling, including positive regulation of blood pressure, vasopressin-mediated regulation of arterial pressure, activation of adenylate cyclase, and Rho-mediated signal transduction, which together point to vasopressin-receptor pathways modulating vascular tone. Some terms also touch on smooth muscle contraction and signaling, reinforcing a cardiovascular/regulatory theme. A few metabolism-related terms appear (electron transport chain, diet-induced thermogenesis), likely reflecting broader energetic roles of these proteins or co-expression, but they do not override the dominant BP-regulatory signal. Confidence: High","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":20},{"id":"GO:0010579","count":20},{"id":"GO:0022900","count":20},{"id":"GO:0071502","count":19},{"id":"GO:0002024","count":19}]},{"hash":"1257000984351055394","title":"Axon Guidance and Synapse Assembly","description":"This cluster centers on neural development with strong signals for axon pathfinding (semaphorin-plexin signaling, axon guidance, fasciculation, branchiomotor neuron guidance, sympathetic projection) and synapse assembly, plus related processes like cell adhesion and myelination, suggesting proteins coordinating neuron connectivity and maturation.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":15},{"id":"GO:0051965","count":15},{"id":"GO:0007413","count":15},{"id":"GO:0007157","count":15},{"id":"GO:1902287","count":14}]},{"hash":"641130199618873528","title":"Mitotic cell division and spindle assembly","description":"This cluster is dominated by GO terms linked to mitosis and chromosome segregation (cell division, mitotic cell cycle, mitotic spindle assembly, protein localization to kinetochore), with supporting signals from spindle- and trafficking-related processes (Golgi organization, intracellular protein transport) and regulator pathways (ERK cascade, GTPase activity). The overall theme appears to be mitotic progression and spindle/kinetochore functions, with some ancillary transport/regulatory roles.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0006886","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0070374","count":3}]},{"hash":"2302229630286903589","title":"Actin Cytoskeleton Remodeling and Motility","description":"The cluster is driven by GO terms centered on actin cytoskeleton organization, lamellipodium assembly, and regulation/activation of Rho GTPase signaling, which together point to dynamic actin remodeling and cell movement. While some terms (sensory perception of sound, catecholamine secretion, B cell homeostasis) are more tangential, the dominant theme across the top terms is actin-driven cytoskeletal dynamics and motility.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007605","count":6},{"id":"GO:0030036","count":6},{"id":"GO:0050432","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0016126","count":5}]},{"hash":"1823436916971787085","title":"Adaptive and Innate Immune Activation","description":"The top GO terms point to both adaptive (T cell costimulation, B cell receptor signaling, regulation of B cell activation) and innate immune processes (innate immune response, phagocytosis recognition/engulfment, classical complement activation). Additional terms related to cell adhesion and synapse assembly support immunological interactions and signaling between immune cells. Together, these indicate a cluster of proteins involved in broad immune activation across both adaptive and innate arms, with phagocytic and complement-related activities also represented.","confidence":"High","size":25,"edges":13,"triangles":2,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0031295","count":9},{"id":"GO:0050853","count":9},{"id":"GO:0006911","count":9},{"id":"GO:0006910","count":9},{"id":"GO:0006958","count":9}]},{"hash":"246582095714729967","title":"Female gonad development and steroidogenesis","description":"This cluster is dominated by GO terms for female gonad development and steroid hormone biosynthesis (androgen metabolism, testosterone, aldosterone). Additional terms point to related lipid metabolism and liver/digestive tract development, supporting a cohesive theme around reproductive development and steroidogenesis.","confidence":"High","size":25,"edges":10,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":21},{"id":"GO:0008209","count":20},{"id":"GO:0001516","count":20},{"id":"GO:0061370","count":20},{"id":"GO:0071615","count":19}]},{"hash":"1091148538072636704","title":"Ubiquitin-Dependent Degradation and Innate Immunity","description":"Top GO terms are dominated by ubiquitination processes (ubiquitin-dependent protein catabolic process, protein polyubiquitination, K48-linked ubiquitination, autoubiquitination), indicating a central role in tagging proteins for degradation. Concurrent defense-related terms (defense response to virus, innate immune response) suggest these proteins participate in antiviral signaling pathways. The presence of V(D)J recombination and circadian rhythm regulation hints at broader cellular regulatory roles, but the strongest signal is ubiquitin-mediated proteolysis linked to immune defense. Despite zero edges, the clustering reflects shared annotations rather than direct physical interactions, so the label centers on ubiquitin-dependent degradation within innate immunity.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0051607","count":10},{"id":"GO:0045087","count":10},{"id":"GO:0000209","count":7},{"id":"GO:0070936","count":7}]},{"hash":"1289302433502785498","title":"Axon guidance and neural development cluster","description":"This cluster is dominated by GO terms related to axon guidance and neural development, including semaphorin-plexin signaling for axon guidance, axonal fasciculation, neuron projection development, and neural crest cell migration. The presence of sympathetic neuron projection guidance and trigeminal nerve structural organization supports a shared role in shaping neural connectivity during development.","confidence":"High","size":25,"edges":12,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007413","count":15},{"id":"GO:1902287","count":14},{"id":"GO:0097490","count":14},{"id":"GO:0021785","count":14},{"id":"GO:0014068","count":14}]},{"hash":"902983205349916944","title":"Mesodermal organ development and cell adhesion","description":"This cluster centers on developmental processes of mesoderm-derived organs (kidney, heart, lung mesenchyme, lateral mesoderm) and on cell\u2013cell adhesion, suggesting a cohesive theme of tissue morphogenesis and organ patterning; a few terms may be less directly related but do not override the main pattern.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001822","count":13},{"id":"GO:0007156","count":12},{"id":"GO:0051963","count":12},{"id":"GO:0043552","count":12},{"id":"GO:0060484","count":12}]},{"hash":"1902631582011878262","title":"Embryonic development and transcription regulation","description":"This cluster centers on genes involved in embryonic development (mesoderm formation, palate/roof of mouth development, left-right patterning, EMT in heart-related structures, placenta/endocrine development) and transcriptional control (negative regulation and DNA-templated transcription), suggesting a cohesive role in developmental gene regulation and morphogenesis, despite some peripheral housekeeping terms.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0060021","count":11},{"id":"GO:0006351","count":10},{"id":"GO:0007498","count":10},{"id":"GO:0060972","count":10}]},{"hash":"246087319897701433","title":"Vascular development and coagulation regulation","description":"These proteins cluster around vascular biology: angiogenesis, endothelial barrier establishment, blood coagulation and fibrinolysis, with supporting signals from Wnt pathways and complement activation. A few transcription regulation terms are present but likely reflect broader regulatory roles. Overall, the cohesive theme is endothelial- and vessel-related processes plus hemostasis.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0006958","count":7},{"id":"GO:0006508","count":6},{"id":"GO:0045766","count":6},{"id":"GO:1903142","count":5}]},{"hash":"62912138944012938","title":"Embryonic development and integrin-mediated adhesion with complement activity","description":"Dominant terms point to embryonic/adult development and cell adhesion (heterophilic and integrin-mediated), with active complement pathways and bone maturation signals, suggesting a developmental adhesion-immune module.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0007157","count":12},{"id":"GO:0007275","count":9},{"id":"GO:0006958","count":8},{"id":"GO:0071397","count":8},{"id":"GO:0033631","count":8}]},{"hash":"1687890897213737088","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043982","count":3},{"id":"GO:0043981","count":3},{"id":"GO:0032486","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0042254","count":2}]},{"hash":"45322006422672995","title":"Secretory vesicle transport and exocytosis","description":"The cluster is dominated by GO terms tied to regulated secretion and vesicle trafficking, including synaptic vesicle exocytosis, catecholamine secretion, and acrosome reaction, along with microtubule-based movement and cytoskeletal regulation (Rho signaling). These terms together suggest proteins that coordinate vesicle transport and exocytosis across neural, secretory, and reproductive contexts, despite some broader regulatory terms. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0060313","count":6},{"id":"GO:0043314","count":6},{"id":"GO:0007018","count":5},{"id":"GO:0050432","count":5},{"id":"GO:0007205","count":5}]},{"hash":"1149004283271137405","title":"Cytoskeletal signaling and developmental differentiation","description":"This cluster centers on cytoskeletal dynamics (microtubule-based movement, cilium assembly) and small GTPase/Rac signaling, paired with cell cycle and transcription processes, alongside several developmental differentiation terms (cerebellar granule cell differentiation, spermatid development, palate development). The common theme is signaling-driven cytoskeletal regulation during developmental differentiation.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0035021","count":3},{"id":"GO:0060021","count":3}]},{"hash":"2152603244367336171","title":"Unknown","description":"The top GO terms span neural development, transcription regulation, NF-kB signaling, immune defense, endocytosis, osteoblast differentiation, mRNA processing, microtubule-based movement, brain development, and insulin secretion, indicating a highly heterogeneous set of functions without a single cohesive theme. A concise, representative label is not discernible.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0021510","count":3},{"id":"GO:0007252","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0048260","count":2}]},{"hash":"1186198178646203957","title":"Unknown","description":"The GO terms cover a broad mix of transcription, development, signaling regulation, immune/stress responses, and glial/apoptotic processes, with no clear unifying function across the proteins. The cluster has no edges or triangles, suggesting a heterogeneous set rather than a coherent pathway. Consequently, there isn\u2019t a single informative label to assign beyond Unknown.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0001843","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0090630","count":3},{"id":"GO:1900227","count":2}]},{"hash":"114066136037439825","title":"Developmental regulation and ciliogenesis","description":"This cluster combines transcriptional control (DNA-templated transcription), multicellular development, and cytoskeletal/cell division processes (cilium assembly, actin depolymerization, mitotic spindle assembly, mitotic cell cycle) with GTPase signaling and protein oligomerization. The coherence suggests proteins involved in developmental gene regulation linked to ciliogenesis and coordination of cytoskeleton dynamics during cell division, rather than a single narrow function. The defense-response term is likely auxiliary or misannotation. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0043087","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0060271","count":2},{"id":"GO:0050830","count":2}]},{"hash":"1003631413114827541","title":"Amino acid and cofactor biosynthesis","description":"The cluster groups proteins involved in several biosynthetic pathways, notably amino acid metabolism (serine, cysteine, transsulfuration) and sulfur metabolism (hydrogen sulfide production), as well as cofactor biosynthesis (cobalamin). While there are also terms for broader biosynthesis (pyruvate, lipopolysaccharide) the dominant theme across the top GO terms is the creation and processing of amino acids and related sulfur-containing metabolites. ","confidence":"Medium","size":24,"edges":242,"triangles":1403,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042866","count":9},{"id":"GO:0009236","count":8},{"id":"GO:0032869","count":7},{"id":"GO:0070814","count":6},{"id":"GO:0019346","count":6}]},{"hash":"596465165962339101","title":"Rho GTPase-regulated barrier and junction dynamics","description":"This cluster centers on activation of Rho-family GTPases and regulation of Rho signaling, with enrichment for tight junction assembly and establishment of barriers, suggesting a common role in organizing cell junctions and cytoskeletal dynamics across tissues (epithelial/endothelial and related sensory structures). Additional terms related to ion transport and synapse-related processes fit with tissue-specific barrier and signaling remodeling contexts.","confidence":"High","size":24,"edges":133,"triangles":323,"max_degree":21,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0090630","count":14},{"id":"GO:0070433","count":14},{"id":"GO:0090557","count":14},{"id":"GO:0097291","count":13},{"id":"GO:0050808","count":13}]},{"hash":"92520723025121512","title":"Forebrain neural progenitor proliferation and radial migration","description":"This cluster combines strong mitotic/cell-cycle signals (mitotic cell cycle, cell division, cell population proliferation, mitotic spindle assembly) with cortex development terms (forebrain radial glial differentiation, cerebral cortex radially oriented cell migration) and secretory pathway activity (COPII vesicle budding, ER-Golgi transport), consistent with proliferating neural progenitors in the forebrain undergoing differentiation and radial neuron migration.","confidence":"High","size":24,"edges":39,"triangles":84,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035264","count":15},{"id":"GO:0006890","count":15},{"id":"GO:0090114","count":15},{"id":"GO:0000278","count":15},{"id":"GO:0051301","count":15}]},{"hash":"1603219583121417383","title":"Developmental transcription and lineage specification","description":"The GO terms cluster around transcriptional regulation (RNA polymerase II transcription and DNA-templated transcription) and diverse developmental fate specifications across neural lineages, oligodendrocytes, motor neurons, pancreas, osteoblasts, and early embryogenesis, indicating a cohesive role in developmental gene regulation and lineage decisions.","confidence":"High","size":24,"edges":273,"triangles":1959,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":14},{"id":"GO:0045669","count":8},{"id":"GO:0060163","count":7},{"id":"GO:0021892","count":7},{"id":"GO:0090009","count":7}]},{"hash":"406316953197396325","title":"Proteostasis & Metal Stress Response","description":"The cluster is dominated by GO terms for ubiquitin-dependent protein catabolic process, SCF-dependent proteasomal ubiquitin-dependent protein degradation, and protein polyubiquitination, pointing to coordinated proteostasis via the ubiquitin-proteasome system. It also includes strong signals for cellular responses to heavy metals (cadmium, arsenic, methylmercury) and for circadian rhythm regulation, suggesting a link between protein turnover, detox/stress responses, and temporal control. The presence of a synapse assembly term hints at neuronal context but does not override the core proteostasis/metal-response theme. Overall, the common thread appears to be proteolysis-driven regulation under metal stress, possibly modulated by circadian biology.","confidence":"High","size":24,"edges":72,"triangles":70,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":17},{"id":"GO:0031146","count":15},{"id":"GO:0071276","count":14},{"id":"GO:0046685","count":12},{"id":"GO:1902916","count":12}]},{"hash":"325090358171081297","title":"Mammary gland development and transcription regulation","description":"The cluster is dominated by DNA-templated transcription and transcriptional regulation terms, with strong representation of mammary-related processes such as mammary gland alveolus development, lactation, and mammary epithelial proliferation, plus leptin signaling. While there is some broader differentiation signaling (Leydig cell differentiation) and magnesium response, the clearest cohesive theme is transcriptional control linked to mammary gland development and lactation.","confidence":"Medium","size":24,"edges":146,"triangles":369,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":13},{"id":"GO:0000122","count":13},{"id":"GO:0060749","count":12},{"id":"GO:0033327","count":12},{"id":"GO:0032026","count":11}]},{"hash":"1902896506472377103","title":"Septin ring organization during cell division","description":"The terms cluster around septin ring dynamics at the bud neck (organization and disassembly), establishment/localization of proteins to chromosomes, and spindle orientation checkpoints during mitosis, with supporting roles for GTPase signaling and phosphorylation control. This points to a coherent theme of septin-driven cytoskeletal remodeling and chromosome segregation in cell division (budding context), with one outlier term (neurotrophin signaling) not altering the main signal.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051388","count":5},{"id":"GO:0051754","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0006470","count":4}]},{"hash":"249108000023861840","title":"DNA Replication and Repair","description":"This cluster is dominated by GO terms related to DNA replication and various DNA repair pathways (nucleotide-excision repair, UV-damage repair, homologous recombination, mitotic replication), as well as DNA damage\u2013response signaling (including p53-mediated apoptosis). A few RNA splicing terms appear but do not define the main theme; the core function tying most terms together is genome maintenance through replication and repair processes.","confidence":"High","size":24,"edges":44,"triangles":26,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:1904876","count":3},{"id":"GO:0008380","count":3},{"id":"GO:0000390","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0006297","count":2}]},{"hash":"152204390545853485","title":"Developmental signaling and apoptosis regulation","description":"This cluster is enriched in GO terms tied to developmental signaling and cell fate decisions, including Wnt and Hippo pathway activity, regulation of cell proliferation, and differentiation processes (keratinocytes, dendrite morphogenesis). The presence of apoptosis-related terms further supports a role in growth control and programmed cell death within developmental contexts, across multiple tissues and signaling contexts (including T cell signaling). Overall, it points to a broad developmental signaling hub that balances growth, differentiation, and apoptosis.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":18},{"id":"GO:0006915","count":17},{"id":"GO:0035329","count":17},{"id":"GO:0060044","count":17},{"id":"GO:0030216","count":17}]},{"hash":"319480546450215166","title":"Muscle and cardiac development signaling","description":"This cluster shows strong representation of terms related to muscle function (response to muscle stretch, voluntary musculoskeletal movement), and cardiac development (outflow tract morphogenesis, regulation of SA node cell action potential). Coupled with intracellular signal transduction and cAMP response, the terms point to coordinated muscle/heart development and signaling processes. A few terms (like lipid A biosynthetic process) appear unrelated noise, but the dominant theme is muscle and cardiac development with signaling involvement.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035994","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0098907","count":3},{"id":"GO:0035556","count":2},{"id":"GO:0010845","count":2}]},{"hash":"498462044232800047","title":"Epidermal Wnt/Hippo signaling and apoptosis control","description":"This cluster centers on signaling pathways that regulate growth, differentiation, and cell survival in epithelial cells: canonical Wnt signaling, Hippo signaling, cell cycle progression, and apoptotic processes, with keratinocyte differentiation as a key context. The combination points to a module governing epidermal development and the balance between proliferation, differentiation, and death; a few outlier terms (obsolete and mating projection-related) likely reflect annotation noise.","confidence":"High","size":24,"edges":4,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":15},{"id":"GO:0043525","count":12},{"id":"GO:0010796","count":12},{"id":"GO:0043524","count":12},{"id":"GO:0031384","count":12}]},{"hash":"912756610907438687","title":"Unknown","description":"The top GO terms span a wide range of tissues and processes (blood platelet aggregation, female gonad and uterine epithelium development, neuron migration and Purkinje cell differentiation, plant phloem development, sulfur oxidation, and various developmental/transcription-related terms) with no cohesive, shared function across the cluster. There isn\u2019t a single biological theme that unites these terms, so an Unknown label is most appropriate.","confidence":"","size":24,"edges":28,"triangles":4,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0070527","count":9},{"id":"GO:0008585","count":9},{"id":"GO:0097477","count":9},{"id":"GO:0035847","count":8},{"id":"GO:0019417","count":8}]},{"hash":"632033167423077606","title":"Dopaminergic Signaling and Drug-Response Behaviors","description":"The cluster is dominated by terms related to brain dopamine signaling, regulation of dopamine release, and behavioral drug responses (cocaine, morphine), including GABAergic modulation and learning, suggesting a cohesive neural/behavioral function despite one heart-related term.","confidence":"High","size":24,"edges":115,"triangles":144,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":21},{"id":"GO:0001963","count":21},{"id":"GO:0048148","count":21},{"id":"GO:0071380","count":21},{"id":"GO:0010759","count":21}]},{"hash":"283225990170643081","title":"Innate Immunity and Adhesion Signaling","description":"The cluster is enriched for innate immune terms (defense response to virus, defense response to Gram-positive bacterium, innate immune response) indicating antiviral/bacterial defense functions. The presence of focal adhesion assembly and signaling pathways (Wnt, PI3K-related terms) suggests these proteins also participate in signaling cross-talk with cytoskeletal dynamics and cell adhesion, rather than being a purely immune-receptor set. This combination points to immune signaling intertwined with adhesion and cytoskeletal remodeling.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051607","count":5},{"id":"GO:0007026","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0007182","count":4},{"id":"GO:0016055","count":4}]},{"hash":"1932850756036452810","title":"Immune Signaling and Tissue Development","description":"The cluster shows substantial representation of immune-related GO terms (complement activation, lectin pathway; stimulatory C-type lectin receptor signaling; phagocytosis recognition) as well as developmental/tissue morphogenesis terms (lymph vessel morphogenesis; metanephric kidney development; cartilage condensation). This mix suggests proteins involved in immune sensing/regulation during tissue formation and remodeling, rather than a single narrow function.","confidence":"Medium","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0036303","count":24},{"id":"GO:0090238","count":24},{"id":"GO:0001867","count":24},{"id":"GO:0090403","count":24},{"id":"GO:0006910","count":24}]},{"hash":"2298846552573004676","title":"GPCR signaling and pain perception","description":"The cluster is dominated by GO terms tied to G protein-coupled receptor signaling and its downstream effects, including activation of adenylate cyclase, GPCR internalization, and regulation of membrane potential, plus sensory perception of pain. Additional terms point to related vascular and inflammatory regulation (vasopressin-mediated blood pressure and IL-8 production), supporting a cohesive GPCR-driven signaling theme linked to pain perception and vascular responses.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045986","count":9},{"id":"GO:0051482","count":9},{"id":"GO:0042391","count":9},{"id":"GO:2000484","count":9},{"id":"GO:0007202","count":9}]},{"hash":"2003602141498841103","title":"Unknown","description":"The terms span mRNA deadenylation, host-mediated effects on viral replication and symbiont invasion, immune and developmental regulation (MHC II, osteoblast and neuron development), base-excision repair, and basic cellular trafficking/regulation (ER-Golgi transport, aorta morphogenesis). This diverse mix lacks a single coherent function or pathway, so a specific label is not justifiable; hence Unknown with no confidence.","confidence":"","size":24,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000289","count":3},{"id":"GO:0044829","count":3},{"id":"GO:0045347","count":3},{"id":"GO:1904780","count":3},{"id":"GO:0045668","count":3}]},{"hash":"758672371641236613","title":"Developmental morphogenesis across tissues","description":"This cluster is dominated by GO terms tied to tissue formation and morphogenesis across multiple lineages, including heart development, myoblast fusion, notochord formation, vestibular receptor morphogenesis, and vagina development. The presence of regulation of Rho protein signal transduction also points to cytoskeletal remodeling underpinning morphogenesis, while neuron axonogenesis and NK cell differentiation reflect broader developmental programs.","confidence":"High","size":24,"edges":180,"triangles":673,"max_degree":23,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":18},{"id":"GO:0007520","count":17},{"id":"GO:0060068","count":12},{"id":"GO:0021836","count":12},{"id":"GO:0007507","count":12}]},{"hash":"1230987553040474249","title":"Collagen Synthesis and ECM Remodeling with ER Stress","description":"The top GO terms cluster around collagen production (collagen fibril organization, collagen biosynthetic process), extracellular matrix assembly and cell-ECM signaling (integrin-mediated signaling, VEGF signaling), and ER-related protein folding/unfolded protein response, which together point to a theme of extracellular matrix construction and remodeling supported by ER function and redox balance. The diverse hints (cartilage/chondrocyte differentiation, melanocyte differentiation, ovarian follicle remodeling) all fit into tissue remodeling contexts involving ECM dynamics. Confidence in this cohesive theme is High.","confidence":"High","size":24,"edges":25,"triangles":27,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034975","count":8},{"id":"GO:0045454","count":8},{"id":"GO:0030199","count":8},{"id":"GO:0032331","count":7},{"id":"GO:1900748","count":7}]},{"hash":"1273851438815582941","title":"Unknown","description":"The cluster's top GO terms span epigenetic regulation (histone acetylation, DNA methylation, imprinting) and multiple development processes (skin, brain, gonad, heart), plus an immune isotype switching term, with no clear unifying pathway or interaction. Because there is no single dominant function linking all members, there isn't a confident cohesive label.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048298","count":5},{"id":"GO:0043966","count":5},{"id":"GO:0006349","count":5},{"id":"GO:0043588","count":4},{"id":"GO:0008584","count":4}]},{"hash":"1710513412775241966","title":"B cell tolerance and immune regulation","description":"The top GO terms are dominated by immune-tolerance related processes, including positive regulation of tolerance induction to self antigen and positive regulation of B cell tolerance induction, along with mast cell cytokine production and receptor catabolic processes. These points suggest a cohesive theme of immune regulation and tolerance, particularly involving B cells and mast cells, with additional hints of endosomal transport regulation. Some developmental terms (vagina development, tricuspid valve morphogenesis) may reflect broader GO associations or annotation overlap rather than a core cluster function.","confidence":"Medium","size":24,"edges":227,"triangles":1160,"max_degree":23,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0002651","count":24},{"id":"GO:0060068","count":24},{"id":"GO:0032801","count":24},{"id":"GO:0009611","count":24},{"id":"GO:0032762","count":24}]},{"hash":"794376568948096616","title":"Cell-Cell Adhesion and Synapse Development","description":"The top GO terms are dominated by cell-cell adhesion (homophilic and heterophilic) and processes related to synapse assembly and nervous system development, including regulation of actin cytoskeleton by adhesion and specialized adhesion in the AV node. This points to a cohesive theme of adhesion molecules orchestrating tissue architecture and neural connectivity, with secondary signals pointing to adhesion roles in bone maturation and host\u2013pathogen interactions. Therefore, the cluster likely represents proteins involved in cell adhesion and synapse formation across tissues.","confidence":"High","size":24,"edges":72,"triangles":37,"max_degree":13,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007156","count":16},{"id":"GO:0007157","count":16},{"id":"GO:0043931","count":14},{"id":"GO:0007399","count":12},{"id":"GO:0051965","count":11}]},{"hash":"426056643851062216","title":"Embryogenesis and organ morphogenesis","description":"The top GO terms span a broad set of embryonic development processes across multiple tissues\u2014EMT in heart cushion formation, placenta differentiation, cartilage morphogenesis, left-right patterning, endocrine system development, inner ear development, and related morphogenetic activities\u2014indicating a general theme of embryogenesis and organ formation rather than a single pathway.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0060806","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0035270","count":4}]},{"hash":"793114162828015599","title":"Cytoskeletal Dynamics and Cell Motility","description":"The cluster is dominated by GO terms about Rho GTPase signaling, actin-based structure formation (lamellipodium/filopodium), and integrin activation, all key for cytoskeletal remodeling and cell movement. Neutrophil chemotaxis supports a motility theme, even as a few immune-related terms appear; overall, the proteins group around regulation of the cytoskeleton and migratory behavior.","confidence":"High","size":24,"edges":40,"triangles":0,"max_degree":20,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":13},{"id":"GO:0043552","count":11},{"id":"GO:0090630","count":11},{"id":"GO:0033622","count":10},{"id":"GO:0002344","count":10}]},{"hash":"1437632411139358093","title":"Developmental signaling and ciliogenesis","description":"The cluster shows strong representation of developmental processes (brain development, multicellular organism development, osteoblast differentiation, male gonad development) and signaling-related terms (response to TGF-beta). The presence of cilium assembly further ties these proteins to developmental regulation and cellular organization, suggesting a cohesive group involved in organismal development and ciliogenesis rather than a single metabolic function. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071560","count":8},{"id":"GO:0000132","count":8},{"id":"GO:0007420","count":7},{"id":"GO:0007568","count":7},{"id":"GO:0060271","count":7}]},{"hash":"963806588229453167","title":"Ubiquitin-mediated signaling and cytoskeletal remodeling","description":"The Top Terms show a strong emphasis on ubiquitination and ubiquitin-dependent proteolysis, complemented by processes involved in cytoskeletal dynamics (actin filament bundle assembly), cell migration, and epithelial polarity. This suggests a theme where ubiquitin regulation modulates signaling and remodeling of the cytoskeleton and cell architecture, rather than a single isolated pathway. Some immune-related signaling (B cell receptor) appears, but the core clustering points to ubiquitin-regulated remodeling of cellular structure and movement.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":8},{"id":"GO:0042787","count":7},{"id":"GO:0050853","count":5},{"id":"GO:0007205","count":5},{"id":"GO:0051017","count":5}]},{"hash":"317455696636941096","title":"Neural development and cell-cell adhesion","description":"This cluster is dominated by neural development signals (brain development, neuronal stem cell maintenance, regulation of oligodendrocyte progenitor proliferation) and multiple cell adhesion processes (cadherin-mediated adhesion, homophilic cell-cell adhesion, cell-cell junction organization, intermicrovillar adhesion). Together these terms point to a function in neural development shaped by cell adhesion, suggesting a coherent theme rather than disparate processes.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097150","count":24},{"id":"GO:0002315","count":24},{"id":"GO:0070445","count":24},{"id":"GO:0045216","count":24},{"id":"GO:0055096","count":24}]},{"hash":"625360607570981469","title":"Ubiquitin-Dependent Proteolysis and Immune Signaling","description":"The cluster is dominated by GO terms for ubiquitin-mediated protein degradation (ubiquitin-dependent proteolysis, autoubiquitination, ERAD, K6-linked ubiquitination, histone catabolic process), pointing to ubiquitin-regulated protein turnover. Additionally, terms related to immune signaling (defense response to virus, NF-kappaB, TNF signaling) suggest a link to innate immune regulation. Despite no observed edges, the common thread appears to be ubiquitin-driven proteolysis coupled with immune signaling roles.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0051865","count":13},{"id":"GO:0090073","count":13},{"id":"GO:0085020","count":13},{"id":"GO:0030433","count":13}]},{"hash":"1335054703671522987","title":"Neural development and cell adhesion","description":"The top GO terms cluster around neural development and neuron\u2013glia interfaces\u2014paranodal junction assembly, chemorepulsion guiding interneuron migration, and synapse assembly\u2014along with heterophilic cell\u2013cell adhesion and lamellipodium regulation. While also including broader developmental signals (VEGF signaling, skeletal development, and coagulation modulation), the common thread is developmental processes shaping neural connectivity and tissue organization through cell adhesion and guidance cues.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030913","count":4},{"id":"GO:0021836","count":3},{"id":"GO:0048661","count":3},{"id":"GO:0030195","count":3},{"id":"GO:0007157","count":3}]},{"hash":"327652844892694800","title":"RNA Splicing and Spliceosome Regulation","description":"The cluster is strongly enriched for GO terms related to RNA splicing and spliceosome regulation (RNA splicing, regulation of alternative mRNA splicing via spliceosome, and mRNA splicing via spliceosome). While there are a couple of non-splicing terms (ubiquitination, T cell homeostasis, startle response, mitotic membrane reassembly), the splicing-related terms dominate, suggesting the proteins work together mainly in RNA processing and spliceosome control.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008380","count":3},{"id":"GO:0000381","count":3},{"id":"GO:0043029","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0045292","count":2}]},{"hash":"1114345760794697937","title":"Integrin-mediated adhesion and cell migration","description":"Top GO terms cluster around heterophilic cell-cell adhesion, integrin-mediated signaling, and adhesion via integrins, complemented by processes like wound healing, epidermal cell spreading, and sprouting angiogenesis, all pointing to migratory and remodeling roles. Proteolysis and ectodomain proteolysis hint at dynamic regulation of adhesion molecules, fitting adhesion/matrix remodeling contexts. A single term about symbiont entry may reflect annotation noise or shared pathways rather than a core cluster function. Overall, these proteins seem focused on integrin-dependent adhesion and cell migration during tissue remodeling and angiogenesis.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0007157","count":13},{"id":"GO:0046718","count":11},{"id":"GO:0032516","count":11},{"id":"GO:0007229","count":9},{"id":"GO:0033631","count":9}]},{"hash":"1872918152777323590","title":"Signaling regulation and plasticity","description":"The cluster shows enrichment for regulation of signaling pathways (positive regulation of GTPase activity, TORC1 signaling, dephosphorylation) and processes linked to activity-dependent changes (long-term synaptic potentiation), along with associated roles in mRNA transport, development, proliferation, and stress responses. This points to a cohesive theme of signaling regulation governing cellular growth, adaptation, and plasticity, though with some broader processes present. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0051028","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0071456","count":3},{"id":"GO:0008284","count":3}]},{"hash":"1985055342752493231","title":"Translation and Translational Regulation","description":"This cluster is dominated by GO terms tied to protein synthesis and its control (translation, translational initiation, and regulation of translational termination/elongation), suggesting proteins involved in the translation machinery or its regulation. A few non-core associations (antibiotic response, oxidant detoxification, metabolism) appear less central to the main theme.","confidence":"High","size":23,"edges":26,"triangles":4,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0046677","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0006641","count":3},{"id":"GO:0007605","count":3}]},{"hash":"251102979173438272","title":"Translation initiation and ribosome assembly","description":"The cluster is dominated by GO terms related to protein synthesis and ribosome assembly (translation, translation preinitiation complex formation, cytoplasmic translation, and ribosomal small subunit assembly), indicating a core theme of translation machinery. A few terms reference transcription regulation and spliceosome-associated processes, which appear to be peripheral to the main translation-focused cluster. Therefore, the label reflects the central function of the group with minor, less-related annotations.","confidence":"High","size":23,"edges":21,"triangles":30,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0001731","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0003203","count":3},{"id":"GO:0070898","count":3}]},{"hash":"1313564108514158841","title":"GTPase-driven cell migration and polarity","description":"The top GO terms cluster around small GTPase signaling (positive regulation of GTPase activity, small GTPase-mediated signal transduction), cell migration, podosome assembly, epithelial cell polarity, and Wnt/JUN signaling\u2014all indicators of cytoskeletal reorganization and directional movement. Some terms touch on apoptosis or T cell activation, but the core pattern is signaling pathways that govern motility and cell polarity via GTPases and related networks.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0016477","count":6},{"id":"GO:0006915","count":6},{"id":"GO:0007258","count":5},{"id":"GO:0090263","count":5}]},{"hash":"1412570686532353980","title":"Cell cycle control and stress response","description":"Based on top GO terms, the proteins appear to regulate signaling (JNK cascade), genome maintenance (telomere/telomerase), centrosome and cell-cycle processes, protein turnover, and stress responses (nitric oxide signaling), suggesting a theme of coordinating cell growth, division, and cellular stress responses.","confidence":"Medium","size":23,"edges":143,"triangles":444,"max_degree":18,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0046330","count":6},{"id":"GO:0032212","count":5},{"id":"GO:0051973","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0010825","count":5}]},{"hash":"1091743040574789828","title":"Antiviral signaling and RNA metabolism","description":"This cluster is enriched for translation and mRNA processing, indicating regulation of protein synthesis, while interferon-alpha response, negative regulation of viral genome replication, and necroptotic process point to antiviral immune signaling and host defense. Additional terms such as cell cycle and GTPase activation reflect broader signaling and cell fate control that can intersect with antiviral responses. Some terms are obsolete, but the core theme ties together RNA metabolism, translation, and antiviral signaling.","confidence":"Medium","size":23,"edges":74,"triangles":63,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0045071","count":5},{"id":"GO:0007049","count":4},{"id":"GO:2001275","count":4},{"id":"GO:0035455","count":4}]},{"hash":"1957408928651751362","title":"Spliceosome-regulated mRNA processing and translation initiation","description":"The top terms cluster around spliceosome-mediated mRNA splicing and its regulation, with related themes of mRNA stability under stress and formation of translation preinitiation complexes, plus viral IRES-driven initiation, indicating a shared function in post-transcriptional gene expression control at both splicing and translation steps.","confidence":"Medium","size":23,"edges":234,"triangles":1405,"max_degree":22,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":12},{"id":"GO:0000398","count":11},{"id":"GO:0048026","count":10},{"id":"GO:0031047","count":10},{"id":"GO:0010610","count":10}]},{"hash":"1874719300652569669","title":"Vertebrate Developmental Transcription Regulators","description":"Most proteins in this cluster are tied to developmental processes across multiple tissues (retina, pituitary, osteoblasts, muscle, macrophage), with transcription by RNA polymerase II as a central function. The GO terms point to tissue differentiation and regulation of gene expression during development, suggesting a coherent theme of vertebrate developmental transcriptional regulation.","confidence":"Medium","size":23,"edges":241,"triangles":1535,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":10},{"id":"GO:0060041","count":8},{"id":"GO:0002087","count":6},{"id":"GO:0002076","count":6},{"id":"GO:0021983","count":6}]},{"hash":"1295088163087063114","title":"Neural signaling and sensory perception","description":"This cluster is enriched for terms involving neural signal transduction and sensory processing: dopaminergic synaptic transmission; visual perception and learning; sensory perception of pain; behavioral response to cocaine; and signaling pathways like ERK cascade and GTPase activity that underpin neural plasticity. While there are distant terms such as heart development and macrophage chemotaxis, the majority of top GO terms point to neuronal signaling and sensory function.","confidence":"High","size":23,"edges":211,"triangles":1040,"max_degree":22,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":17},{"id":"GO:0043547","count":17},{"id":"GO:0048148","count":16},{"id":"GO:0070374","count":16},{"id":"GO:0010759","count":16}]},{"hash":"219424048674197197","title":"Neuronal transcriptional regulation and axon development","description":"The top GO terms cluster around transcriptional control (DNA-templated transcription, negative regulation of transcription by RNA polymerase II, positive regulation of DNA binding) and neural development (CNS neuron development, axon extension), suggesting a role in neuronal gene expression and axon growth; auxiliary terms like ER protein folding and redox homeostasis are present but less central, indicating the core theme is transcriptional regulation in neurons and axon development.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0016032","count":5},{"id":"GO:0046826","count":4},{"id":"GO:0034975","count":4}]},{"hash":"1271507716568039331","title":"Spliceosome-driven RNA processing and mRNA regulation","description":"This cluster is dominated by GO terms related to mRNA processing and splicing via the spliceosome, including alternative splicing, regulation (positive and negative) of splicing, and mRNA stabilization. Additional terms point to small-subunit processome assembly and miRNA-mediated translational silencing, underscoring a cohesive theme of post-transcriptional RNA regulation. Overall, the proteins likely function together in RNA processing and spliceosome-mediated regulation of gene expression.","confidence":"High","size":23,"edges":13,"triangles":1,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":13},{"id":"GO:0010610","count":12},{"id":"GO:0048025","count":10},{"id":"GO:0000380","count":9},{"id":"GO:0001825","count":9}]},{"hash":"1380357147220318092","title":"Ubiquitin-Regulated Transcription and Signaling","description":"This cluster prominently features ubiquitination-related processes (ubiquitin-dependent ERAD pathway, protein ubiquitination) alongside transcriptional regulation components (negative regulation of transcription elongation by RNA polymerase II, negative regulation of transcription involved in G2/M transition) and signaling (canonical NF-kappaB signal transduction), with additional links to immune-related processes (isotype switching) and cellular transport. Taken together, the proteins likely function in ubiquitin-mediated control of transcription and signaling pathways, rather than a single narrowly defined process, justifying a label centered on ubiquitin-regulated transcription and signaling.","confidence":"Medium","size":23,"edges":150,"triangles":447,"max_degree":19,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0030433","count":7},{"id":"GO:0034244","count":5},{"id":"GO:0016567","count":5},{"id":"GO:0090419","count":4},{"id":"GO:1903468","count":4}]},{"hash":"669156484323689911","title":"Deubiquitinases in ERAD and Proteostasis","description":"The top GO terms cluster around deubiquitination across multiple ubiquitin linkages (K29, K6, K11, K48), consistent with DUB activity, along with ER-associated degradation (ERAD) maintenance and ubiquitin chain processing. Deglycosylation signals protein quality control context, and miscellaneous related terms (e.g., histone deubiquitination) point to a broader ubiquitin-editing proteostasis theme. Overall, these proteins appear to be engaged in ubiquitin cycle regulation and ERAD-related quality control.","confidence":"High","size":23,"edges":25,"triangles":3,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1904378","count":6},{"id":"GO:0035523","count":6},{"id":"GO:0044313","count":6},{"id":"GO:0035871","count":5},{"id":"GO:0071108","count":5}]},{"hash":"138772798467413686","title":"Mitochondrial translation and respiration","description":"The top terms indicate mitochondrial-centric processes: translation within mitochondria, assembly of respiratory chain complex II, electron transport from succinate to ubiquinone, and protein import into the mitochondrial intermembrane space, with ubiquinone biosynthesis and related quinones supporting oxidative phosphorylation. Together, these terms point to a cohesive mitochondrial energy metabolism and protein handling cluster, justifying the label.","confidence":"High","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0032543","count":3},{"id":"GO:0034553","count":2},{"id":"GO:0006121","count":2},{"id":"GO:0010124","count":2},{"id":"GO:0045041","count":2}]},{"hash":"1499214294237642237","title":"Neural development and synaptic function","description":"The top GO terms strongly indicate neural development and synaptic activity, including axon guidance, retina layer formation, synapse assembly, synaptic vesicle endocytosis, and neurotransmitter secretion, plus memory. While a few terms touch on broader development (bone and heart morphogenesis), the neural-related functions dominate, supporting a focus on neuron development and synaptic signaling.","confidence":"High","size":23,"edges":72,"triangles":49,"max_degree":17,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0048842","count":10},{"id":"GO:0043065","count":10},{"id":"GO:0010842","count":10},{"id":"GO:1900242","count":10},{"id":"GO:0007269","count":9}]},{"hash":"2292563220299551728","title":"DNA Damage\u2013Triggered Apoptosis and Cell Cycle Regulation","description":"This cluster centers on responses to cellular stress leading to apoptosis and control of the cell cycle: intrinsic apoptotic signaling in response to DNA damage by p53, general apoptotic processes, and ubiquitination as a regulatory mechanism, along with mitotic spindle assembly. Additional signals for innate immune response and pyroptosis suggest broader stress/inflammatory context, but the dominant theme is DNA-damage\u2013driven apoptosis coupled with cell-cycle regulation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042771","count":9},{"id":"GO:0006915","count":8},{"id":"GO:0016567","count":7},{"id":"GO:0090307","count":7},{"id":"GO:0032088","count":6}]},{"hash":"2032081184908432068","title":"Mitochondrial energy metabolism and dynamics","description":"Top GO terms cluster around mitochondrial functions\u2014apoptotic mitochondrial changes, iron import into mitochondrion, mitochondrial membrane fission, ATP transmembrane transport, and responses to stressors like superoxide, fatty acids, and amino acid starvation\u2014indicating a cohesive role in mitochondrial energy production, dynamics, and stress response. This supports a focused annotation of a mitochondrial-centric protein cluster.","confidence":"High","size":23,"edges":24,"triangles":2,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008637","count":20},{"id":"GO:0048250","count":19},{"id":"GO:1990845","count":19},{"id":"GO:0090149","count":19},{"id":"GO:0070542","count":19}]},{"hash":"243415055135470796","title":"Nuclear autophagy and proteostasis","description":"This cluster centers on nuclear-directed autophagy (piecemeal microautophagy of the nucleus), endocytic trafficking, and regulation of protein turnover (ubiquitin/proteasome/ERAD) plus translation control and DNA repair terms. While some terms are obscure or peripheral, the overarching theme appears to be cellular quality control and proteostasis with a nucleus/trafficking focus, so a nuclear autophagy\u2013proteostasis label fits best.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":3},{"id":"GO:0003351","count":2},{"id":"GO:0017148","count":2},{"id":"GO:0006897","count":2},{"id":"GO:0030437","count":1}]},{"hash":"1603785889215618353","title":"Lamellipodium Formation and Actin Cytoskeleton Remodeling","description":"The top GO terms converge on actin dynamics at the cell cortex, including lamellipodium assembly, actin polymerization, Rac signaling, Arp2/3-mediated nucleation, and related morphogenesis of lamellipodia and dendritic spines, with supporting roles for barbed-end capping and ruffle formation. This points to a cohesive module of actin remodeling driving protrusive structures, with megakaryocyte development reflecting cytoskeletal changes during platelet formation.","confidence":"High","size":23,"edges":220,"triangles":1216,"max_degree":22,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030032","count":9},{"id":"GO:0030036","count":9},{"id":"GO:0016601","count":8},{"id":"GO:0030041","count":8},{"id":"GO:0060997","count":8}]},{"hash":"2218702319279693269","title":"GPCR-cAMP Blood Pressure Regulation","description":"The dominant GO terms point to GPCR signaling that activates adenylate cyclase and regulates blood pressure, notably through vasopressin-related pathways, which strongly suggests a cluster centered on GPCR-cAMP signaling controlling vascular tone. Some terms also reflect metabolic energy context (electron transport, thermogenesis), which may support signaling capacity but do not override the central blood pressure\u2013regulation theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":18},{"id":"GO:0010579","count":18},{"id":"GO:0022900","count":18},{"id":"GO:0007190","count":17},{"id":"GO:0071502","count":15}]},{"hash":"1806678076102674120","title":"Fungal lipid and sterol biosynthesis and ER processing","description":"Based on the strongest signals (unsaturated fatty acid biosynthesis, regulation of ergosterol biosynthesis, and MIPC metabolism), the cluster is driven by fungal membrane lipid/sterol production. The presence of protein retention in the ER lumen supports ER-associated processing. Some other terms (nitrate assimilation, developmental processes) seem peripheral annotations across species, but do not override the lipid/sterol focus. Confidence: Medium","confidence":"Medium","size":23,"edges":53,"triangles":42,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006636","count":5},{"id":"GO:0042128","count":5},{"id":"GO:0006675","count":5},{"id":"GO:0032443","count":5},{"id":"GO:0001949","count":5}]},{"hash":"1771362435079711950","title":"Transmembrane Transporters","description":"This cluster is dominated by GO terms for transmembrane transport of diverse substrates, including xenobiotics, vitamins, sugars, and ions, indicating a cohesive group of membrane transporter proteins rather than a single substrate or process.","confidence":"High","size":23,"edges":168,"triangles":560,"max_degree":22,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035461","count":23},{"id":"GO:0006855","count":23},{"id":"GO:0042908","count":21},{"id":"GO:0071805","count":21},{"id":"GO:0042891","count":16}]},{"hash":"1110482231833819584","title":"Neural development and vesicle trafficking","description":"Based on enrichment for vesicle trafficking terms (ER to Golgi transport, CVT/vacuole targeting, multivesicular body size, GTPase activity regulation) and developmental cues in brain, nervous system, and kidney, plus related signaling (Smoothened/Hedgehog, T cell receptor signaling) and podosome dynamics, the cluster seems to group proteins involved in coordinating endomembrane transport with developmental signaling and cell movement. While terms span immune and neural contexts, the shared theme centers on developmentally relevant signaling tied to vesicle trafficking.","confidence":"Medium","size":23,"edges":85,"triangles":64,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":7},{"id":"GO:0043547","count":6},{"id":"GO:0007420","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0032258","count":5}]},{"hash":"949563850496476509","title":"PARP-Dependent Telomere and Spindle Maintenance","description":"These proteins show strong signals for ADP-ribosylation (PARP activity), telomere maintenance and localization, and spindle assembly, pointing to a cohesive role in chromatin/ DNA maintenance and chromosome segregation during cell division. While some terms (e.g., fat cell differentiation, pain response) appear less central, the dominant theme centers on PARP-mediated regulation of telomeres and mitosis, suggesting a genome-stability maintenance cluster.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045444","count":10},{"id":"GO:0070213","count":9},{"id":"GO:0048265","count":9},{"id":"GO:0016477","count":9},{"id":"GO:0070198","count":9}]},{"hash":"9116661823894812","title":"GTPase-driven cytoskeletal remodeling and mitochondrial fission","description":"The enriched GO terms center on small GTPase\u2013mediated signaling (e.g., regulation of GTPase activity and small GTPase\u2013mediated signal transduction) with cytoskeletal processes (filopodium assembly, microtubule-based movement, mitotic spindle assembly) and mitochondrial fission. This suggests proteins that coordinate GTPase signaling with actin/microtubule dynamics and organelle division, forming a cohesive cytoskeletal/mitochondrial remodeling module relevant to cellular movement, division, and neurite dynamics.","confidence":"High","size":23,"edges":4,"triangles":0,"max_degree":2,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0000266","count":5},{"id":"GO:0051489","count":5},{"id":"GO:0046847","count":5},{"id":"GO:0007264","count":5}]},{"hash":"1881816194409107238","title":"Embryonic organogenesis and tissue morphogenesis","description":"The proteins cluster around diverse developmental processes across many organs (roof of mouth, spinal cord, inner ear, olfactory placode, retina, muscle, ureteric bud, uterus, etc.), suggesting a shared role in embryonic organ formation and tissue patterning. A general transcriptional regulation term is present but does not override the central theme of development.","confidence":"High","size":23,"edges":15,"triangles":2,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":18},{"id":"GO:0000122","count":16},{"id":"GO:0021516","count":11},{"id":"GO:0048839","count":11},{"id":"GO:0030910","count":11}]},{"hash":"1060790485293601624","title":"Cytoskeleton dynamics and cell polarity signaling","description":"The cluster shows strong enrichment for terms related to actin cytoskeleton remodeling, sarcomere organization, and cell junctions, along with signaling pathways (Rho, Wnt, NF-kappaB) and processes governing cell shape and polarity (spindle assembly, tight junctions, cell polarity maintenance). This pattern indicates a unifying theme of cytoskeletal dynamics tightly coordinating signaling and cell polarity.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0045214","count":4},{"id":"GO:0043123","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0070830","count":3}]},{"hash":"1036812475985689926","title":"Glutamatergic synaptic signaling and receptor trafficking","description":"Most represented terms point to neuronal communication at glutamatergic synapses (synaptic transmission, glutamatergic) and trafficking-related processes (regulation of endosome size, receptor recycling). While there are broader terms like brain development and transcription regulation, the strongest and most cohesive signal across the cluster is glutamatergic synaptic signaling coupled with receptor trafficking, fitting a module focused on maintaining synaptic function. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060316","count":5},{"id":"GO:0035023","count":4},{"id":"GO:0051036","count":4},{"id":"GO:0035249","count":4},{"id":"GO:0006355","count":4}]},{"hash":"1609468805064255655","title":"Rho/Rac-driven actin protrusion and cell migration","description":"The GO terms cluster around Rho and Rac signaling, activation of GTPases, and assembly of lamellipodia and filopodia with substrate adhesion-dependent spreading, indicating actin cytoskeleton remodeling that underlies cell movement. Some terms reference morphogenesis or vascular processes, but the dominant theme is actin-based protrusions guiding migration.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":4},{"id":"GO:0060313","count":4},{"id":"GO:0043314","count":4},{"id":"GO:1900026","count":4},{"id":"GO:0046847","count":4}]},{"hash":"644580186042119414","title":"Neuronal ion transport and brain development","description":"This cluster is enriched for ion transport terms (bicarbonate and chloride transport, pH regulation) suggesting membrane ion transport activity, and it also includes neuronal context terms (pyramidal neuron development, brain morphogenesis), pointing to a brain/neuronal role. Some terms about boron/pressure are broader physiological connections, but the dominant pattern ties to neuronal ion transport and development.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015701","count":3},{"id":"GO:0042044","count":3},{"id":"GO:0010036","count":3},{"id":"GO:1902476","count":3},{"id":"GO:0021860","count":3}]},{"hash":"408782304047237831","title":"Retinoid, lipid, and steroid biosynthesis","description":"The top GO terms cluster around retinoid metabolism (retinoic acid and retinol), lipid biosynthesis (very long-chain fatty acids, mycolic acids), and steroid biosynthesis (glucocorticoids), with development terms like lung and retinal development likely reflecting retinoid signaling roles. This suggests a coherent module focused on lipid and retinoid/steroid biosynthesis rather than disparate processes.","confidence":"High","size":23,"edges":80,"triangles":106,"max_degree":15,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0030324","count":16},{"id":"GO:0042574","count":16},{"id":"GO:0042761","count":16},{"id":"GO:0055114","count":16},{"id":"GO:0006710","count":16}]},{"hash":"282385508655511852","title":"Rho-GTPase and GPCR signaling in neural and vascular systems","description":"The GO terms cluster around regulation of Rho and GTPase signaling, thrombin-activated GPCR pathways, platelet activation, and angiogenesis, with neural signaling elements like neurotransmitter secretion and synaptic depression. This suggests a coherent theme of GPCR/Rho-mediated signaling impacting both neural and vascular/platelet functions, justifying this combined label.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0071372","count":3},{"id":"GO:0070493","count":3},{"id":"GO:0043087","count":3},{"id":"GO:0010572","count":3}]},{"hash":"240564301863676037","title":"Ubiquitin-Dependent Protein Degradation","description":"The cluster's top GO terms cluster around ubiquitination and protein catabolism (ubiquitin-dependent protein catabolic process, protein ubiquitination, polyubiquitination, autoubiquitination, ERAD), indicating a shared role in tagging proteins for degradation via the ubiquitin-proteasome system. A few terms are peripheral or obsolete, but the dominant theme remains ubiquitination-mediated protein turnover.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0090073","count":9},{"id":"GO:0051865","count":9},{"id":"GO:0030433","count":9},{"id":"GO:0016567","count":8}]},{"hash":"1269584581165169518","title":"Ubiquitin-Proteasome and Innate Immunity","description":"Dominant GO terms center on ubiquitination and ubiquitin-dependent protein catabolic processes, plus innate immune response, indicating a core theme of ubiquitin-mediated protein turnover linked to immune signaling. Other terms (vitamin D response, pain perception, SA node action potential regulation) are present but less central to the cluster\u2019s main function. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0033280","count":10},{"id":"GO:0016567","count":9},{"id":"GO:0098907","count":8},{"id":"GO:0043066","count":8}]},{"hash":"1490897982461155053","title":"Cell Cycle and RNA Modification","description":"This cluster centers on cell cycle control (mitotic cell cycle, cellular senescence) and RNA modification (RNA guanine-N7 methylation, tRNA wobble uridine modification), suggesting a core link to how cells regulate division and translation. Additional terms touch on development, signaling, and trafficking, but the dominant themes are cell cycle processes and RNA modification, with some supporting roles from endomembrane transport and lipid biosynthesis. Medium","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0036265","count":3},{"id":"GO:0002098","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1403084604845265624","title":"Embryonic and Organ Development","description":"The cluster is dominated by GO terms related to development across multiple tissues (roof of mouth, pancreatic B cell development, mesoderm, atrial septum, inner ear, midbrain, membranous septum, endothelial barrier). This suggests broad embryonic/organogenesis programs rather than a single molecular function or pathway. The presence of negative regulation of transcription by RNA polymerase II hints at regulatory control of gene expression during development. Overall, the proteins likely participate in general developmental processes rather than a specific tissue- or pathway-specific role.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0060021","count":6},{"id":"GO:0003323","count":5},{"id":"GO:0007498","count":5},{"id":"GO:1903142","count":5}]},{"hash":"56574526259826378","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by protein synthesis functions: multiple proteins link to translation, ribosome biogenesis/assembly, and mitochondrial translation, aligning with a shared role in building and operating ribosomes and producing proteins. Some transcription-related terms appear but are secondary to the main theme.","confidence":"High","size":22,"edges":230,"triangles":1520,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":14},{"id":"GO:0046677","count":3},{"id":"GO:0017148","count":3},{"id":"GO:0032543","count":2},{"id":"GO:0042254","count":2}]},{"hash":"1263830035908472007","title":"B cell and Fc receptor signaling in adaptive immunity","description":"The top GO terms center on B cell receptor signaling, Fc-epsilon receptor signaling, adaptive immune response, and cytokine production (e.g., IL-2), with downstream ERK/MAPK and PI3K pathway involvement, indicating a coherent cluster of immune receptor signaling and activation; an odd morphogenesis term appears but does not define the core function.","confidence":"High","size":22,"edges":118,"triangles":338,"max_degree":18,"top_function":"wound healing","top_go_terms":[{"id":"GO:0043552","count":17},{"id":"GO:0070374","count":17},{"id":"GO:1900042","count":14},{"id":"GO:0050853","count":14},{"id":"GO:0038095","count":14}]},{"hash":"2192607424457537041","title":"RNA processing and translation machinery","description":"The cluster centers on translation initiation and ribosome biogenesis, with multiple terms related to mRNA processing (splicing regulation, export, poly(A) tail regulation) and even oskar mRNA localization, indicating a cohesive group of RNA metabolism and protein synthesis factors.","confidence":"High","size":22,"edges":91,"triangles":169,"max_degree":17,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0002188","count":7},{"id":"GO:0001731","count":7},{"id":"GO:0042254","count":7},{"id":"GO:0048026","count":6},{"id":"GO:0045451","count":6}]},{"hash":"1145260575857130649","title":"Cardiopulmonary and skeletal muscle development","description":"The cluster is enriched for terms tied to heart and lung/muscle morphogenesis\u2014cardiac ventricle formation, skeletal muscle differentiation, trachea and bronchus cartilage development, and lung smooth muscle development\u2014along with transcriptional regulation, pointing to a shared developmental program governing cardiopulmonary and skeletal muscle tissues.","confidence":"High","size":22,"edges":125,"triangles":337,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":15},{"id":"GO:0060534","count":15},{"id":"GO:0060532","count":14},{"id":"GO:0061145","count":14},{"id":"GO:0071864","count":14}]},{"hash":"138331972783208084","title":"Nucleotide Biosynthesis and DNA Replication","description":"The cluster centers on deoxyribonucleoside metabolism and DNA biosynthesis, with multiple terms for dGTP, TMP, deoxyguanosine salvage, and deoxycytidine metabolism, suggesting a core role in supplying nucleotides for DNA replication. Some terms for translation and RNA modification appear, but the dominant theme ties to nucleotide production and DNA synthesis (with mitochondrial energy metabolism as a supporting context).","confidence":"High","size":22,"edges":28,"triangles":17,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0031120","count":2},{"id":"GO:0006120","count":2},{"id":"GO:0006180","count":2},{"id":"GO:0016310","count":2}]},{"hash":"2107987878308733289","title":"Embryonic Organogenesis and Neural Crest Development","description":"The cluster is dominated by GO terms related to embryonic development, organ morphogenesis (eye, heart, lung), and neural crest/multiplexed nervous system development, along with transcriptional regulation by RNA polymerase II, suggesting a coordinated program of developmental regulation and tissue formation.","confidence":"High","size":22,"edges":37,"triangles":3,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0000122","count":15},{"id":"GO:0090009","count":12},{"id":"GO:0048935","count":12},{"id":"GO:0006366","count":10},{"id":"GO:0048048","count":9}]},{"hash":"1398231648849442374","title":"Developmental transcriptional regulation and chromatin remodeling","description":"This cluster is dominated by GO terms for DNA-templated transcription (GO:0006351), negative regulation of transcription by RNA polymerase II (GO:0000122), and chromatin remodeling (GO:0043044), indicating transcriptional control and epigenetic regulation. The accompanying morphogenesis terms (atrial septum formation, neural crest cell migration, embryonic digestive tract morphogenesis, ureteric bud branching, and endocrine pancreas development) suggest these regulators coordinate developmental programs across multiple tissues. Overall, the proteins likely function as developmental transcriptional regulators and chromatin modifiers.","confidence":"High","size":22,"edges":89,"triangles":149,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":16},{"id":"GO:0000122","count":15},{"id":"GO:0043044","count":11},{"id":"GO:0003290","count":11},{"id":"GO:0001755","count":10}]},{"hash":"1400993320508433353","title":"Developmental transcriptional regulation and signaling","description":"This cluster centers on development-related processes (bone, heart, vagina development) and gene regulation (DNA-templated transcription) with modulation of Wnt signaling, suggesting a group of proteins involved in developmental signaling and transcriptional control. Some terms also touch on wound response and immune signaling, indicating broader tissue remodeling roles beyond a single pathway.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060348","count":4},{"id":"GO:0043113","count":4},{"id":"GO:0071222","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0019800","count":3}]},{"hash":"577820763563382472","title":"Developmental transcription and ribosome biogenesis","description":"This cluster is enriched for developmental processes (skeletal system morphogenesis; brain development) and signaling (cellular response to TGF-beta). It also emphasizes transcriptional control (DNA-templated transcription) and core housekeeping functions involved in protein synthesis (ribosomal large subunit biogenesis; maturation of SSU-rRNA) and cell division. The common theme appears to be coordination of development with growth-related transcription and ribosome biogenesis, making \u201cDevelopmental transcription and ribosome biogenesis\u201d a concise, representative label.","confidence":"Medium","size":22,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048705","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0007420","count":4},{"id":"GO:0050731","count":4},{"id":"GO:0000462","count":4}]},{"hash":"734646082003773861","title":"Signaling, Proteostasis, and Chromatin Dynamics","description":"This cluster combines signaling pathways (B cell receptor signaling; store-operated Ca2+ channel activation; heart development/contraction) with proteostasis (ubiquitin-dependent protein catabolic process; ERAD; apoptotic process) and chromatin organization/dynamics (nucleosome assembly; CENP-A chromatin assembly; rDNA heterochromatin formation). A plausible unifying theme is the coordinated regulation of signal transduction with protein homeostasis and chromatin remodeling, reflecting integrated control of cell fate and genome maintenance. Confidence: Medium","confidence":"","size":22,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0006334","count":3}]},{"hash":"79627937086065881","title":"ERAD/Ubiquitin-Mediated Proteostasis","description":"The cluster is dominated by ubiquitin-related functions: ubiquitin-dependent ERAD pathway, maintenance of unfolded proteins in ERAD, protein deubiquitination, and protein autoubiquitination, pointing to a core role in protein quality control and degradation. Additional terms for transcription/translation and stress responses (insecticide response, mitochondrial dynamics) suggest broader cellular regulation under proteostatic stress, but the primary signal is proteostasis through ERAD and ubiquitination mechanisms.","confidence":"Medium","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":9},{"id":"GO:1904378","count":8},{"id":"GO:0016579","count":8},{"id":"GO:0017085","count":7},{"id":"GO:0051865","count":7}]},{"hash":"1053681094534451117","title":"Respiration and electron transport","description":"This cluster is dominated by terms tied to cellular respiration and energy generation through electron transport, including ATP synthesis coupling, anaerobic respiration, and redox-related processes (ferredoxin metabolism, ROS). Some outlier terms (e.g., lactation, obsolete GO) appear but do not override the main theme of respiration and energy metabolism.","confidence":"Medium","size":22,"edges":180,"triangles":717,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0045333","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006814","count":1},{"id":"GO:0042773","count":1},{"id":"GO:0007595","count":1}]},{"hash":"2128054158706260586","title":"Translation and ribosome biogenesis with biosynthesis","description":"The cluster is enriched for translation, ribosome biogenesis, and tRNA methylation, with support from mitochondrial protein import, suggesting a core role in protein synthesis. The inclusion of various biosynthetic processes (biotin, menaquinone, phosphatidylcholine) indicates broader cellular biosynthesis context rather than a single pathway, so the name centers on protein production and related biosynthetic activities.","confidence":"Medium","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0030150","count":3},{"id":"GO:0009234","count":3},{"id":"GO:0030488","count":3}]},{"hash":"1090117064888840632","title":"RNA processing and splicing machinery","description":"Dominant terms center on RNA maturation: spliceosome-mediated and alternative splicing, small-subunit processome assembly, mRNA export and stabilization, and miRNA-mediated gene silencing, indicating post-transcriptional regulation. Some broader context terms (blastocyst formation, viral translation reinitiation) exist but do not override the core RNA-processing theme.","confidence":"High","size":22,"edges":167,"triangles":590,"max_degree":20,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":15},{"id":"GO:0006378","count":15},{"id":"GO:0031047","count":15},{"id":"GO:0000380","count":13},{"id":"GO:0001825","count":13}]},{"hash":"155023473137803918","title":"Terpenoid and amino acid biosynthesis","description":"The top GO terms cluster around terpenoid/isoprenoid production (cholesterol biosynthesis; farnesyl diphosphate biosynthesis; isopentenyl diphosphate biosynthesis via both the mevalonate and MEP pathways) alongside amino acid biosynthesis (threonine and homoserine; methionine-related). There are also related carbohydrate metabolism and nucleotide-sugar salvage terms, but the clearest common theme is biosynthetic pathways, especially terpenoid/isoprenoid and amino acid biosynthesis. Confidence: Medium","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006695","count":3},{"id":"GO:0010923","count":2},{"id":"GO:0010142","count":2},{"id":"GO:0046396","count":2},{"id":"GO:0009086","count":2}]},{"hash":"2296155000551395299","title":"Neuronal Golgi\u2013plasma membrane trafficking and signaling","description":"The top GO terms emphasize Golgi-to-plasma membrane transport and related protein trafficking, along with signaling pathways (ERK cascade and Rac signaling) and neuronal plasticity/apoptosis. This points to a module coordinating membrane trafficking with neuronal signaling and synaptic plasticity, rather than a generic cellular process.","confidence":"High","size":22,"edges":45,"triangles":19,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":5},{"id":"GO:0006893","count":5},{"id":"GO:0090324","count":5},{"id":"GO:0043001","count":4},{"id":"GO:0051301","count":4}]},{"hash":"2009226193464210431","title":"Steroid Hormone and Lipid Biosynthesis","description":"The top GO terms cluster around biosynthesis of steroid hormones and other lipid mediators (androgen metabolic process, testosterone biosynthetic process, aldosterone biosynthetic process, prostaglandin biosynthetic process, bile acid biosynthetic process) as well as lipid metabolism (triglyceride metabolic process). This suggests a cohesive function in steroidogenesis and related lipid pathways, with tissue-context signals such as liver (hepatocyte differentiation) and digestive tract development contributing to the organismal setting. Overall, the clear common theme is synthesis of steroid hormones and lipid-derived messengers.","confidence":"High","size":22,"edges":28,"triangles":3,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":10},{"id":"GO:0061370","count":10},{"id":"GO:0060065","count":9},{"id":"GO:0071615","count":8},{"id":"GO:0070365","count":8}]},{"hash":"2169400547569141787","title":"Enteric neuropeptide signaling and gut motility","description":"The cluster is dominated by GO terms related to enteric nervous system development, neuropeptide signaling, peristalsis, and GPCR signaling with downstream ERK cascade and vasopressin-regulated blood pressure, pointing to neural control of gut motility and vascular tone. Rho signaling adds to cytoskeletal and signaling aspects in neurons, while electron transport and xenobiotic response may reflect broader housekeeping roles in the protein set. Overall, the shared theme is enteric neural signaling governing peristalsis and systemic vascular regulation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035025","count":19},{"id":"GO:0045777","count":19},{"id":"GO:0010579","count":19},{"id":"GO:0022900","count":19},{"id":"GO:0042493","count":18}]},{"hash":"521437147771771048","title":"Vision and circadian-regulated physiology","description":"The top GO terms are dominated by vision-related processes (visual learning, retina development) and light/light-regulated physiological cycles (circadian sleep/wake). Several terms point to light-influenced autonomic regulation (vasopressin-mediated blood pressure, smooth muscle contraction, temperature response), suggesting a theme where vision/light cues shape broader physiological regulation. While some terms (pain, coagulation, growth regulation) are more general, the strongest cohesive signal is vision paired with circadian/light-responsive regulation. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":13},{"id":"GO:0071502","count":12},{"id":"GO:0040015","count":12},{"id":"GO:0002024","count":12},{"id":"GO:0007596","count":12}]},{"hash":"1326107694544715541","title":"TGF-beta signaling and cytoskeletal dynamics in development","description":"Enriched terms point to signaling-driven changes in the cytoskeleton (TGF-beta response, GTPase regulation, lamellipodium assembly, dendritic spine morphogenesis) and developmental processes (heart development, Wnt pathway modulation), with transcriptional regulation also represented. Together these suggest a coherent module of signal transduction guiding cell migration and morphogenesis during development.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071560","count":8},{"id":"GO:0043547","count":7},{"id":"GO:1902042","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0060997","count":6}]},{"hash":"407896279655229887","title":"Retina phototransduction and circadian signaling","description":"The top terms cluster around eye/retina function and light-driven signaling: retina development, phototransduction, regulation of opsin signaling, and circadian sleep/wake cycle, plus visual learning. While other terms are present, the core theme points to retinal/light-sensing pathways and circadian regulation, supporting this label. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":6},{"id":"GO:0001992","count":5},{"id":"GO:0045986","count":5},{"id":"GO:0022410","count":5},{"id":"GO:0060041","count":5}]},{"hash":"134132705376854189","title":"Mechanotransduction and Developmental Signaling","description":"This cluster centers on signaling and adhesion in response to mechanical cues, with Go terms including positive regulation of JNK cascade, cellular response to mechanical stimulus, EGFR signaling, heart and nervous system development, and tight junction assembly. Together these suggest a coherent theme of mechanosensitive signaling guiding tissue development and morphogenesis, with supporting roles in cell adhesion and remodeling. Some terms also touch immune processes, but the dominant pattern points to mechanotransduction linked to development.","confidence":"Medium","size":22,"edges":4,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046330","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0043552","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0070830","count":5}]},{"hash":"1883017515265180980","title":"Organogenesis and Tissue Differentiation","description":"The dominant GO terms center on development and morphogenesis across diverse tissues (pancreatic cell development, nervous system development, cochlea morphogenesis, hard palate development, multicellular organism development). Additional terms related to cell movement and cytoskeletal organization (lamellipodium assembly, sarcomere organization) reflect cellular processes that underpin tissue formation. Together, these terms point to a general theme of organogenesis and tissue differentiation rather than a single specific pathway, justifying the label.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0030154","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0007399","count":2}]},{"hash":"1422344367733453841","title":"Developmental Organogenesis and Immune Response","description":"The top GO terms include organogenesis-related processes (midbrain development, pancreas morphogenesis, biomineral tissue development) along with immune and inflammatory signaling (response to lipopolysaccharide, leukocyte tethering or rolling) and coagulation. This suggests proteins with roles in developmental regulation that also participate in immune/coagulation pathways, rather than a single, tightly connected function. The name emphasizes these two broad themes present in the cluster\u2019s annotations.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0030901","count":9},{"id":"GO:0007586","count":8},{"id":"GO:0044130","count":8},{"id":"GO:0032496","count":8}]},{"hash":"402825622516469001","title":"Neuronal development and synaptic organization","description":"The cluster shows strong enrichment for CNS development, multicellular organism development, and neuronal differentiation (pyramidal neuron differentiation), along with presynaptic membrane organization and cell\u2013cell adhesion. Signaling pathways like Rho and ERK cascades, which regulate neuronal connectivity and synaptic assembly, further support a neural development and synaptic function theme.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0016337","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0043552","count":3},{"id":"GO:0010863","count":3}]},{"hash":"1176419787246651492","title":"Transmembrane ion transport and pH regulation","description":"The top GO terms cluster around transmembrane transport of ions and fluids (bicarbonate, chloride, borate, and fluid transport) and regulation of intracellular pH, pointing to a set of membrane transporters involved in ion homeostasis. While several neural-related terms (pyramidal neuron development, brain morphogenesis, locomotory exploration behavior) appear, the strongest and most coherent signal across the cluster is ion transport and pH regulation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0015701","count":3},{"id":"GO:0042044","count":3},{"id":"GO:0010036","count":3},{"id":"GO:1902476","count":3}]},{"hash":"783377507715636293","title":"B cell activation and ubiquitin-mediated proteolysis","description":"The top terms are dominated by adaptive immune features: B cell receptor signaling pathway, germinal center formation, and innate immune response, with a strong signal for ubiquitin-dependent protein catabolic processes. This pattern fits a cluster focused on B cell activation and regulation of signaling through ubiquitin-mediated turnover of proteins, which modulates immune signaling. Some cardiac-related terms appear, which may reflect noise or multi-functionality, but the immune-related signals are the strongest hallmark.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":7},{"id":"GO:0042787","count":7},{"id":"GO:0098907","count":7},{"id":"GO:0002467","count":6},{"id":"GO:0007519","count":6}]},{"hash":"633310239291578089","title":"RTK-driven neural and vascular morphogenesis","description":"This cluster is largely defined by developmental signaling and morphogenesis themes: activation of transmembrane receptor protein tyrosine kinase activity (RTK signaling) and multiple neural development terms (dorsal root ganglion morphogenesis, retinal ganglion cell axon guidance, hypothalamic neuronal migration, axon guidance regulation) alongside angiogenesis involved in coronary vascular morphogenesis. While there are outliers such as complement activation and cuticle-related processes, the dominating pattern points to RTK-mediated neural and vascular development.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0007171","count":9},{"id":"GO:0001867","count":9},{"id":"GO:1904835","count":8},{"id":"GO:0018996","count":8},{"id":"GO:0060666","count":8}]},{"hash":"1303601483812334795","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000447","count":10},{"id":"GO:0000472","count":10},{"id":"GO:0000480","count":10},{"id":"GO:0071456","count":9},{"id":"GO:0050731","count":9}]},{"hash":"1193459481476329030","title":"Chromatin assembly and heterochromatin formation","description":"The top GO terms converge on chromatin organization and heterochromatin establishment: CENP-A containing chromatin assembly, rDNA and subtelomeric heterochromatin formation, and sex chromosome dosage compensation. There is also negative regulation of transcription by RNA polymerase II and histone modification-related terms, suggesting a role in transcriptional silencing and chromatin state maintenance. A few terms reflect shared structural components (protein heterotetramerization) that can appear in chromatin complexes. Overall, the cluster appears to group proteins involved in chromatin assembly and heterochromatin formation and their transcriptional regulatory consequences.","confidence":"High","size":21,"edges":72,"triangles":72,"max_degree":13,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000122","count":15},{"id":"GO:0051290","count":14},{"id":"GO:0030466","count":10},{"id":"GO:1904815","count":8},{"id":"GO:0000183","count":8}]},{"hash":"1018007031403902485","title":"Developmental patterning and tissue regeneration regulators","description":"This cluster is enriched for developmental processes (rhombomere 5 development, brain segmentation) and for tissue remodeling and regeneration (positive regulation of vascular wound healing, osteoblast differentiation, hepatocyte proliferation). The presence of transcription by RNA polymerase II suggests these proteins act as regulators coordinating growth and differentiation, while signals related to triglyceride homeostasis, IL-4 response, circadian rhythm, and ER-stress\u2013related apoptosis indicate broader roles in metabolism and stress responses that intersect with development and regeneration.","confidence":"Medium","size":21,"edges":207,"triangles":1274,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":16},{"id":"GO:0035470","count":9},{"id":"GO:0021571","count":8},{"id":"GO:0035284","count":8},{"id":"GO:0045669","count":7}]},{"hash":"1531282893380972595","title":"Mitochondrial respiration and ATP synthesis","description":"The cluster\u2019s GO terms predominantly describe mitochondrial electron transport and energy production, including protein import into the mitochondrial matrix, assembly of respiratory chain Complex IV, proton transmembrane transport, and proton motive force\u2013driven ATP synthesis. Additional terms on mitochondrial translation and protein targeting to vacuole suggest coordinated organellar protein handling, but the core signal is oxidative phosphorylation. ","confidence":"High","size":21,"edges":208,"triangles":1293,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":2},{"id":"GO:0033617","count":2},{"id":"GO:1902600","count":2},{"id":"GO:0006123","count":2},{"id":"GO:0006412","count":2}]},{"hash":"2068270216830372468","title":"Organogenesis and immune differentiation","description":"This cluster is enriched for GO terms across multiple organ development processes (lens epithelial cell proliferation, ureter development, ureteric bud branching, cardiac ventricle morphogenesis, soft palate development) and immune system regulation (regulatory T cell differentiation, Th17 differentiation regulation, IgE isotype switching). The mix suggests proteins involved in broad developmental programs (organogenesis) alongside immune cell differentiation and regulation. Confidence: Medium","confidence":"","size":21,"edges":152,"triangles":624,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:2001111","count":21},{"id":"GO:0060678","count":21},{"id":"GO:0021855","count":21},{"id":"GO:0031064","count":21},{"id":"GO:0003208","count":21}]},{"hash":"960436010850086822","title":"Unknown","description":"The terms span highly diverse biology (cell division, steroid receptor assembly, prostate and male development, brain development, photosynthesis, and signaling activities like dephosphorylation and morphine response) with no clear single function tying all proteins together. The presence of an obsolete term and a plant-specific process further reduces coherence, so no representative cluster function can be inferred.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0006463","count":5},{"id":"GO:0030850","count":5},{"id":"GO:0046661","count":5},{"id":"GO:0055114","count":5}]},{"hash":"672109119175885546","title":"Nucleic Acid Processing and Transcription Regulation","description":"This cluster centers on events related to nucleic acid metabolism and transcription control, including mRNA decay (nonsense-mediated decay), transcription initiation, and DNA unwinding related to replication, along with signals of DNA damage response (SOS) and DNA restriction-modification systems. While some GO terms are outdated and there are hints of broader stress or developmental processes, the shared theme is proteins involved in nucleic acid processing and transcription regulation under stress conditions.","confidence":"Medium","size":21,"edges":6,"triangles":0,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000184","count":8},{"id":"GO:0090305","count":8},{"id":"GO:0032508","count":8},{"id":"GO:0006268","count":7},{"id":"GO:0009432","count":7}]},{"hash":"274546815919714978","title":"Iron Homeostasis and Stress Response","description":"The top GO terms cluster around iron handling: siderophore-iron import, iron ion transport, and detoxification of iron ion, which together point to iron acquisition and management. In addition, a general stress response term (response to stress) and redox-related terms support a theme of cellular adaptation to iron-related oxidative challenges. Some obsoleted or less-coherent terms (chromosome condensation, regulation of certain enzyme activities) appear to be annotation noise, but the dominant trend ties to iron metabolism and associated protective responses. Thus, a concise label focusing on iron homeostasis best captures the cluster\u2019s core function.","confidence":"Medium","size":21,"edges":10,"triangles":5,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0048147","count":8},{"id":"GO:0033214","count":4},{"id":"GO:0097286","count":4},{"id":"GO:0006950","count":4},{"id":"GO:0006880","count":4}]},{"hash":"831815321085874847","title":"Chromatin Assembly and Epigenetic Regulation","description":"The top GO terms are dominated by nucleosome assembly and histone H3-K4 demethylation, pointing to chromatin organization and epigenetic regulation. While there are other terms related to cellular signaling (cAMP response) and multiple carbohydrate metabolic processes, these likely reflect annotation noise or multi-functional proteins rather than a single coherent metabolic module. The strongest, most coherent signal is chromatin-related functions.","confidence":"Medium","size":21,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":3},{"id":"GO:0021987","count":3},{"id":"GO:0034720","count":3},{"id":"GO:0071320","count":3},{"id":"GO:0000023","count":2}]},{"hash":"665616110774992068","title":"Cardiometabolic Development and Signaling","description":"The top GO terms cluster around development and differentiation (heart development, multicellular organism development, fat cell differentiation), cell movement, transcriptional control, and signaling pathways (including insulin receptor signaling and GTPase activity regulation). While there is a broader representation including apoptotic processes and immune defense, the core theme appears to be proteins involved in developmental processes and metabolic signaling relevant to cardiometabolic tissues.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0006915","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0045444","count":4},{"id":"GO:0050830","count":4}]},{"hash":"1404974268644857793","title":"Retinoic acid and lipid metabolism in development","description":"The cluster is enriched for retinoid-related processes (retinoic acid biosynthetic process, retinal metabolic process) and development (lung development), alongside lipid biosynthesis activities (very long-chain fatty acid and mycolic acid biosynthesis) and related metabolic/oxidation-reduction terms. This points to a cohesive theme of retinoid signaling intertwined with lipid metabolism in developmental contexts, with some noise from broad terms like antibiotic response.","confidence":"Medium","size":21,"edges":8,"triangles":2,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0030324","count":8},{"id":"GO:0042574","count":8},{"id":"GO:0042761","count":8},{"id":"GO:0055114","count":8},{"id":"GO:0006710","count":8}]},{"hash":"1075400572139778016","title":"Insect lipid biosynthesis and exocrine gland development","description":"The cluster is dominated by GO terms related to lipid metabolism and biosynthesis (sphingosine, sphinganine, monounsaturated fatty acids, fatty acid biosynthesis) and lipid-associated differentiation (white adipose tissue). An insect-specific term (tarsal gland development) suggests a role in lipid production for exocrine glands, supporting a unifying theme of lipid biosynthesis linked to glandular function. Some terms are obsolete or stress-related, but the lipid-centric signals are strong, justifying this label.","confidence":"High","size":21,"edges":13,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0070542","count":9},{"id":"GO:0044130","count":6},{"id":"GO:0046512","count":5},{"id":"GO:0010205","count":5},{"id":"GO:1903699","count":5}]},{"hash":"1870709052653679798","title":"Ribosome biogenesis and translation in cell division","description":"This cluster is dominated by GO terms for ribosome biogenesis, cytoplasmic translation, tRNA modification, and ribosomal subunit export, alongside cell cycle and cell division terms such as cell division and cell septum assembly. This points to a cohesive group of proteins involved in assembling and operating the protein-synthesis machinery that supports cell growth and division, with some signals of cell division-related processes like septum formation. Confidence: High","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0000747","count":4},{"id":"GO:0006400","count":4},{"id":"GO:0007049","count":4},{"id":"GO:1903833","count":4}]},{"hash":"2165838956076685693","title":"N- and peptidyl acetylation cluster","description":"The top GO terms are dominated by various acetylation processes (peptidyl-lysine acetylation, N-terminal acetylation, and related modifications), with additional terms touching on related metabolic and chromatin-related contexts (melatonin biosynthesis, mycothiol/glucosamine metabolism, and subtelomeric heterochromatin). This points to a cohesive theme around acetyltransferase activity and acetylation-dependent regulation, including potential links to chromatin remodeling. ","confidence":"High","size":21,"edges":110,"triangles":335,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0018003","count":9},{"id":"GO:0010125","count":8},{"id":"GO:0009447","count":8},{"id":"GO:0006041","count":8},{"id":"GO:0046208","count":8}]},{"hash":"1961510018876862985","title":"Neural development and cell polarity signaling","description":"This cluster\u2019s top GO terms emphasize nervous system development, dendritic spine/neurite-related processes, cell polarity, and endocytosis, all linked to membrane trafficking and small GTPase signaling. Together they point to roles in neuronal differentiation, polarity establishment, and actin/cytoskeletal dynamics that shape neural cells, with endocytic processes aiding receptor trafficking and signaling. While a term like hair follicle placode formation appears, the prevailing pattern centers on neural development and cell polarity.","confidence":"High","size":21,"edges":146,"triangles":484,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071963","count":18},{"id":"GO:0006897","count":18},{"id":"GO:0046909","count":18},{"id":"GO:0060999","count":18},{"id":"GO:0007399","count":18}]},{"hash":"557990881238619655","title":"Immune signaling and endothelial response","description":"The top terms include immune-related processes (mast cell chemotaxis; defense response to protozoan) and endothelial/angiogenesis-related activity (endothelial tube lumen extension), plus signaling and mechanical-stress responses (JNK cascade, cellular response to mechanical stimulus, substrate adhesion-dependent cell spreading). This suggests a cluster that spans immune signaling with vascular remodeling and mechanotransduction, rather than a narrowly defined single function.","confidence":"Low","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":5},{"id":"GO:0097498","count":5},{"id":"GO:0035690","count":5},{"id":"GO:0046330","count":5},{"id":"GO:0045740","count":5}]},{"hash":"1196904821625360030","title":"B Cell Tolerance and Receptor Trafficking","description":"The cluster is dominated by GO terms related to immune tolerance (positive regulation of tolerance induction to self antigen; positive regulation of B cell tolerance induction), mast cell cytokine production, and receptor turnover (receptor catabolic process; endosome transport). This points to a cohesive theme of immune regulation through antigen receptor trafficking and tolerance pathways, with some outlier terms (vagina development, tricuspid valve morphogenesis) likely reflecting broad or incidental annotations. ","confidence":"Medium","size":21,"edges":192,"triangles":1032,"max_degree":20,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0002651","count":21},{"id":"GO:0060068","count":21},{"id":"GO:0032801","count":21},{"id":"GO:0009611","count":21},{"id":"GO:0032762","count":21}]},{"hash":"2208451835293468728","title":"GPCR-Driven Physiological Regulation","description":"This cluster is enriched in GPCR signaling terms (adenylate cyclase activation, GPCR pathways) and related regulatory processes (membrane potential, GTPase activity, thermogenesis, and blood pressure regulation), suggesting a common theme of systemic signaling that modulates physiological and metabolic states. While some terms like the electron transport chain and pain perception are less directly tied, the dominant pattern points to GPCR-mediated signaling governing physiological regulation.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":15},{"id":"GO:0010579","count":15},{"id":"GO:0022900","count":15},{"id":"GO:0071502","count":14},{"id":"GO:0042391","count":14}]},{"hash":"329909976906053036","title":"Circadian, retinal, and vascular signaling regulators","description":"This cluster is dominated by GO terms related to signaling modulation (GTPase and ERK cascades) and tissue-specific functions in circadian rhythm, eye (retina development and phototransduction), vascular tone (vasopressin-regulated blood pressure and smooth muscle contraction), plus platelet activation and IL-10 production. The common theme is proteins that broadly regulate signaling pathways across circadian, retinal, and vascular contexts, with additional involvement in immune-related signaling. ","confidence":"Medium","size":21,"edges":16,"triangles":1,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":17},{"id":"GO:0070374","count":17},{"id":"GO:0001992","count":16},{"id":"GO:0022410","count":16},{"id":"GO:0045986","count":16}]},{"hash":"2002060096408006357","title":"Thermoregulation and sensory signaling","description":"The cluster\u2019s top GO terms revolve around responses to temperature and thermogenesis, sensory perception (pain, vision), circadian rhythm, and autonomic regulation (vasopressin-mediated blood pressure, smooth muscle contraction), along with phototransduction/retina development. This pattern suggests a module that links environmental stimulus detection to physiological regulation across systems, including nervous, endocrine, and muscular outputs.","confidence":"Medium","size":21,"edges":196,"triangles":1084,"max_degree":20,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":20},{"id":"GO:0042391","count":20},{"id":"GO:0002024","count":20},{"id":"GO:0019233","count":20},{"id":"GO:0001992","count":19}]},{"hash":"1289980796780352114","title":"GPCR Signaling and Cardiovascular Regulation","description":"The dominant GO terms point to GPCR pathways that activate adenylate cyclase and regulate vascular tone, including vasopressin-mediated blood pressure control and smooth muscle regulation. While thermogenesis and energy-related terms are also present, the core shared function appears to be GPCR-cAMP signaling governing cardiovascular physiology. ","confidence":"High","size":21,"edges":5,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":15},{"id":"GO:0002024","count":15},{"id":"GO:0019233","count":15},{"id":"GO:0010579","count":14},{"id":"GO:0045777","count":14}]},{"hash":"1519905260094948654","title":"Neuropeptide GPCR signaling in cardiovascular and circadian regulation","description":"This cluster is enriched for neuropeptide signaling and GPCR pathways (including adenylate cyclase-activating GPCR signaling), with strong links to cardiovascular regulation (blood pressure, vasopressin-mediated arterial pressure) and circadian rhythm processes, suggesting a cohesive neuropeptide-driven control of autonomic and circadian functions; additional terms related to immune signaling and metabolism appear but are less central.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035025","count":14},{"id":"GO:0007218","count":14},{"id":"GO:0032720","count":14},{"id":"GO:0045777","count":14},{"id":"GO:0048245","count":14}]},{"hash":"1165855522582451918","title":"GPCR-cAMP Signaling and Blood Pressure Regulation","description":"The top GO terms point to activation of adenylate cyclase via G protein-coupled receptors, including dopamine receptor signaling and prostaglandin responses, plus regulation of blood pressure via vasopressin. This suggests a coherent GPCR-cAMP signaling module with roles in vascular regulation and inflammatory signaling. The electron transport chain term is less central, but does not outweigh the dominant GPCR/cAMP theme. Confidence: High","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090023","count":16},{"id":"GO:0071380","count":16},{"id":"GO:0032720","count":16},{"id":"GO:0045777","count":16},{"id":"GO:0007191","count":16}]},{"hash":"524470890012597648","title":"Innate immune signaling and vesicle trafficking","description":"The top GO terms point to innate immune activities (innate immune response, defense response to virus) alongside processes tied to intracellular transport and vesicle exocytosis (intracellular protein transport, regulation of synaptic vesicle exocytosis) and ubiquitination, with Rac signaling suggesting cytoskeletal dynamics. Together, these suggest a module where immune signaling interfaces with vesicle trafficking and ubiquitin-mediated regulation, despite a few outliers like mitotic cell cycle or angiogenesis regulation. Confidence: Medium","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000300","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0006886","count":4},{"id":"GO:0051607","count":4},{"id":"GO:0016525","count":4}]},{"hash":"1829955953213087722","title":"Epithelial Polarity and Tight Junction Assembly","description":"Top terms cluster around establishment of epithelial cell polarity and tight/bicellular junction assembly, actin organization (crosslinking and filament bundles), and endocytosis, with GTPase signaling linking to cytoskeletal dynamics; while mitotic cycle terms appear, the dominant theme is polarity and junction maintenance.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0070830","count":3},{"id":"GO:0051764","count":3}]},{"hash":"1476336158070020220","title":"GTPase-driven actin remodeling and filopodium formation","description":"The cluster\u2019s top terms cluster around small GTPase signaling (e.g., small GTPase-mediated signal transduction, positive regulation of GTPase activity) together with actin cytoskeleton remodeling and filopodium assembly, plus adhesion/spreading and cell polarity. This points to a coherent theme of GTPase-regulated actin dynamics shaping cell morphology and protrusions, despite a few broader or obsolete terms (e.g., heart development, xenobiotic response) that are less central to the core function. ","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043552","count":4},{"id":"GO:0007507","count":4},{"id":"GO:1900026","count":4},{"id":"GO:0046847","count":4},{"id":"GO:0043547","count":4}]},{"hash":"1375041216102367700","title":"Rho-Regulated Actin Dynamics and Cell Motility","description":"The top GO terms cluster around actin cytoskeleton remodeling (actin filament organization, lamellipodium and microspike assembly, actin crosslink formation), Rho-regulated signaling, and processes linked to cell shape and endocytosis, all indicating a module of proteins driving dynamic actin remodeling and directed cell movement; a couple of terms may reflect secondary roles or noise rather than core function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0030035","count":6},{"id":"GO:0007015","count":5},{"id":"GO:0051764","count":5},{"id":"GO:0006897","count":5}]},{"hash":"1720768518763157871","title":"RNA Pol II Transcription Regulation","description":"The top GO terms are dominated by positive and negative regulation of transcription by RNA polymerase II (GO:0000122, GO:0045944), indicating the proteins primarily function in transcriptional control. Some terms also touch on development and immune-related processes, suggesting pleiotropy, but the transcription regulation signal is the strongest and most coherent theme for this cluster.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0044130","count":6},{"id":"GO:1903142","count":6},{"id":"GO:0045944","count":6},{"id":"GO:0030901","count":6}]},{"hash":"2072656453209043821","title":"Developmental transcriptional regulation and chromatin remodeling","description":"This cluster is dominated by GO terms for transcriptional repression by RNA Pol II, nucleosome assembly, and chromatin remodeling, indicating a core function in controlling gene expression through chromatin state. The presence of developmental terms (spermatid nucleus differentiation, placental morphogenesis, somatic stem cell maintenance) alongside vascular remodeling and coagulation signals suggests these chromatin-focused regulators participate broadly in developmental gene regulation and tissue morphogenesis. Confidence: Medium","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0007289","count":4},{"id":"GO:0006334","count":4},{"id":"GO:2000584","count":4},{"id":"GO:0060669","count":4}]},{"hash":"1215474619627364967","title":"Immune cell adhesion and T cell activation","description":"The cluster is enriched for immune-related functions, with strong signals for cell-cell adhesion (homophilic/heterophilic) at immune interfaces, T cell costimulation, and positive regulation of IL-2 production, alongside innate immune responses and phagocytosis recognition, plus protein localization to cell junctions. These terms together point to coordinated immune cell interactions and activation, especially involving T cells and immune synapse formation, rather than a single structural or metabolic role.","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":13},{"id":"GO:0007156","count":12},{"id":"GO:0031295","count":12},{"id":"GO:0046718","count":12},{"id":"GO:0045087","count":12}]},{"hash":"1820317659387216374","title":"Development and ECM organization","description":"Proteins here link developmental processes (forebrain development, multicellular organism development, angiogenesis) with extracellular matrix formation (collagen fibril organization and collagen biosynthetic process), and also include cilium assembly and basic splicing context, suggesting a developmental/ECM remodeling theme rather than a single enzymatic function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0060271","count":2},{"id":"GO:0042177","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0007202","count":2}]},{"hash":"357123995055074048","title":"Ubiquitin-Dependent Protein Degradation","description":"The top GO terms are dominated by ubiquitination processes (ubiquitin-dependent proteolysis, autoubiquitination, polyubiquitination, and ubiquitin-mediated ERAD), indicating proteins focused on tagging substrates for degradation. Additional terms point to immune signaling regulation via ubiquitin pathways (adaptive immune response and RIG-I signaling). Taken together, the cluster centers on ubiquitin-driven proteostasis and its regulatory roles, with some immune-related connections.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":17},{"id":"GO:0051865","count":9},{"id":"GO:0000209","count":9},{"id":"GO:0030433","count":9},{"id":"GO:0002250","count":8}]},{"hash":"2183088479384830516","title":"Ubiquitin-Mediated Antiviral Innate Immunity","description":"The cluster\u2019s top GO terms strongly focus on innate immune defense against viruses and ubiquitin-related signaling: innate immune response, defense response to virus, and ubiquitin-dependent protein catabolic process, including K63-linked ubiquitination, which is known to propagate antiviral signaling. Additional terms like regulation of JNK cascade and suppression of viral release by host support a coordinated antiviral response modulated by ubiquitin signaling. Some unrelated or obsolete terms appear, but the core theme is antiviral innate immunity driven by ubiquitin pathways.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0045087","count":11},{"id":"GO:0051607","count":10},{"id":"GO:0051092","count":8},{"id":"GO:0070534","count":8}]},{"hash":"45060194572293854","title":"Embryogenesis and placental/mesodermal morphogenesis","description":"The cluster centers on embryonic development with strong signals for placenta/placental cell differentiation, mesoderm formation, and tissue morphogenesis (left/right patterning, EMT in heart development, cartilage morphogenesis). The presence of endocrine system and pancreatic development terms suggests broader organogenesis, but the dominant pattern is developmental morphogenesis.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":4},{"id":"GO:0007498","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0035270","count":3}]},{"hash":"2200107060061588324","title":"Embryonic patterning and placental development","description":"The top GO terms cluster around early development and tissue formation: left/right pattern formation, trophoblast giant cell differentiation and placental development, mesoderm development, EMT-related processes in heart structures, cartilage morphogenesis, and endocrine system development, with transcriptional regulation also prominent. This combination suggests a cohesive role in embryogenesis and lineage specification rather than a single narrow function.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060972","count":21},{"id":"GO:0060707","count":21},{"id":"GO:0060806","count":21},{"id":"GO:0035270","count":21},{"id":"GO:0003198","count":21}]},{"hash":"1835729386261289982","title":"Epithelial Polarity and Cytoskeletal Remodeling","description":"This cluster is dominated by GO terms linked to epithelial cell polarity and junctions (establishment of apical/basal polarity, tight junction/bicellular junction assembly) and cytoskeletal dynamics (microvillus and lamellipodium assembly, Rho signaling). The inclusion of EMT regulation and actin remodeling signals reinforces a central theme of epithelial architecture and cytoskeleton organization. Some sensory-related terms are present but are likely secondary annotations; overall, the strongest, coherent theme is epithelial polarity and cytoskeletal remodeling.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0030033","count":6},{"id":"GO:0035023","count":5},{"id":"GO:0071320","count":5},{"id":"GO:0051835","count":5},{"id":"GO:0045198","count":5}]},{"hash":"1813003546620582383","title":"Hematopoietic development and immune signaling","description":"The GO terms point to a developmental and immune-regulatory program, with hemopoiesis and heart development alongside immune cues (defense against Gram-positive bacteria, GM-CSF and IL-7 responses) and transcription/mitotic cell cycle activity. This suggests proteins involved in developmental regulation of hematopoietic/immune lineages and their signaling rather than a single isolated pathway.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":7},{"id":"GO:0007507","count":6},{"id":"GO:0050830","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0051321","count":6}]},{"hash":"1208307476126724659","title":"Developmental differentiation and morphogenesis","description":"The top GO terms converge on organ and tissue development and the signaling that drives differentiation across multiple tissues (testis Sertoli cell proliferation, lung development, bone/cartilage differentiation such as osteoblast and chondrocyte differentiation, and heart morphogenesis). While cytokine signaling and monocyte chemotaxis regulation appear, the predominant pattern is developmental processes and morphogenetic regulation, suggesting a cohesive cluster of developmental regulators.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060011","count":4},{"id":"GO:0051091","count":4},{"id":"GO:0030324","count":4},{"id":"GO:0019221","count":3},{"id":"GO:0090027","count":3}]},{"hash":"85488023643248752","title":"Cell Cycle and Development","description":"I chose \"Cell Cycle and Development\" because the strongest terms are about cell division and mitotic processes, along with several developmental processes such as brain development, osteoblast differentiation, and multicellular organism growth. A few terms related to immune responses and viral processes appear, likely reflecting multifunctional annotations or noise, but they do not dominate the cluster's theme.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0046323","count":3},{"id":"GO:0007420","count":2},{"id":"GO:0051895","count":2}]},{"hash":"1542740740375096683","title":"DNA replication and repair network","description":"Top GO terms indicate a cohesive set of proteins involved in DNA replication, chromatin assembly at centromeres (CENP-A), and multiple DNA damage response/repair pathways (UV excision repair, translesion synthesis), plus oxidative stress response and proteasomal regulation. This combination strongly points to genome maintenance during replication. Confidence: High","confidence":"","size":20,"edges":175,"triangles":910,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0061641","count":8},{"id":"GO:0006260","count":8},{"id":"GO:0070914","count":7},{"id":"GO:0006272","count":6},{"id":"GO:0070987","count":6}]},{"hash":"266850793352801295","title":"Adhesion signaling and cytoskeletal dynamics in development","description":"The cluster is enriched for integrin activation, GTPase signaling, PI3K/AKT pathway, and Rho regulation, which all point to adhesion and cytoskeletal remodeling. The presence of terms related to neuronal development (dendritic spine formation, locomotory behavior) alongside heart development and B cell maturation suggests a broad developmental and immune context, but the core theme ties to signaling cascades that govern adhesion and cytoskeletal dynamics during development and neural function.","confidence":"Medium","size":20,"edges":23,"triangles":2,"max_degree":16,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0033622","count":12},{"id":"GO:0090630","count":11},{"id":"GO:0008344","count":11},{"id":"GO:0043491","count":11},{"id":"GO:0035023","count":10}]},{"hash":"228524407262869051","title":"Development with ribosome biogenesis and cytoskeleton remodeling","description":"The cluster combines broad developmental processes (skeletal, neuron projection, lens fiber differentiation, multicellular development) with essential cellular mechanisms like ribosome biogenesis, Arp2/3-mediated actin remodeling, vesicle trafficking, and rRNA maturation, pointing to coordinated growth and morphogenesis requiring protein synthesis and cytoskeletal dynamics.","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":2,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0001501","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0035948","count":4},{"id":"GO:0031175","count":4}]},{"hash":"1379669349973934498","title":"Embryonic Eye and Organ Development","description":"This cluster is dominated by eye-related developmental terms (retina development, embryonic eye morphogenesis, camera-type eye development) but also includes terms for other organ and tissue formation (osteoblast development, muscle organ development, epithelial tube branching in lung morphogenesis, habenula development). The common thread is embryonic development and organogenesis across multiple tissues, with eye development being the strongest signal.","confidence":"Medium","size":20,"edges":189,"triangles":1122,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060041","count":10},{"id":"GO:0002087","count":10},{"id":"GO:0048048","count":9},{"id":"GO:0002076","count":9},{"id":"GO:0006366","count":9}]},{"hash":"756105563060072234","title":"Diverse Biosynthetic Pathways","description":"The top GO terms span a wide array of biosynthetic processes (glycogen, cobalamin, biotin, antibiotic, prostaglandin, fatty acid beta-oxidation, lysine pathway) and even developmental terms, suggesting the cluster comprises proteins involved in multiple, disparate biosynthetic activities rather than a single coherent pathway. Confidence: Medium","confidence":"","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":5},{"id":"GO:0009236","count":4},{"id":"GO:0009089","count":4},{"id":"GO:0009791","count":4},{"id":"GO:0017000","count":3}]},{"hash":"1795445069216618311","title":"Developmental transcriptional regulation and chromatin remodeling","description":"This cluster is driven by transcriptional control and chromatin state, highlighted by terms like negative regulation of transcription by RNA polymerase II and chromatin remodeling. The inclusion of neural crest migration, embryonic digestive tract morphogenesis, ureteric bud branching morphogenesis, endocrine pancreas development, and lens epithelial cell proliferation suggests a shared role in developmental gene-regulatory networks across multiple tissues. Overall, the proteins appear to coordinate gene expression through chromatin remodeling during development.","confidence":"Medium","size":20,"edges":137,"triangles":474,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":16},{"id":"GO:0043044","count":12},{"id":"GO:0001755","count":11},{"id":"GO:0048557","count":11},{"id":"GO:0090190","count":11}]},{"hash":"1028647540388386508","title":"Ribosome and Translation Machinery","description":"This cluster is dominated by GO terms for translation and ribosome-related processes, including cytoplasmic and mitochondrial translation, ribosome biogenesis, and translational initiation/elongation, as well as selenocysteine incorporation. These point to a cohesive functional group centered on the core translation apparatus, with the stress/EGF and antibiotic response terms likely reflecting regulation of translation under signaling or stress rather than a separate function.","confidence":"High","size":20,"edges":3,"triangles":1,"max_degree":2,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0042254","count":3},{"id":"GO:0002181","count":3},{"id":"GO:0071364","count":3},{"id":"GO:0009636","count":3}]},{"hash":"765299073539158086","title":"Unknown","description":"These GO terms cover a wide and seemingly unrelated range of biology (reproduction, retina function, immune defense, metabolism, steroid signaling, and generic signaling/oxidation-reduction). There isn\u2019t a clear, single theme tying the cluster together, so a generic label is appropriate here.","confidence":"","size":20,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0001895","count":4},{"id":"GO:0000187","count":3},{"id":"GO:0006729","count":2},{"id":"GO:1903494","count":2}]},{"hash":"1185342298632921787","title":"Mitotic DNA replication and MAPK signaling","description":"The cluster is strongly enriched for DNA replication and mitotic cell cycle terms, plus DNA-templated transcription, indicating a core link to cell-division processes. Additionally, regulation of ERK1/ERK2 and JNK cascades, and regulation of protein stability, point to coordinated signaling control and post-translational regulation during proliferation. While some terms hint at broader neuronal signaling, the dominant theme centers on mitotic replication with MAPK pathway involvement.","confidence":"Medium","size":20,"edges":11,"triangles":1,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":19},{"id":"GO:0000278","count":19},{"id":"GO:0043552","count":17},{"id":"GO:0060079","count":17},{"id":"GO:0046330","count":17}]},{"hash":"1657297047809061789","title":"Blood Pressure Regulation via Vasopressin-GPCR-cAMP Signaling","description":"This cluster is dominated by GO terms linked to blood pressure control (positive regulation of blood pressure; regulation by vasopressin) and GPCR signaling that activates adenylate cyclase/cAMP, along with related cardiovascular and metabolic processes such as smooth muscle regulation, thermogenesis, and circadian rhythm. The convergence on vasopressin-mediated GPCR-cAMP pathways strongly suggests a coherent role in vasomotor function and BP homeostasis.","confidence":"High","size":20,"edges":7,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":16},{"id":"GO:0010579","count":16},{"id":"GO:0022900","count":16},{"id":"GO:0071502","count":15},{"id":"GO:0002024","count":15}]},{"hash":"2135802308652221012","title":"Mitotic Spindle, Kinetochore, and Cytokinesis Regulation","description":"Proteins in this cluster are enriched for mitosis-related processes: localization to the kinetochore, attachment of mitotic spindle microtubules to kinetochores, chromosome passenger complex localization to the spindle midzone, and mitotic actomyosin contractile ring maturation, along with spindle checkpoint signaling and cytokinesis regulation. These collectively point to a core theme of chromosome segregation and mitotic progression, with some MAPK-related terms likely reflecting broader signaling cross-talk. ","confidence":"High","size":20,"edges":117,"triangles":298,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0035335","count":13},{"id":"GO:0070373","count":10},{"id":"GO:0000200","count":10},{"id":"GO:0050860","count":10},{"id":"GO:0007049","count":7}]},{"hash":"1999475187486752133","title":"Neurodevelopmental Signaling and Organogenesis","description":"Based on the top GO terms, the strongest theme is neurodevelopment and neurogenesis, supported by several developmental signaling pathways (Roundabout/Robo, Smoothened) and organogenesis processes (kidney, vagina) and angiogenesis. Immune terms are present but appear as secondary connections. Overall, the cluster centers on neurodevelopmental signaling across multiple organs.","confidence":"Medium","size":20,"edges":184,"triangles":1039,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0050852","count":8},{"id":"GO:0035385","count":8},{"id":"GO:0060068","count":7},{"id":"GO:0006915","count":7}]},{"hash":"25686864284960639","title":"Actin Cytoskeleton Remodeling and Immune Motility","description":"The cluster centers on actin cytoskeleton regulation, with enriched terms for Arp2/3-mediated actin nucleation, lamellipodium and dendritic spine morphogenesis, and regulation of lymphocyte migration and T cell antigen processing. This indicates a common theme of actin-driven remodeling that supports cell movement and immune signaling, across immune and non-immune contexts. The presence of a yeast-specific term (bipolar bud site selection) is an outlier but may reflect conserved actin organization processes.","confidence":"High","size":20,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:2000601","count":2},{"id":"GO:0007121","count":2},{"id":"GO:1903526","count":2},{"id":"GO:2000402","count":2},{"id":"GO:0002625","count":2}]},{"hash":"1414359460650533313","title":"Cortical neuron migration and trafficking","description":"The cluster centers on cortical development signals such as cerebral cortex radially oriented cell migration and forebrain radial glial differentiation, paired with trafficking-related terms like protein localization to the leading edge and endosome, Golgi-to-plasma membrane transport, and ubiquitination. This suggests proteins involved in cortex development intertwined with membrane trafficking and protein turnover. ","confidence":"Medium","size":20,"edges":56,"triangles":57,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021799","count":20},{"id":"GO:0071389","count":20},{"id":"GO:0021861","count":20},{"id":"GO:0043552","count":20},{"id":"GO:0060193","count":20}]},{"hash":"1358704912532620046","title":"TGF-\u03b2 signaling regulators","description":"This cluster is dominated by GO terms about negative regulation of the TGF-\u03b2 receptor signaling pathway and cellular responses to TGF-\u03b2 stimuli, with related mentions of SMAD complex regulation and dephosphorylation, suggesting a group of proteins that modulate TGF-\u03b2 signaling and downstream transcriptional effects. Additional terms on nuclear export and vesicle/vacuole regulation hint at broader intracellular trafficking roles that often accompany signaling control, though some plant-specific terms appear as context or noise. ","confidence":"Medium","size":20,"edges":176,"triangles":912,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030512","count":13},{"id":"GO:0046827","count":11},{"id":"GO:0071560","count":11},{"id":"GO:0010074","count":10},{"id":"GO:0010991","count":10}]},{"hash":"1127556896368339465","title":"Immune receptor signaling and angiogenesis","description":"The cluster is strongly enriched for adaptive immune signaling terms (B cell receptor signaling, T cell receptor signaling), innate immune response, and interleukin-7\u2013related signaling, with angiogenesis also highly represented. This suggests proteins involved in immune cell activation and communication, potentially linked to vascular remodeling or development. The presence of actin filament binding further supports roles in cytoskeletal reorganization during immune responses and cell movement. Overall, the dominant theme is immune signaling with connections to angiogenic processes.","confidence":"High","size":20,"edges":29,"triangles":16,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001525","count":18},{"id":"GO:0050853","count":18},{"id":"GO:0051092","count":18},{"id":"GO:0050852","count":18},{"id":"GO:0045087","count":18}]},{"hash":"1666316961517896593","title":"Actin cytoskeleton remodeling and cell adhesion","description":"The cluster is dominated by actin-related terms (microspike assembly, actin crosslink formation, actin cortical patch localization) and regulators of Rho signaling, plus processes for cell adhesion, spreading, and polarity, with a note of synaptic potentiation. These converge on actin-driven changes in cell shape and adhesion across cell types, yielding a cohesive theme of cytoskeletal remodeling linked to adhesion and morphology.","confidence":"High","size":20,"edges":20,"triangles":1,"max_degree":18,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006915","count":6},{"id":"GO:0035023","count":5},{"id":"GO:0030035","count":5},{"id":"GO:0051764","count":5},{"id":"GO:0007155","count":5}]},{"hash":"483459957096455376","title":"Diverse Signaling and Ubiquitination Proteins","description":"The top GO terms point to multiple signaling-related processes (Wnt signaling, GPCR signaling, calcium ion release, and NF-kappaB-related regulation) along with ubiquitination, immune-related differentiation, and broad multicellular processes. The terms are heterogeneous and do not converge on a single pathway, suggesting the cluster comprises proteins involved in diverse signaling and post-translational regulation across contexts. Hence, a concise label like \u201cDiverse Signaling and Ubiquitination Proteins\u201d best captures the overarching theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010745","count":8},{"id":"GO:0016567","count":8},{"id":"GO:0007205","count":7},{"id":"GO:0098907","count":7},{"id":"GO:0016055","count":7}]},{"hash":"1385955208491245877","title":"Actin Cytoskeleton Remodeling and Cell Signaling","description":"The cluster is dominated by GO terms related to actin dynamics (positive regulation of actin filament polymerization, podosome and filopodium assembly) and cell adhesion spreading, along with multiple signaling pathways (EGFR, Ephrin, Wnt, T cell receptor) and small GTPase\u2013mediated signaling, suggesting a cohesive group of proteins that coordinate cytoskeletal remodeling with diverse receptor- and GTPase-driven signals. High confidence in this functional theme.","confidence":"High","size":20,"edges":30,"triangles":0,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030838","count":17},{"id":"GO:0090263","count":17},{"id":"GO:0007264","count":17},{"id":"GO:0043552","count":16},{"id":"GO:0007173","count":16}]},{"hash":"2253696948724072640","title":"Neuronal development and Rho-cytoskeletal signaling","description":"This cluster centers on neural development themes: brain and spinal cord development, neuron projection development, and microtubule-based movement, plus positive regulation of GTPase activity and Rho signaling, which drive cytoskeletal remodeling during neuron growth. There are also shared gene expression processes (transcription/splicing) that support development. Some terms (defense response, skeletal development) are less cohesive with the main neural/cytoskeletal theme, but overall the cluster appears to reflect neural differentiation and cytoskeletal regulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0007018","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0006351","count":3}]},{"hash":"598273751838385621","title":"Developmental signaling and tissue response","description":"The top GO terms point to multicellular development and tissue-specific processes (e.g., skin development) along with signaling and stimulus response activities (mechanical stimulus response, hypoxia, autophosphorylation). This suggests a broad cluster of proteins involved in developmental signaling and tissue-context responses rather than a single pathway.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":7},{"id":"GO:0098907","count":7},{"id":"GO:0031954","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0071260","count":6}]},{"hash":"2189865358609859773","title":"Neuronal Signaling and Angiogenesis Regulation","description":"This cluster centers on neural communication, with terms like neurotransmitter secretion, regulation of synaptic vesicle exocytosis, calcium signaling, and long-term potentiation, indicating active synaptic signaling. It also includes angiogenesis-related terms (angiogenesis, negative regulation of VEGF receptor signaling, negative regulation of angiogenesis) and Rho signaling, suggesting cross-talk between neural signaling and vascular regulation. The shared emphasis on signaling pathways across neural and vascular processes supports a cohesive functional theme around neuronal signaling linked with vascular regulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016525","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0007269","count":3},{"id":"GO:0043065","count":3}]},{"hash":"57747338443742006","title":"Cardiac GPCR signaling and contraction regulation","description":"Predominant GO terms center on GPCR-mediated signaling in cardiac contexts (acetylcholine and tachykinin receptor pathways), regulation of cardiac muscle contraction and heart development, and related signaling cascades (Rho/GTPase). This suggests a coherent cluster of proteins involved in heart signaling and contractile control.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0030845","count":4},{"id":"GO:0007217","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0045988","count":4}]},{"hash":"1951052899293554893","title":"Neural differentiation and migration","description":"Dominant GO terms point to brain development and neuron specification, including midbrain dopaminergic neuron differentiation, Purkinje cell precursor signaling, and motor neuron migration, suggesting a cohesive theme of neuronal differentiation and migration. While a few terms (e.g., platelet aggregation, sulfur oxidation) are less connected and may reflect annotation noise, the neural development signals are strong and representative of the cluster's function.","confidence":"High","size":20,"edges":176,"triangles":908,"max_degree":19,"top_function":"wound healing","top_go_terms":[{"id":"GO:0070527","count":9},{"id":"GO:0097477","count":9},{"id":"GO:0055114","count":6},{"id":"GO:0035847","count":5},{"id":"GO:1904948","count":5}]},{"hash":"26298331926066238","title":"Aromatic compound degradation and detoxification","description":"This cluster is enriched for catabolic pathways of aromatic and xenobiotic compounds (beta-ketoadipate, stilbene, 1,2-dichloroethane) and detoxification processes (cellular oxidant detoxification, response to toxic substance, glucuronoside catabolic/prostaglandin catabolic), suggesting proteins focused on degrading environmental aromatics and detoxifying reactive compounds. ","confidence":"High","size":20,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0009636","count":9},{"id":"GO:0042952","count":7},{"id":"GO:0046272","count":6},{"id":"GO:0098869","count":6}]},{"hash":"193056508666306984","title":"Developmental signaling and neural connectivity","description":"This cluster shows a mix of general development terms (ossification, multicellular development, heart development) with neural-specific processes (axonogenesis, synapse assembly, excitatory postsynaptic potential) and signaling pathways (ERK cascade, Rho signaling, EGFR activity), suggesting proteins that coordinate developmental signaling with neural differentiation and synaptic formation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0007175","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0051965","count":4}]},{"hash":"2042356440999545444","title":"Cell cycle and RNA regulation","description":"The cluster\u2019s top GO terms point to processes governing cell proliferation (cell cycle, regulation of CDK activity) and genomic maintenance (telomere maintenance/capping), along with RNA-centric control (mRNA processing and stability). While there are also terms related to migration, adipogenesis, and mechanotransduction, the core theme appears to be regulation of cell growth and gene expression at the RNA and telomere levels, rather than a single signaling pathway. This makes \"Cell cycle and RNA regulation\" a concise, representative label, albeit with some functional heterogeneity among members.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":4},{"id":"GO:0032212","count":4},{"id":"GO:0043488","count":4},{"id":"GO:0045736","count":4},{"id":"GO:0045444","count":4}]},{"hash":"1562643250587676683","title":"Unknown","description":"The top GO terms are highly diverse, spanning stress fiber assembly and chromatin regulation as well as multiple catabolic and detoxification processes, with no clear single function tying all proteins together.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043149","count":4},{"id":"GO:0043388","count":4},{"id":"GO:2001015","count":4},{"id":"GO:0042952","count":3},{"id":"GO:0017000","count":3}]},{"hash":"2233702058145901402","title":"Embryonic development and organogenesis","description":"Dominant GO terms describe embryonic development and morphogenesis (endocardial EMT in heart formation, cartilage morphogenesis, left-right patterning, placenta and endocrine system development, trophoblast and pancreatic cell differentiation). A smaller subset relates to RNA processing, which may reflect background cellular machinery rather than defining the cluster. Taken together, the proteins appear to participate in embryogenesis and organ formation.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":13},{"id":"GO:0060806","count":13},{"id":"GO:0060536","count":13},{"id":"GO:0035270","count":13},{"id":"GO:0060972","count":13}]},{"hash":"627897485466450198","title":"Ubiquitin-Dependent Protein Turnover and Signaling","description":"Dominant ubiquitin-dependent protein catabolic process alongside links to circadian rhythm regulation, muscle and sarcomere organization, cell division machinery, renal transport, and immune signaling suggests a core theme of ubiquitin-mediated regulation of diverse cellular processes. While some terms (e.g., glucosinolate catabolic process) may reflect annotation noise or cross-kingdom associations, the central pattern is proteolytic regulation via ubiquitination affecting multiple pathways.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0042752","count":11},{"id":"GO:0035914","count":10},{"id":"GO:0035853","count":9},{"id":"GO:0070294","count":9}]},{"hash":"236039531468209931","title":"Actin Remodeling and Vesicle Trafficking in Organ Development","description":"This cluster centers on actin cytoskeleton dynamics (reorganization, cortical patch assembly, cell spreading) and membrane trafficking processes (invagination, tubulation, COPII cargo loading), with organ-development terms (heart, uterus) suggesting roles in tissue morphogenesis. The combination points to coordinated cytoskeletal remodeling and membrane trafficking during development.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:1900026","count":4},{"id":"GO:0031532","count":4},{"id":"GO:0060065","count":4},{"id":"GO:0000147","count":4}]},{"hash":"1749069633509088917","title":"Epithelial adhesion, polarity, and junction assembly","description":"It is driven by epithelial-related processes: integrin activation, Rho signaling, receptor internalization, tight junction assembly, and apical/basal polarity establishment, all tied to membrane localization and cell migration. Some terms like gland morphogenesis and synapse plasticity appear but likely reflect shared motifs in cell adhesion and signaling.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0033622","count":7},{"id":"GO:0035023","count":7},{"id":"GO:0031623","count":7},{"id":"GO:0051549","count":6},{"id":"GO:0070830","count":6}]},{"hash":"1175330281461177936","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":72,"triangles":202,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0045071","count":6},{"id":"GO:0009636","count":6},{"id":"GO:0006397","count":6},{"id":"GO:0035455","count":6},{"id":"GO:0006382","count":6}]},{"hash":"513822125657925730","title":"RNA methylation and capping enzymes","description":"The top GO terms cluster around RNA modification: rRNA and tRNA methylation, tRNA wobble uridine modification, and 7-methylguanosine mRNA capping, plus a methylation term for arginine residues. These shared functions point to RNA maturation/modification processes, suggesting the proteins act as RNA-modifying enzymes. Some other terms (nodulation, antibiotic biosynthesis, cellular senescence) are tangential, but the strongest signal is RNA methylation/capping.","confidence":"Medium","size":19,"edges":86,"triangles":172,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0009236","count":7},{"id":"GO:0031167","count":7},{"id":"GO:0030488","count":7},{"id":"GO:0090398","count":7}]},{"hash":"742307407054375030","title":"Transcriptional Regulation and Circadian Hormone Responses","description":"This cluster is dominated by transcription-related GO terms (DNA-templated transcription, RNA polymerase II transcription) and a clear signal of circadian control of gene expression, along with cellular responses to estradiol and developmental timing of neuron differentiation. These together point to a core function in regulating gene expression in response to circadian and hormonal cues, with some involvement in stress-related transcriptional regulation. Confidence: High","confidence":"","size":19,"edges":153,"triangles":706,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":11},{"id":"GO:0045872","count":10},{"id":"GO:0043433","count":10},{"id":"GO:0032922","count":10},{"id":"GO:0006366","count":9}]},{"hash":"48309661761549047","title":"Membrane trafficking and mitochondrial dynamics in apoptosis","description":"This cluster is enriched for GO terms tied to membrane trafficking (clathrin-dependent endocytosis, endosome organization, regulation of Golgi organization) and mitochondrial dynamics (mitochondrial membrane fission, mitochondrial fragmentation involved in apoptotic process) as well as the apoptotic process. Together these terms suggest a cohesive theme of coordinating cargo trafficking and organelle remodeling during cell stress and death, with a few broader membrane-related terms that are likely peripheral. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051260","count":15},{"id":"GO:1903358","count":9},{"id":"GO:0072583","count":8},{"id":"GO:0043653","count":8},{"id":"GO:0006915","count":8}]},{"hash":"1736050321236390719","title":"Eye and neural development","description":"The dominant terms point to ocular and neural development: retina development, camera-type eye development, lens fiber cell differentiation, visual perception, as well as forebrain and brain development, and pituitary gland development. This suggests the cluster probes proteins involved in eye formation and brain differentiation. The other terms (single fertilization, male gonad development) are less central, possibly reflecting broader expression but do not override the main eye/brain theme.","confidence":"High","size":19,"edges":6,"triangles":0,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0008584","count":7},{"id":"GO:0060041","count":6},{"id":"GO:0007420","count":6},{"id":"GO:0030900","count":6}]},{"hash":"1465389084392224193","title":"Embryonic organ and tissue morphogenesis","description":"The GO terms point to developmental and morphogenetic processes across multiple organs (habenula, retina/eye, heart, cranial skeleton, osteoblasts, placenta, etc.), indicating a shared role in embryonic tissue formation. A couple of terms relate to transcriptional regulation and growth, which can accompany developmental programs, but the dominant theme is broad embryonic morphogenesis. ","confidence":"High","size":19,"edges":141,"triangles":546,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021986","count":8},{"id":"GO:2000288","count":8},{"id":"GO:0003148","count":8},{"id":"GO:0060041","count":7},{"id":"GO:0007507","count":7}]},{"hash":"1511888832072284083","title":"RNA Splicing and mRNA Stability Regulation","description":"The top GO terms are dominated by spliceosome- and splicing-related processes (alternative splicing, regulation of splicing, small-subunit processome assembly) along with mRNA stability and regulation under stress, plus miRNA-mediated translational repression. This points to a cluster of proteins primarily involved in RNA processing and post-transcriptional gene regulation rather than metabolic or signaling pathways. Confidence: High","confidence":"","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":19},{"id":"GO:0000381","count":13},{"id":"GO:0000380","count":11},{"id":"GO:0001825","count":11},{"id":"GO:0075525","count":11}]},{"hash":"684624949493628348","title":"Craniofacial and neural crest development","description":"This cluster is enriched for neural crest migration, craniofacial structure formation (roof of mouth/palate), and skeletal development (bone, cartilage), with supporting neural signaling terms (AMPA receptor clustering, long-term synaptic depression) and patterning (anterior/posterior). The combination suggests a vertebrate craniofacial/neural development theme where neural crest\u2013derived tissues contribute to facial bones and palate while neural connectivity processes accompany maturation. Overall, the dominant signal points to craniofacial and neural development with signaling roles.","confidence":"Medium","size":19,"edges":26,"triangles":0,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0060292","count":4},{"id":"GO:0051216","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0001755","count":3},{"id":"GO:0060065","count":3}]},{"hash":"1031123184864332117","title":"Meiotic Recombination and DNA Repair","description":"The cluster\u2019s top GO terms cluster around DNA repair, meiotic recombination, heteroduplex formation, and telomere maintenance via recombination, with additional links to DNA replication and stress responses. This combination strongly points to a set of proteins involved in genome maintenance during meiosis and the associated DNA repair/recombination processes, rather than a general metabolic or signaling theme.","confidence":"High","size":19,"edges":100,"triangles":214,"max_degree":15,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":6},{"id":"GO:0051260","count":5},{"id":"GO:0007131","count":4},{"id":"GO:0030491","count":4},{"id":"GO:0006268","count":4}]},{"hash":"1984051440701916454","title":"Spliceosome-driven mRNA processing and regulation","description":"The cluster is dominated by GO terms related to mRNA splicing via the spliceosome (including alternative splicing and both positive and negative regulation of splicing), as well as related RNA processing activities such as mRNA polyadenylation and stress-related mRNA stability, and even RNA silencing via miRNA pathways. This combination points to a cohesive theme centered on RNA processing and splicing regulation, despite a couple outliers that are less central to this function.","confidence":"High","size":19,"edges":122,"triangles":365,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":15},{"id":"GO:0045292","count":15},{"id":"GO:0010610","count":13},{"id":"GO:1901407","count":12},{"id":"GO:0048025","count":12}]},{"hash":"1853459095028639465","title":"Central carbon metabolism and energy production","description":"The dominant GO terms map to glycolysis, the TCA cycle, and related carbon flux (glucose, 2-oxoglutarate, pyruvate to acetyl-CoA) with thiamine biosynthesis as a cofactor link, indicating these proteins participate in core energy metabolism.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":12},{"id":"GO:0006096","count":8},{"id":"GO:0055114","count":5},{"id":"GO:0019878","count":5},{"id":"GO:0006103","count":5}]},{"hash":"1641719022914669536","title":"Actin cytoskeleton remodeling and phagocytosis","description":"The set centers on actin-driven processes: phagocytosis, microspike assembly, Rho-mediated cytoskeletal signaling and actin filament binding, pointing to actin remodeling and membrane protrusion essential for engulfment; other terms hint at related signaling and developmental contexts (calcium regulation, cerebellum morphogenesis, IL-7 response). The core theme across proteins is cytoskeletal dynamics underpinning phagocytic and motile functions.","confidence":"Medium","size":19,"edges":20,"triangles":1,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006909","count":14},{"id":"GO:0043552","count":14},{"id":"GO:0035023","count":14},{"id":"GO:0010863","count":14},{"id":"GO:0030035","count":14}]},{"hash":"2262342852740727408","title":"Neural development and axon pathfinding","description":"The cluster\u2019s predominant terms center on nervous system development (spinal cord development, neuromuscular junction development, eye morphogenesis) and neuronal wiring processes (axon fasciculation, filopodium assembly, synapse assembly, transmission of nerve impulse, and Rho-mediated cytoskeletal dynamics), indicating a cohesive theme of neural development and axon guidance/synaptic formation.","confidence":"High","size":19,"edges":24,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0021510","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0019226","count":2},{"id":"GO:0046847","count":2},{"id":"GO:0007205","count":2}]},{"hash":"1809551652982291281","title":"Neural development and morphogenesis","description":"This cluster centers on nervous system development, with terms for neural tube closure, dendrite morphogenesis, pain perception, and multicellular development, plus DNA-templated transcription suggesting developmental gene regulation. While a few terms (potassium transport, defense response, skeletal development) are broader, the dominant signal points to neural development and morphogenesis.","confidence":"Medium","size":19,"edges":39,"triangles":27,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":16},{"id":"GO:0006351","count":16},{"id":"GO:0043552","count":15},{"id":"GO:0006813","count":15},{"id":"GO:0046827","count":15}]},{"hash":"1032822705879724034","title":"Immune Activation and Cytotoxic Signaling","description":"The terms cluster around immune system activation and cytotoxic function: regulation of CD8+ T cell proliferation, dendritic cell differentiation, mast cell chemotaxis, and granzyme B production, along with PI3K signaling pathways that drive lymphocyte activation. Heterophilic cell-cell adhesion supports immune cell interactions, suggesting a cohesive module of immune activation and cytotoxic signaling.","confidence":"High","size":19,"edges":28,"triangles":14,"max_degree":18,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043552","count":6},{"id":"GO:0048661","count":6},{"id":"GO:0035584","count":6},{"id":"GO:0014068","count":6},{"id":"GO:0002551","count":6}]},{"hash":"383883407224415987","title":"Embryonic Eye and Brain Morphogenesis with Transcriptional Regulation","description":"The GO terms are dominated by embryonic development, especially ocular morphogenesis (eye development, lens proliferation) and brain segmentation, with transcriptional regulation by RNA polymerase II as a central theme. While other organ morphogenesis terms appear, the strongest signal is eye- and brain-related development governed by transcriptional control.","confidence":"Medium","size":19,"edges":123,"triangles":355,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0048048","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0043010","count":5}]},{"hash":"404227170648132789","title":"Unknown","description":"The top GO terms span very different biological themes\u2014 antiviral/dsRNA response, glucose-related signaling, ion transport, reproductive development, receptor turnover, wound and immune-related responses, and drug response\u2014without a single unifying function, so a cohesive label isn\u2019t evident.","confidence":"","size":19,"edges":107,"triangles":293,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0043330","count":13},{"id":"GO:0071333","count":13},{"id":"GO:0006813","count":12},{"id":"GO:0048240","count":12},{"id":"GO:0002651","count":11}]},{"hash":"2032546088618990936","title":"Energy metabolism and oxidative stress response","description":"The top GO terms show core metabolic pathways (glycolysis and TCA cycle), indicating robust energy production. Additional terms point to redox biology and xenobiotic response (oxidation-reduction, response to xenobiotic stimulus, menadione-related stress), consistent with cellular defenses against oxidative stress and detoxification. While a few terms hint at development/differentiation, the dominant theme is energy metabolism coupled with redox/xenobiotic handling.","confidence":"High","size":19,"edges":148,"triangles":658,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006096","count":15},{"id":"GO:0006099","count":15},{"id":"GO:0042493","count":15},{"id":"GO:0055114","count":14},{"id":"GO:0006574","count":10}]},{"hash":"2165566103332061705","title":"Diverse Biosynthetic Pathways","description":"The top GO terms point to a range of biosynthetic processes (lysine, arginine, biotin, chlorophyll, ectoine, antibiotic, glycogen) plus foundational metabolic activities (TCA cycle) and even cell wall organization. This suggests the cluster comprises proteins involved in synthesizing a variety of metabolites rather than a single pathway, hence a broad \u201cdiverse biosynthetic pathways\u201d label. Confidence: Medium","confidence":"","size":19,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019878","count":6},{"id":"GO:0009089","count":5},{"id":"GO:0006099","count":4},{"id":"GO:0042450","count":4},{"id":"GO:0005978","count":4}]},{"hash":"909813713348946750","title":"Retinoid and steroid lipid biosynthesis","description":"Based on the top GO terms, the cluster centers on lipid-related biosynthesis, notably retinoid (retinol, retinoic acid) and steroid (glucocorticoid, androgen) biosynthesis, along with very long-chain fatty acid and mycolic acid biosynthesis. The presence of lung development and retinal metabolic process supports tissue-specific roles for retinoids, while multiple lipid biosynthesis terms suggest a cohesive function in lipid metabolism and signaling across tissues. Together, these proteins likely participate in lipid and retinoid/steroid biosynthetic pathways.","confidence":"High","size":19,"edges":159,"triangles":793,"max_degree":18,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":17},{"id":"GO:0030324","count":15},{"id":"GO:0042574","count":15},{"id":"GO:0042761","count":15},{"id":"GO:0006710","count":15}]},{"hash":"1428157144236717378","title":"Immune tolerance and endosomal trafficking","description":"The top terms show immune regulation, especially tolerance induction in B cells and self-antigen tolerance, along with mast cell cytokine production, suggesting a cluster centered on immune tolerance and signaling. Several terms point to endocytic processes and receptor trafficking (receptor catabolic process, regulation of early to late endosome transport), implying coordinated regulation of receptor turnover. Some developmental terms appear unrelated and may be incidental, but the core signal is immune tolerance combined with endosomal regulation.","confidence":"Medium","size":19,"edges":170,"triangles":952,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0002651","count":19},{"id":"GO:0060068","count":19},{"id":"GO:0032801","count":19},{"id":"GO:0009611","count":19},{"id":"GO:0032762","count":19}]},{"hash":"1607330062621068696","title":"Dopaminergic signaling and cardiovascular regulation","description":"Based on the top GO terms, the proteins are enriched for dopaminergic neurotransmission (GO:0001963) and behavioral responses to cocaine, together with cardiovascular-related signaling and development (GO:0007507 heart development; GO:0045777 positive regulation of blood pressure; GO:0010579 GPCR signaling that activates adenylyl cyclase; GO:0007190 activation of adenylate cyclase). This points to a coherent theme of dopamine-driven signaling influencing heart function and drug response, with supporting core cellular processes (electron transport chain, protein phosphorylation). The inclusion of these terms suggests a cluster centered on dopaminergic signaling impacting cardiovascular regulation and psychostimulant responses, hence the label.","confidence":"Medium","size":19,"edges":6,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":13},{"id":"GO:0010579","count":13},{"id":"GO:0007190","count":13},{"id":"GO:0022900","count":13},{"id":"GO:0019233","count":13}]},{"hash":"368141891510124632","title":"GPCR-Mediated Vascular Signaling and BP Regulation","description":"The cluster is dominated by GO terms tied to GPCR signaling (including adenylate cyclase activation) and processes that govern vascular tone and blood pressure (vasoconstriction, vasopressin regulation, platelet activation, and dopaminergic signaling), with cross-talk to ERK signaling. While there is also a mention of electron transport, the strongest common theme is GPCR-driven signaling affecting cardiovascular and vascular functions.","confidence":"Medium","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":7},{"id":"GO:0045777","count":7},{"id":"GO:0022900","count":7},{"id":"GO:0035025","count":7},{"id":"GO:0035625","count":7}]},{"hash":"1256548160699573658","title":"Neural Sensory Signaling and Drug Response","description":"The cluster centers on neural and sensory signaling with drug-response associations. Terms cover pain perception, vision, temperature and thermogenesis, brain neuroendocrine signaling (brain RAS), and behavioral responses to cocaine and morphine, with ERK signaling as a common pathway. While some terms touch cardiovascular remodeling (heart development), the dominant theme is neural sensory processing tied to drug-response pathways, so this label fits.","confidence":"Medium","size":19,"edges":52,"triangles":26,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":14},{"id":"GO:0071502","count":12},{"id":"GO:0002024","count":12},{"id":"GO:0007601","count":11},{"id":"GO:0007507","count":10}]},{"hash":"1010272143626312218","title":"Neural signaling and behavioral response","description":"The dominant GO terms cluster around brain signaling and behavior: sensory pain perception, dopaminergic synaptic transmission, cocaine response, visual learning, ERK signaling, and responses to various stimuli. These point to neural plasticity and behavioral regulation. A few terms (heart development, thermogenesis) may reflect broader signaling pleiotropy, but the overall theme is neural signaling and behavior.","confidence":"Medium","size":19,"edges":25,"triangles":0,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":17},{"id":"GO:0007507","count":14},{"id":"GO:0071502","count":14},{"id":"GO:0001963","count":14},{"id":"GO:0048148","count":14}]},{"hash":"942846639958167599","title":"Unknown","description":"The cluster's top GO terms are very diverse, spanning signaling (Rho, GPCR), cardiovascular development and blood pressure, energy metabolism (electron transport chain, membrane potential), immune defense, xenobiotic response, and pain regulation. This lack of a single coherent biological theme makes it hard to assign a confident, representative function to the cluster; thus the appropriate label is Unknown.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035025","count":12},{"id":"GO:0045777","count":12},{"id":"GO:0010579","count":12},{"id":"GO:0022900","count":12},{"id":"GO:0007507","count":11}]},{"hash":"1341510028973404919","title":"Vision and Thermosensory Signaling","description":"This cluster centers on sensory signaling tied to temperature and light, with GO terms for temperature response and thermogenesis alongside phototransduction and retina development. The presence of circadian rhythm and pain perception terms supports a broad sensory-regulation theme. Some terms related to blood pressure regulation and smooth muscle contraction appear peripheral to the core signal. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":10},{"id":"GO:0002024","count":10},{"id":"GO:0035625","count":10},{"id":"GO:0019233","count":10},{"id":"GO:0001992","count":9}]},{"hash":"250207426637959629","title":"LPS-driven inflammation and vascular signaling","description":"This cluster is dominated by GO terms related to innate immune responses to bacteria (response to lipopolysaccharide, defense response to bacterium, inflammatory response), indicating a core theme of bacterial detection and inflammation. Additional terms point to regulation of vascular tone (positive regulation of blood pressure, vasoconstriction, negative regulation of smooth muscle contraction) and GPCR-Rho signaling, suggesting linked modulation of vascular responses during inflammation. A few energy/metabolic terms (electron transport chain) may reflect general cellular activation. Overall, the primary signal is bacterial inflammatory response with associated vascular regulation.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045986","count":14},{"id":"GO:0032496","count":14},{"id":"GO:0035025","count":14},{"id":"GO:0006954","count":14},{"id":"GO:0045777","count":14}]},{"hash":"316704700437471844","title":"Cardiovascular GPCR-Calcium Signaling","description":"This cluster centers on GPCR signaling and calcium flux, with heart development and coagulation pointing to cardiovascular relevance; thermogenesis terms add metabolic context. Shared theme: GPCR-driven calcium signaling in cardiovascular biology, with some immune/metabolic associations.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022400","count":6},{"id":"GO:0043950","count":6},{"id":"GO:0051209","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0006468","count":6}]},{"hash":"39814979844352454","title":"Neuronal ion channel signaling and excitability","description":"The top GO terms point to ion transport across membranes (sodium, potassium, calcium), membrane depolarization, and excitatory/inhibitory signaling (excitatory postsynaptic potential, GABA pathway), complemented by behavioral and circadian-related terms such as startle, locomotory behavior, conditioned taste aversion, and sleep regulation. This pattern indicates proteins involved in neuronal signaling and excitability, integrating ion channel activity with synaptic transmission and associated behaviors.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":16},{"id":"GO:0071805","count":15},{"id":"GO:0060079","count":15},{"id":"GO:0001661","count":14},{"id":"GO:0007626","count":14}]},{"hash":"795126252050396198","title":"Vertebrate Development & Organogenesis","description":"This set centers on vertebrate development and organogenesis, with terms spanning neural crest migration, cochlea and cartilage morphogenesis, gonad/forebrain development, and mammary gland involution, plus gene regulation and redox balance that support developmental processes.","confidence":"Medium","size":19,"edges":20,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001755","count":3},{"id":"GO:0008584","count":3},{"id":"GO:0023019","count":3},{"id":"GO:0006366","count":2},{"id":"GO:0045454","count":2}]},{"hash":"1271835082104475091","title":"Neural development and synapse formation","description":"This cluster is driven by terms related to neural development and connectivity, including synapse organization, synapse assembly, dendritic spine morphogenesis, neurogenesis, and axon guidance (ROBO signaling), as well as interneuron migration. While a couple of terms touch on heart/muscle processes, the dominant signal points to neuronal development and synaptic connectivity.","confidence":"High","size":19,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050808","count":12},{"id":"GO:0021836","count":10},{"id":"GO:0035023","count":10},{"id":"GO:0042552","count":10},{"id":"GO:0051965","count":10}]},{"hash":"1608572701413911203","title":"B cell\u2013driven adaptive immunity and phagocytosis","description":"These proteins cluster around B cell receptor signaling, immunoglobulin production, and complement activation, with associated phagocytosis and innate immune response terms. The convergence on B cell activation and antibody-related processes, plus recognition and engulfment steps, suggests a functional module focused on adaptive immunity initiated by B cells and linked innate responses. Therefore the label emphasizes B cell\u2013driven adaptive immunity and phagocytosis.","confidence":"High","size":19,"edges":14,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":9},{"id":"GO:0050853","count":9},{"id":"GO:0007157","count":9},{"id":"GO:0006911","count":9},{"id":"GO:0002377","count":9}]},{"hash":"639289237431342952","title":"Hematopoietic adhesion and development","description":"The top GO terms point to cytoskeletal signaling (Rho), cell adhesion, KIT signaling, megakaryocyte development, and adaptive immune response, suggesting a theme around hematopoietic cell signaling, adhesion, and development within a bone-marrow\u2013like context. Although sarcomere organization and skeletal system development appear, they align with cellular and structural aspects of hematopoietic niches and lineage development, rather than a single muscle-specific function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0045214","count":3},{"id":"GO:0002250","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0010863","count":3}]},{"hash":"569014215748464168","title":"Ubiquitin-Dependent Protein Turnover and Signaling","description":"Reasoning: The top GO terms center on ubiquitination processes (ubiquitin-dependent protein catabolic process, K33-linked ubiquitination, negative regulation of ubiquitination) and protein interactions, suggesting a core theme of ubiquitin-mediated protein turnover and regulation of signaling. Immune and developmental terms (B cell receptor signaling, germinal center formation, distal tubule morphogenesis, skeletal muscle fiber development) imply broader tissue-specific roles, but the dominant signal is ubiquitin-related regulation of proteins and pathways.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0051260","count":9},{"id":"GO:0070294","count":7},{"id":"GO:2000312","count":7},{"id":"GO:1990390","count":7}]},{"hash":"560454923454756708","title":"ER-Golgi Transport and Secretory Granule Maturation","description":"Based on the top GO terms, the majority point to vesicle-mediated transport between the ER and Golgi and related intracellular protein transport, including dense core granule maturation. This suggests a core role in the secretory pathway and membrane trafficking, with some additional terms (pigmentation, actin regulation, transcription) likely reflecting broader cellular processes in these proteins. ","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0000278","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0000902","count":2}]},{"hash":"1084340992037765429","title":"Axon Guidance and Neurodevelopment Signaling","description":"The top GO terms cluster around nervous system development and axon navigation (axon guidance, neuron projection development, nervous system development) and signaling pathways like Hedgehog (Smoothened) and ROBO (Roundabout), indicating a coherent neurodevelopmental theme. Immune-related terms appear less central to the core function. ","confidence":"High","size":19,"edges":27,"triangles":9,"max_degree":17,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007411","count":13},{"id":"GO:0007399","count":13},{"id":"GO:0007224","count":12},{"id":"GO:0035385","count":12},{"id":"GO:0001788","count":12}]},{"hash":"1272949423876307516","title":"Intracellular signaling and trafficking","description":"The top GO terms indicate roles in signaling pathways (T cell receptor signaling, IP3 biosynthesis, translation initiation regulation, apoptotic processes) and intracellular logistics (regulation of endocytosis, intracellular protein transport). Although some terms touch on brain development or immune differentiation, these contexts reflect where the same intracellular signaling and vesicular trafficking processes operate. The cluster appears to group proteins involved in managing intracellular signals and vesicle trafficking rather than a single tissue- or process-specific function. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0060313","count":2},{"id":"GO:1903679","count":2},{"id":"GO:0050852","count":2},{"id":"GO:0006915","count":2}]},{"hash":"1466839550210408266","title":"Cell Cycle and Transcription Regulation","description":"This cluster is dominated by GO terms for cell division, mitotic cell cycle, and DNA-templated transcription, including anaphase-promoting complex\u2013dependent catabolic processes, which together point to coordinated control of cell cycle progression and gene expression. While a few terms (e.g., regulation of GPCR signaling, thrombocyte differentiation) are less central, they appear as secondary associations and do not override the core theme. Overall, the proteins seem to function in cell-cycle control and transcriptional regulation.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0008277","count":3},{"id":"GO:1903070","count":3},{"id":"GO:0002574","count":3}]},{"hash":"301899340039704613","title":"Innate Immunity and Development Signaling","description":"The prominent terms point to innate immune activation (response to lipopolysaccharide, complement pathways), coagulation/fibrinolysis (plasminogen activation, blood coagulation), and developmental signaling (Wnt pathway, midbrain development, multicellular growth). Collagen catabolic process adds extracellular matrix remodeling context, and negative regulation of transcription hints at gene expression control during these processes. The combination suggests a cluster involved in immune/coagulation processes intertwined with development signals rather than a single precise function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0016055","count":5},{"id":"GO:0032496","count":5},{"id":"GO:0001867","count":4},{"id":"GO:0031639","count":4}]},{"hash":"517160456824254879","title":"Neurovascular and skeletal development","description":"The terms point to coordinated neural development (nervous system development, synapse assembly, nerve impulse transmission) alongside vascular processes (endothelial barrier establishment, angiogenesis, cell adhesion) and a bone maturation/ossification aspect, suggesting a cohesive theme of neural\u2013vascular\u2013skeletal development.","confidence":"High","size":19,"edges":131,"triangles":445,"max_degree":17,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043931","count":10},{"id":"GO:0007157","count":10},{"id":"GO:0007156","count":9},{"id":"GO:0007399","count":8},{"id":"GO:0051965","count":7}]},{"hash":"242879744939963887","title":"Immune receptor signaling","description":"The dominant GO terms point to immune signaling and receptor-mediated pathways: cell surface receptor protein tyrosine kinase signaling, cellular response to lipopolysaccharide, and positive regulation of toll-like receptor signaling, plus B cell proliferation. Some terms are broader or developmental (neuron maturation, lymph vessel morphogenesis, brassinosteroid detection), which may reflect shared signaling components or cluster noise. Overall, the proteins appear associated with immune signal transduction and receptor activation, making \"Immune receptor signaling\" a concise, representative label.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0002322","count":3},{"id":"GO:0010738","count":3},{"id":"GO:0007169","count":3},{"id":"GO:0071222","count":3}]},{"hash":"668915979956603354","title":"Neural development and adhesion with immune activation","description":"Many terms point to neural development and synaptic organization (nervous system development, positive regulation of synapse assembly, myelination) and cell-cell adhesion (heterophilic/homophilic adhesion), suggesting a neural development/neuronal connectivity theme. The presence of innate immune response, complement activation, and immunoglobulin production indicates concurrent immune-related roles in the same protein set. Overall, the cluster appears to group proteins involved in neural cell interactions with immune signaling, rather than a single pathway.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":9},{"id":"GO:0007156","count":8},{"id":"GO:0051965","count":8},{"id":"GO:0007399","count":8},{"id":"GO:0045087","count":8}]},{"hash":"210234594487658814","title":"Inflammation and vascular signaling cluster","description":"The top GO terms point to immune activation (response to lipopolysaccharide, cytokine production) and vascular processes (vasodilation, blood coagulation, fibrinolysis), with supporting signaling pathways (Wnt, JNK) and autophagy. Together these terms suggest a module where inflammatory responses intertwine with vascular regulation and cellular remodeling, rather than a single narrowly defined process. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021957","count":3},{"id":"GO:0043507","count":3},{"id":"GO:0032496","count":3},{"id":"GO:0042311","count":3},{"id":"GO:0007596","count":3}]},{"hash":"799895906583071490","title":"Ubiquitin-Dependent Protein Degradation","description":"This cluster is overwhelmingly enriched for ubiquitination-related processes (protein ubiquitination, ubiquitin-dependent protein catabolic process, autoubiquitination, K48-linked ubiquitination, ERAD pathway), indicating a function in tagging proteins for proteasomal degradation; a few terms touch on immune signaling downstream effects rather than core function.","confidence":"High","size":19,"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":8},{"id":"GO:0030433","count":8},{"id":"GO:0070936","count":8}]},{"hash":"730105671890876826","title":"Diverse Metabolism and Signaling","description":"The cluster shows a mix of biosynthetic processes (anthocyanin, phenylpropanoid, colanic acid, galactose), redox and amino acid metabolism, plus several signaling and ion-related terms (integrin signaling, synaptic transmission, potassium and calcium signaling/detection). This breadth suggests proteins involved in multiple metabolic pathways with accompanying signaling roles rather than a single focused function, so the label reflects both metabolism and signaling diversity.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009718","count":2},{"id":"GO:0009242","count":2},{"id":"GO:0006012","count":2},{"id":"GO:0009699","count":2},{"id":"GO:0055114","count":2}]},{"hash":"1081995009387695809","title":"Neuronal signaling and ion transport","description":"The prominent GO terms center on neural communication and excitability, including regulation of glutamatergic synaptic transmission and excitatory postsynaptic potentials, along with sodium and potassium ion transmembrane transport, which together point to neuronal signaling and ion homeostasis. Locomotory behavior further supports a nervous-system\u2013driven function. A few terms relate to defense or cell-wall processes, which may reflect multifunctional proteins or incidental associations, but the core theme appears to be neural signaling and ion transport.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042742","count":4},{"id":"GO:0007626","count":4},{"id":"GO:0051966","count":4},{"id":"GO:0019076","count":4},{"id":"GO:0035725","count":4}]},{"hash":"764324336755452718","title":"Rho-GTPase\u2013driven actin remodeling","description":"This cluster is dominated by terms tied to GTPase activation, Rho signaling regulation, actin cytoskeleton organization, microvillus assembly, and GPCR internalization, pointing to a common theme of cytoskeletal dynamics governed by Rho-family GTPases and related receptor trafficking. Some terms reflect sensory or barrier contexts (sound perception, endothelial barrier), but the core signal is cytoskeletal remodeling and GPCR regulation across cell types.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0008344","count":3},{"id":"GO:2000670","count":3},{"id":"GO:0007605","count":3}]},{"hash":"228817184808719881","title":"Negative Regulators of Developmental Signaling","description":"The GO terms show multiple instances of negative regulation of key developmental pathways (activin, Wnt, BMP, PI3K/AKT) along with relating processes such as CNS development, germ-line stem-cell niche homeostasis, and nuclear/mitotic events. This suggests a cluster of proteins that modulate development by suppressing signaling and coordinating nuclear processes, rather than forming a single physical complex.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032926","count":4},{"id":"GO:0035414","count":4},{"id":"GO:0007417","count":4},{"id":"GO:0046827","count":4},{"id":"GO:0051898","count":4}]},{"hash":"1309353120488511186","title":"Embryonic development and organogenesis","description":"These proteins are linked to core developmental processes such as left-right patterning, palate and placenta formation, and heart-associated EMT, plus transcriptional regulation (DNA-templated transcription and RNA polymerase II regulation). The convergence on developmental patterning and organogenesis suggests a cohesive role in embryonic morphogenesis and tissue specification.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0000055","count":3}]},{"hash":"620438450664520393","title":"Neural development and synaptic signaling","description":"The top terms include neurotransmitter secretion, long-term synaptic potentiation, and sensory perception of sound, pointing to neuronal and synaptic functions. While there are broader developmental terms, the neural components appear dominant, making a neural development/synaptic signaling label most representative.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007269","count":3},{"id":"GO:0048706","count":3},{"id":"GO:0008595","count":2},{"id":"GO:0003281","count":2},{"id":"GO:0007296","count":2}]},{"hash":"1958246275455093223","title":"RNA Splicing and Translation Initiation","description":"This cluster is dominated by GO terms related to RNA processing and translation control: multiple entries for mRNA splicing via the spliceosome (including regulation and alternative splicing), maturation of rRNA, and processes connected to the formation of the translation preinitiation complex and translation reinitiation. Together these point to a coherent function centered on post-transcriptional RNA processing and initiation of protein synthesis. Some unrelated terms appear in the list, but they do not override the main signal.","confidence":"Medium","size":18,"edges":11,"triangles":4,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":7},{"id":"GO:0048026","count":7},{"id":"GO:0031047","count":7},{"id":"GO:0000398","count":6},{"id":"GO:0001731","count":6}]},{"hash":"2261108489531891744","title":"Endosome-Lysosome Trafficking and Organization","description":"Based on the top GO terms, the proteins are enriched for endosomal\u2013lysosomal transport and organization (early to late endosome transport; endosome and lysosome organization; endosome-to-lysosome transport). This suggests the cluster centers on vesicular trafficking within the endocytic pathway and lysosomal maturation, so the label reflects the primary function.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"lysosome organization","top_go_terms":[{"id":"GO:0045022","count":4},{"id":"GO:0007040","count":4},{"id":"GO:0007032","count":4},{"id":"GO:0008333","count":4},{"id":"GO:0019509","count":1}]},{"hash":"1146203474912699575","title":"Neurodevelopment and sensory signaling","description":"Based on GO terms, the cluster centers on nervous system development and function: axonogenesis, Schwann cell development, visual perception, and excitatory postsynaptic potentials indicate neuronal differentiation and signaling. Additional terms like mitotic cell cycle and heart development may reflect broader regulatory roles or annotation noise, but the strongest signal ties to neural development and sensory processing.","confidence":"Medium","size":18,"edges":20,"triangles":2,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043388","count":11},{"id":"GO:0007507","count":10},{"id":"GO:0060079","count":10},{"id":"GO:0010800","count":10},{"id":"GO:0014044","count":10}]},{"hash":"1543633104381801101","title":"LPS/Cytokine-Driven Inflammatory Signaling","description":"Proteins in this cluster are enriched for cellular responses to lipopolysaccharide, TNF, IL-1, and viral infection, with concurrent regulation of cytokine production (e.g., IL-6) and signaling. Additional terms point to inflammatory modulation of bone remodeling (osteoclast differentiation) and cross-talk with metabolic signaling (insulin receptor pathway). Together, these GO terms point to a shared theme of inflammatory cytokine signaling and immune response to pathogens.","confidence":"Medium","size":18,"edges":8,"triangles":1,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071222","count":4},{"id":"GO:0045672","count":3},{"id":"GO:0071356","count":3},{"id":"GO:0071347","count":3},{"id":"GO:0070301","count":3}]},{"hash":"1969893335268494611","title":"Embryonic organogenesis and patterning","description":"Protein set shows GO terms centered on embryo development and tissue morphogenesis rather than a core molecular function. Terms include endocardial cushion formation (EMT), left-right pattern formation, cartilage morphogenesis, endocrine system development (pancreas, placenta/t trophoblast lineages), and broader embryonic organ development, indicating a cohesive role in developmental programs and morphogenesis across multiple tissues.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008283","count":2},{"id":"GO:0071380","count":2},{"id":"GO:0002038","count":1},{"id":"GO:0003198","count":1},{"id":"GO:0060806","count":1}]},{"hash":"2137734630653384818","title":"DNA recombination and telomere maintenance","description":"Proteins in this cluster are linked by themes of homologous recombination, replication fork processing, and DNA repair during the cell cycle, including mitotic and meiotic recombination and the resolution of recombination intermediates. The presence of t-circle formation points to telomere recombination/ALT, supported by concurrent regulation of phosphorylation and spindle checkpoint activity. While a xenobiotic response term appears, it seems less central to the core function of the cluster, which is recombination-based DNA repair and telomere maintenance.","confidence":"High","size":18,"edges":107,"triangles":367,"max_degree":16,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0042493","count":10},{"id":"GO:0051260","count":8},{"id":"GO:1990426","count":7},{"id":"GO:0051106","count":7},{"id":"GO:0000732","count":7}]},{"hash":"1859336350800459863","title":"Neuronal Synapse Formation and Neurotransmission Regulation","description":"The cluster prominently features GO terms for synapse assembly, glutamatergic transmission, neurotransmitter secretion, and receptor-mediated endocytosis, pointing to a core role in synapse development and function. Cytoskeletal signaling (Rho) and lipid biosynthesis further support membrane dynamics and vesicle trafficking essential for synaptic communication, with some terms reflecting general secretory processes that can accompany neuronal wiring.","confidence":"High","size":18,"edges":119,"triangles":400,"max_degree":17,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0007520","count":7},{"id":"GO:0007269","count":6},{"id":"GO:0007416","count":6},{"id":"GO:0060963","count":6}]},{"hash":"866460854716126445","title":"Hypoxia-Responsive Signaling and Cytoskeletal Regulation","description":"These proteins are enriched for cellular response to hypoxia and for signaling kinase activities (positive regulation of serine/threonine and tyrosine phosphorylation), plus Arp2/3-mediated actin nucleation, pointing to hypoxia-activated signaling that drives cytoskeletal remodeling. The presence of mRNA transport and mitotic cell cycle terms suggests coordinated gene expression and cell division under hypoxic stress, fitting a theme of hypoxia-driven signaling linked to development and cytoskeletal dynamics.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071456","count":11},{"id":"GO:0051028","count":11},{"id":"GO:0000278","count":11},{"id":"GO:0043547","count":11},{"id":"GO:0031954","count":11}]},{"hash":"2069939364887629621","title":"Unknown","description":"The top GO terms cover transcription, multiple signaling pathways, intracellular transport, cytoskeletal dynamics, neuromuscular components, metabolism, and protein quality control, with no single cohesive function linking the proteins. This diversity makes it hard to assign a concise, representative label. ","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0035023","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0008277","count":2},{"id":"GO:0071340","count":2}]},{"hash":"2152783240497556887","title":"Transmembrane nutrient and xenobiotic transport","description":"This cluster is defined by strong enrichment for transmembrane transport GO terms, notably vitamin transmembrane transport and xenobiotic transmembrane transport, along with related ion and sugar transport terms. The variety of substrates (vitamins, xenobiotics, ions, sugars) points to a cohesive set of membrane transport proteins facilitating substrate movement across membranes.","confidence":"High","size":18,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":13},{"id":"GO:0006855","count":13},{"id":"GO:0042891","count":10},{"id":"GO:0042908","count":9},{"id":"GO:0071805","count":8}]},{"hash":"1511533597451622327","title":"Oxidative Detoxification and Stress Response","description":"The proteins are dominated by GO terms tied to cellular oxidant detoxification, response to toxic substances, toxin catabolic processes, and glutathione metabolism, indicating a coherent detoxification/oxidative stress theme. Aromatic amino acid metabolism and starvation response further support a broader metabolic adjustment under stress, with nucleotide-excision repair suggesting DNA maintenance during stress; overall, the core signal is detoxification and stress response rather than a single specific pathway.","confidence":"Medium","size":18,"edges":152,"triangles":800,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":17},{"id":"GO:0009636","count":16},{"id":"GO:0009407","count":16},{"id":"GO:0040008","count":16},{"id":"GO:0009072","count":15}]},{"hash":"1458376611635547872","title":"Mitochondrial/Chloroplast RNA Processing and Respiration","description":"The cluster is driven by GO terms for organelle RNA processing (mitochondrial and chloroplast) and cellular respiration, indicating a core theme of organelle gene expression and energy production. Some terms related to vision and heart functions appear as peripheral associations, but the dominant signal is RNA processing in energy-producing organelles and respiration.","confidence":"Medium","size":18,"edges":86,"triangles":169,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:1902775","count":2},{"id":"GO:1901259","count":2},{"id":"GO:0000963","count":2},{"id":"GO:0045333","count":2},{"id":"GO:0055114","count":2}]},{"hash":"122546412286027927","title":"Rho-Dependent Actin Dynamics and Cell Migration","description":"This cluster is enriched for actin cytoskeleton organization, filopodium assembly, and cell migration, with strong signals from small GTPase-mediated pathways (Rho) and regulation of adhesion-dependent spreading. Insulin receptor signaling and heart development terms likely reflect broader regulatory roles that influence cytoskeletal dynamics. Overall, the proteins appear to coordinate cytoskeletal remodeling and migratory behavior via Rho-family GTPases.","confidence":"High","size":18,"edges":37,"triangles":12,"max_degree":9,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0008286","count":10},{"id":"GO:0016477","count":9},{"id":"GO:0007264","count":9},{"id":"GO:0007507","count":8},{"id":"GO:0035023","count":8}]},{"hash":"1000098753250363343","title":"Eye and retinal development","description":"This cluster is strongly enriched for retinal and retinol metabolic processes, embryonic eye development, olfactory pit development, and neural crest cell development, indicating a coherent program for ocular and related sensory organ formation. Additional terms like glucosylceramide metabolism and balance-related neuromuscular processes are supportive but less central. Overall, the core signal points to eye/retina development with associated sensory structures.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0042574","count":18},{"id":"GO:0042572","count":18},{"id":"GO:0014032","count":16},{"id":"GO:0006678","count":16},{"id":"GO:0001936","count":16}]},{"hash":"2109531269348969847","title":"B cell signaling and phagocytosis in immunity","description":"This cluster is dominated by immune-related GO terms: classical complement activation, innate immune response, B cell receptor signaling and activation, phagocytosis recognition/engulfment, and cell adhesion. Together they indicate a coherent theme of immune activation and B cell\u2013mediated interactions; the nervous system development and ossification terms appear ancillary.","confidence":"High","size":18,"edges":66,"triangles":72,"max_degree":10,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0007156","count":8},{"id":"GO:0007157","count":8},{"id":"GO:0006910","count":8}]},{"hash":"2261211434825587969","title":"Mitotic Chromosome Segregation and Synapse Assembly","description":"This cluster is strongly tied to mitosis and chromosome segregation, with multiple proteins annotated to mitotic cell cycle, cell division, and chromosome passenger complex localization to the kinetochore. There is also notable enrichment for neuronal/synaptic terms, such as positive regulation of presynapse assembly, suggesting some members have dual roles in neural connectivity. Together, these hints point to a cohesive theme around mitotic machinery with concurrent or co-opted roles in synapse-related processes.","confidence":"Medium","size":18,"edges":144,"triangles":688,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":17},{"id":"GO:0007601","count":17},{"id":"GO:0043547","count":15},{"id":"GO:1905490","count":14},{"id":"GO:0006547","count":14}]},{"hash":"1342528528105735478","title":"Neuronal signaling, development, and memory","description":"The cluster is dominated by neural-related GO terms: neurotransmitter secretion, synaptic vesicle endocytosis, axonogenesis, retina layer formation, and long-term memory, pointing to neural signaling and development as the core function. The presence of hypoxia response and calcium-regulated cardiac contraction terms suggests additional stress and calcium signaling layers, but the strongest signal remains neuronal signaling and memory formation.","confidence":"High","size":18,"edges":16,"triangles":3,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071456","count":13},{"id":"GO:0007269","count":13},{"id":"GO:0007613","count":13},{"id":"GO:0043065","count":13},{"id":"GO:0010842","count":13}]},{"hash":"1464727553988133607","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":23,"triangles":4,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006154","count":5},{"id":"GO:0050850","count":5},{"id":"GO:0006146","count":5},{"id":"GO:0048541","count":5},{"id":"GO:0042542","count":4}]},{"hash":"1692938298315255098","title":"Retina development and circadian regulation","description":"The most represented GO terms center on eye development (embryonic retina morphogenesis; visual perception) and circadian regulation of sleep/wake cycles, indicating a cluster focused on retinal development and circadian signaling. While there are additional terms related to gene expression, lipid homeostasis, and other developmental processes, the eye and circadian themes are predominant, supporting this label.","confidence":"Medium","size":18,"edges":73,"triangles":120,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010628","count":9},{"id":"GO:0055091","count":8},{"id":"GO:0007601","count":6},{"id":"GO:0060059","count":6},{"id":"GO:0045187","count":6}]},{"hash":"330826161012575868","title":"Neural development and Rac-MAPK signaling","description":"This cluster is enriched for nervous system development and regulation of neuronal apoptosis, and includes GO terms for Rac signaling and MAPK cascades (JNK and ERK). The recurring themes of neural development, Rac-mediated signal transduction, and activation of MAPK pathways point to a cohesive function in neural development linked to cytoskeletal signaling and stress-responsive pathways. Additional terms related to xenobiotic and mechanical stimulus responses, and autophagy regulation, are secondary but can reflect broader cellular stress signaling in neural contexts.","confidence":"High","size":18,"edges":54,"triangles":33,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043524","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0071338","count":6},{"id":"GO:0034260","count":6},{"id":"GO:0035690","count":6}]},{"hash":"1955354722258098507","title":"Neuronal signaling and learning","description":"The proteins cluster around brain-related processes: dopaminergic synaptic transmission, behavioral responses to cocaine and morphine, visual perception/learning, and ERK1/2 cascade regulation, suggesting roles in neuronal signaling and synaptic plasticity underpinning reward and learning. The presence of a non-brain term like heart development appears peripheral, so the core theme remains CNS signaling and plasticity.","confidence":"Medium","size":18,"edges":123,"triangles":447,"max_degree":17,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":15},{"id":"GO:0001963","count":15},{"id":"GO:0048148","count":15},{"id":"GO:0071380","count":15},{"id":"GO:0010759","count":15}]},{"hash":"356625276462839723","title":"Vascular signaling and blood pressure regulation","description":"This cluster centers on processes that regulate vascular tone and blood pressure, including GPCR-cAMP signaling, adenylate cyclase activation, and Rho-mediated pathways that promote vasoconstriction, as well as components of smooth muscle regulation and coagulation. The inflammatory and LPS-response terms further tie in vascular inflammation, while electron transport chain terms hint at the metabolic needs of vascular cells. Together, these terms point to a cohesive theme of cardiovascular signaling and vascular regulation.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":16},{"id":"GO:0010579","count":16},{"id":"GO:0022900","count":16},{"id":"GO:0007190","count":15},{"id":"GO:0045986","count":13}]},{"hash":"228877195708106809","title":"Neuronal Signaling and Ion Channel Regulation","description":"Top GO terms show neuronal excitability and synaptic signaling: membrane depolarization, excitatory postsynaptic potential, and sodium and potassium ion transport. The inclusion of dopaminergic synaptic transmission regulation and insecticide response supports ion-channel mediated neurotransmission. Additional terms related to circadian sleep/wake regulation and inner ear receptor cell development suggest broader nervous system and sensory processing roles. Together these terms define a cluster centered on neuronal signaling and ion transport.","confidence":"High","size":18,"edges":37,"triangles":33,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0051899","count":7},{"id":"GO:0060079","count":7},{"id":"GO:0035725","count":6},{"id":"GO:0071805","count":6},{"id":"GO:0043200","count":5}]},{"hash":"2122327243469519256","title":"Cardiac Conduction and Calcium Handling","description":"The majority of top GO terms describe cardiac muscle electrophysiology: regulation of atrial and ventricular action potentials, heart rate control via cardiac conduction, and Ca2+ release from the sarcoplasmic reticulum\u2014crucial for excitation-contraction coupling. A few terms are about development/ossification, but the dominant signal centers on heart rhythm and calcium signaling, supporting a cohesive cardiac function cluster.","confidence":"High","size":18,"edges":48,"triangles":28,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007275","count":10},{"id":"GO:0086016","count":9},{"id":"GO:0060307","count":9},{"id":"GO:0060371","count":9},{"id":"GO:0086091","count":9}]},{"hash":"153343771679703229","title":"Vision and circadian-vascular regulation","description":"This cluster is dominated by vision-related terms: retina development, visual perception, and phototransduction, indicating a core vision/function theme. Supporting terms involve circadian sleep/wake cycles and vascular/smooth muscle regulation (vasopressin, smooth muscle contraction, blood pressure), suggesting additional regulatory roles but with a clear emphasis on vision.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060041","count":18},{"id":"GO:0007507","count":18},{"id":"GO:0007626","count":18},{"id":"GO:0007601","count":18},{"id":"GO:0001992","count":17}]},{"hash":"2195476664139193570","title":"Neuronal vesicle transport and synaptic plasticity","description":"This cluster is enriched for GO terms related to the secretory pathway (ER to Golgi, Golgi to plasma membrane) and intracellular protein transport, combined with neuron-specific processes like synaptic vesicle exocytosis, long-term potentiation, excitatory postsynaptic potential, and nervous system development. These signals together point to proteins involved in trafficking synaptic vesicles and supporting synaptic transmission and plasticity in neurons, with some mitotic cell cycle terms likely representing broader cellular transport roles. ","confidence":"High","size":18,"edges":20,"triangles":5,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090316","count":6},{"id":"GO:0006888","count":5},{"id":"GO:0043001","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0007399","count":5}]},{"hash":"2053156165537939272","title":"Developmental signaling and cell adhesion remodeling","description":"The top terms cluster around signaling pathways involved in development and morphogenesis (uterus development, HGF response, lamellipodium morphogenesis) and mechanisms of cell\u2013cell adhesion (bicellular tight junction assembly). There are also components of bone remodeling (RANKL signaling) and innate immune response, suggesting a broad network where signaling governs development, adhesion, and cytoskeletal dynamics. This supports a unifying theme of developmental signaling coordinating tissue remodeling and barrier formation.","confidence":"Medium","size":18,"edges":18,"triangles":0,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0008286","count":10},{"id":"GO:0060065","count":9},{"id":"GO:0045087","count":9},{"id":"GO:1903348","count":9},{"id":"GO:0070830","count":9}]},{"hash":"561330251281168174","title":"Innate immune inflammation and cytokine production","description":"Based on the top GO terms, the cluster is dominated by innate immune and inflammatory processes, including regulation and production of IL-1\u03b2 and IL-6, pyroptosis, and innate immune responses, with ubiquitination and apoptosis components; the mitotic spindle term appears less central. This suggests a cohesive theme around inflammatory signaling and cytokine regulation rather than cell cycle control.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090307","count":10},{"id":"GO:0050718","count":9},{"id":"GO:0006915","count":8},{"id":"GO:0006954","count":8},{"id":"GO:0032611","count":8}]},{"hash":"1258139173941004506","title":"Cytokine-STAT TH2 signaling","description":"The cluster shows strong enrichment for immune-related GO terms: TH2 cytokine production, IL-27\u2013mediated signaling, and regulation of STAT phosphorylation, pointing to a cytokine signaling/immune module. Although several development-related terms appear (vagina, heart, notochord development, neuron axonogenesis, Rho signaling, myosin assembly), the immune signaling terms are the most represented, making the cytokine-STAT TH2 theme the most coherent explanation for this cluster.","confidence":"High","size":18,"edges":145,"triangles":699,"max_degree":17,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035745","count":11},{"id":"GO:0042517","count":11},{"id":"GO:0070106","count":11},{"id":"GO:0060068","count":10},{"id":"GO:0021836","count":10}]},{"hash":"269951220697444392","title":"GTPase-driven cytoskeletal dynamics and cell migration","description":"Top GO terms indicate strong ties to small GTPase signaling, regulation of actin cytoskeleton, and cell migration, with supporting roles in microtubule assembly. The cluster appears to center on cytoskeletal remodeling and adhesion-driven movement, through GTPase signaling networks, rather than a single specialized pathway. Some terms reflect broader developmental and signaling contexts, but the core theme remains cytoskeletal dynamics governing migration.","confidence":"High","size":18,"edges":24,"triangles":2,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:1902476","count":3},{"id":"GO:0090138","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0086091","count":2}]},{"hash":"522988795154213200","title":"Nucleobase and Nucleoside Transport","description":"The cluster is dominated by GO terms for import/transport of purines and pyrimidines (guanine, adenine, hypoxanthine, xanthine, uracil, urate) across the plasma membrane, indicating a coherent function in nucleobase/nucleoside transport. A couple of developmental GO terms appear only once and do not define the group's main function, so the core theme remains nucleobase transport.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098710","count":1},{"id":"GO:0035344","count":1},{"id":"GO:0070904","count":1},{"id":"GO:1903825","count":1},{"id":"GO:0042906","count":1}]},{"hash":"333189705353535737","title":"Developmental signaling and membrane remodeling","description":"The cluster is enriched for GO terms involving diverse signaling pathways (Rho, Smoothened, ROBO, TCR) and membrane-related processes (plasma membrane repair, vesicle exocytosis, myoblast fusion). This combination points to coordinated cell signaling together with membrane remodeling during development, morphogenesis, and immune interactions, despite spanning multiple biological contexts.","confidence":"Medium","size":18,"edges":98,"triangles":227,"max_degree":15,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":8},{"id":"GO:0007520","count":7},{"id":"GO:0001778","count":6},{"id":"GO:0001822","count":6},{"id":"GO:0010796","count":6}]},{"hash":"2195008452280299473","title":"Neuronal Vesicle Trafficking and Exocytosis","description":"The cluster is dominated by GO terms for SNARE complex assembly, vesicle transport between ER and Golgi and within Golgi, Golgi ribbon formation, vesicle fusion with the Golgi, and exocytic insertion of neurotransmitter receptors, all pointing to coordinated vesicle trafficking and membrane fusion processes that underlie synaptic transmission and receptor localization in neurons.","confidence":"High","size":18,"edges":59,"triangles":98,"max_degree":14,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035493","count":7},{"id":"GO:0006891","count":7},{"id":"GO:0060291","count":7},{"id":"GO:0098967","count":7},{"id":"GO:0090161","count":7}]},{"hash":"938426024697024520","title":"Rho GTPase\u2013driven cytoskeleton remodeling and migration","description":"The cluster is enriched for GO terms centered on Rho and Ras GTPase signaling, lamellipodium assembly, and cell migration, with notes on cytoskeletal dynamics like actin remodeling and GTPase activity regulation. This points to a cohesive function focused on GTPase-regulated cytoskeleton organization and migratory behavior, with a few outlying terms related to broader immune/vascular processes. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0060313","count":3},{"id":"GO:0043314","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0043547","count":3}]},{"hash":"139786696467525725","title":"Signaling and Cytoskeleton Regulation","description":"This cluster centers on modulation of diverse signaling pathways (TGF-beta, Wnt, GTPase activity, tyrosine phosphorylation, GPCR-related) and cytoskeletal dynamics (Arp2/3) with related cellular responses (hypoxia, fibroblast proliferation, fatty acid oxidation, synaptic plasticity). The common theme is regulation of signaling cascades coupled to cytoskeletal remodeling rather than a single pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":3},{"id":"GO:0050731","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0048147","count":3}]},{"hash":"863688179963781484","title":"NF-\u03baB/NFAT and Rho signaling regulation","description":"This cluster centers on regulation of inflammatory signaling: NF-\u03baB and NFAT pathways, plus Rho GTPase signaling. I-kappaB phosphorylation and GTPase regulation suggest control of immune activation and cytoskeletal dynamics, with additional links to osteoclast differentiation and respiratory burst. Overall, the proteins appear to be regulators of immune/inflammatory signaling rather than enzymes of a single metabolic process.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0051531","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0007252","count":3}]},{"hash":"1106323269705968196","title":"Developmental signaling and cytoskeletal dynamics","description":"This cluster emphasizes signaling pathways (VEGF receptor, NF-kappaB), calcium-responsive signaling, and cytoskeletal remodeling (actin crosslinking) together with processes related to development (axonogenesis, male gonad development) and intracellular transport between ER and Golgi. The common theme seems to be growth/signaling coupled with cytoskeletal dynamics in developmental contexts, rather than a single narrowly defined function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007409","count":4},{"id":"GO:0051764","count":4},{"id":"GO:0043123","count":4},{"id":"GO:0071277","count":4},{"id":"GO:0006469","count":4}]},{"hash":"769106894901944559","title":"Neural, muscular, and cardiovascular development","description":"The top GO terms point to nervous system development, heart development, sensory perception of sound, myelination, and sarcomere organization, all underpinned by cytoskeletal and GPCR signaling (Rho regulation, thrombin receptor signaling). This combination suggests a broad theme of tissue development and structural organization across neural, muscular, and cardiovascular lineages, rather than a single narrowly defined function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0045214","count":5},{"id":"GO:0007205","count":4},{"id":"GO:0007507","count":4}]},{"hash":"99282778960363909","title":"Vesicle trafficking and signaling regulation","description":"The most represented GO terms cluster around intracellular transport (ER-to-Golgi vesicle transport; protein targeting to vacuole; melanosome assembly) and modulation of signaling pathways (positive regulation of Ras and JNK cascades). Additional terms touch on neuronal development (axon guidance) and mechanosensing (cellular response to mechanical stimulus), which together suggest a theme of coordinating vesicle trafficking with signaling and development processes. Some terms (DNA replication, male gonad development, defense response to protozoan) are less directly connected, but do not outweigh the central transport/signaling pattern.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0046579","count":3},{"id":"GO:0045740","count":3},{"id":"GO:0008584","count":3},{"id":"GO:0046330","count":2}]},{"hash":"1870527480219816806","title":"Developmental Transcriptional Regulation","description":"This cluster centers on transcriptional control and chromatin modification (e.g., histone deacetylation and regulation of DNA-templated transcription), with accompanying developmental signals (gastrulation, pituitary gland development, megakaryocyte differentiation) and cell proliferation. The dominant theme is gene expression regulation in developmental contexts, making this label representative of the proteins\u2019 likely functions.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0016575","count":8},{"id":"GO:0000122","count":7},{"id":"GO:0032496","count":7},{"id":"GO:0007369","count":7},{"id":"GO:0007568","count":7}]},{"hash":"1262985303602864630","title":"Cardiac morphogenesis and cell adhesion","description":"Based on the top GO terms, the cluster is enriched for endocardial cell differentiation, ventricular trabeculae morphogenesis, and general cell adhesion (cell\u2013cell adhesion). These indicate a shared role in cardiac tissue development and intercellular interactions. Other terms like synapse assembly and skin epidermis development suggest broader developmental functions, but the strongest recurring themes point to cardiac morphogenesis and adhesion. The absence of interactions (Edges: 0) doesn't change the functional interpretation of the term enrichment.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0007155","count":4},{"id":"GO:0007157","count":4},{"id":"GO:0060956","count":4},{"id":"GO:0051965","count":4}]},{"hash":"155195344178451720","title":"Craniofacial and sensory organ development","description":"The proteins are annotated with GO terms covering craniofacial skeletal morphogenesis, camera-type eye development, inner ear development, midbrain development, amelogenesis, and ECM disassembly, indicating a shared theme of embryonic organogenesis with extracellular matrix remodeling. The inclusion of ECM remodeling alongside diverse developmental processes supports a developmental program coordinating craniofacial and sensory structures. Negative regulation of transcription by RNA polymerase II may reflect transcriptional control during these developmental events.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0030901","count":6},{"id":"GO:0030574","count":5},{"id":"GO:0043010","count":5},{"id":"GO:0048839","count":5}]},{"hash":"2011276835859335037","title":"Embryonic Development and Morphogenesis","description":"The most represented terms cluster around embryogenesis and organ formation: mesoderm development, palate/roof of the mouth formation, placental/trophoblast differentiation, and EMT in endocardial cushion formation, with Wnt signaling as a central developmental pathway. While some immune-related terms (complement activation) appear, the dominant theme is developmental patterning and tissue morphogenesis. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0007498","count":5},{"id":"GO:0060021","count":5},{"id":"GO:0016055","count":5}]},{"hash":"584739266039800684","title":"Embryonic morphogenesis and neural crest development","description":"The top GO terms cluster around developmental processes: organ induction, cranial skeleton morphogenesis, inner ear development, neural crest cell migration, and branching morphogenesis. Although there are also terms related to transcriptional regulation and immune signaling, the dominant theme is embryonic morphogenesis and neural crest\u2013associated development, suggesting these proteins participate in developmental pathways. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0048298","count":4},{"id":"GO:0003289","count":4},{"id":"GO:0001759","count":4},{"id":"GO:0048701","count":4}]},{"hash":"997170142434924636","title":"Bone formation and extracellular matrix organization","description":"The cluster's top GO terms center on skeletal development processes and matrix interactions: cell-matrix adhesion, collagen fibril organization, osteoblast differentiation, bone trabecula formation, and skeletal system development. The presence of endothelial activation and blood coagulation suggests coordination between bone remodeling and vascular processes, common in skeletal growth and repair. The overall pattern points to a module of osteogenesis coupled with ECM remodeling.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":5},{"id":"GO:0045669","count":4},{"id":"GO:0030199","count":4},{"id":"GO:0048661","count":4},{"id":"GO:0010811","count":4}]},{"hash":"2205649271055664798","title":"Ubiquitin-Dependent Immune Regulation","description":"The cluster is dominated by ubiquitination-related GO terms (ubiquitin-dependent protein catabolic process; protein polyubiquitination; protein ubiquitination; autoubiquitination) and immune-related terms (adaptive immune response; TNF signaling; V(D)J recombination). This points to proteins involved in tagging substrates for degradation and modulating immune signaling, with some transcriptional regulation and antiviral transport aspects reinforcing a broader immune-regulatory role. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0000209","count":8},{"id":"GO:0016567","count":7},{"id":"GO:1903265","count":7},{"id":"GO:0000122","count":7}]},{"hash":"1542701079544195066","title":"Unknown","description":"These GO terms cover ubiquitin-dependent protein catabolic process, circadian rhythm regulation, sarcomere organization, phototropism and gravitropism, dendritic cell differentiation, spindle midzone localization, renal sodium absorption, synaptic vesicle endocytosis, and kainate receptor activity\u2014spanning plants, animals, and immune contexts. There is no clear, shared biological function tying these terms together for a single protein cluster, making it difficult to assign a cohesive label.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0042752","count":9},{"id":"GO:0045214","count":8},{"id":"GO:0009638","count":7},{"id":"GO:2001200","count":7}]},{"hash":"1899053624183757457","title":"Inflammation and Cellular Stress Signaling","description":"The GO terms cluster around immune and stress responses: cellular response to virus, TNF, and p38MAPK cascade, along with ROS metabolism and apoptosis execution, point to inflammatory signaling under stress. Regulatory processes such as positive regulation of protein deubiquitination and negative regulation of miRNA processing suggest gene-expression control during these responses, while glucose starvation and lipid storage regulation reflect metabolic stress integration. Overall, the cluster appears to represent inflammatory and cellular-stress signaling pathways.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903799","count":4},{"id":"GO:0098586","count":3},{"id":"GO:0010884","count":3},{"id":"GO:0045019","count":3},{"id":"GO:0071356","count":3}]},{"hash":"728944101330642222","title":"Myelination and synapse organization","description":"The top GO terms cluster around neural development and synaptic function: myelination, transmission of nerve impulse, and synapse assembly/organization, with both homophilic and heterophilic cell-cell adhesion supporting synapse formation. Hedgehog signaling (smoothened) can influence neural development, aligning with this theme. A couple of outliers (lung mesenchyme development and symbiont entry) are less central and do not override the dominant neural/synaptic signal. Overall, the label reflects the core function of the cluster.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042552","count":8},{"id":"GO:0019226","count":8},{"id":"GO:0007157","count":8},{"id":"GO:0007156","count":7},{"id":"GO:0007224","count":7}]},{"hash":"1208831893578998485","title":"Golgi- and endosome-mediated trafficking with degradation","description":"This cluster centers on Golgi organization, protein transport, intra-Golgi vesicle transport, and ubiquitin-dependent degradation via the multivesicular body pathway, plus dsRNA transport. Together these terms highlight a core theme of intracellular vesicle trafficking and quality control/degradation, with a few immune signaling terms that may reflect downstream effects rather than primary function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030889","count":2},{"id":"GO:0070830","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0007030","count":2},{"id":"GO:0015031","count":2}]},{"hash":"1042637161524421359","title":"Unknown","description":"There\u2019s no single shared function among the listed GO terms; they span immune regulation, chemokine production, GPCR signaling, calcium release, development, cardiac communication, growth, pinocytosis, meiosis regulation, and thermoception. With zero edges among proteins (Edges 0, Triangles 0, Max Degree 0), the proteins do not form a cohesive functional cluster. Therefore no specific label can be confidently assigned beyond Unknown.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010745","count":3},{"id":"GO:2000340","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0051209","count":3},{"id":"GO:0044707","count":3}]},{"hash":"1257942708551917754","title":"Ventral CNS patterning and neuron differentiation","description":"The cluster is dominated by neural development terms: subpallium neuron fate commitment, cortex GABAergic interneuron differentiation, spinal cord motor neuron cell fate specification, floor plate development, and amacrine cell differentiation, all pointing to ventral CNS patterning and neuron specification. While a few terms relate to other organ systems (pancreas, bronchiole), the neural development signal is strongest and most coherent. ","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":17},{"id":"GO:0060163","count":10},{"id":"GO:0021892","count":10},{"id":"GO:0060435","count":10},{"id":"GO:0021530","count":10}]},{"hash":"2244696554275318854","title":"Embryonic eye morphogenesis and hindbrain patterning","description":"The cluster is enriched for eye development terms (embryonic eye morphogenesis, camera-type eye development), hindbrain patterning (rhombomere 5 development, brain segmentation, anterior/posterior pattern specification), and related developmental processes (primitive streak formation, transcription by RNA polymerase II), indicating a cohesive program of early vertebrate development focused on eye and hindbrain formation.","confidence":"Medium","size":17,"edges":78,"triangles":144,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0009952","count":9},{"id":"GO:0031290","count":9},{"id":"GO:0021571","count":9},{"id":"GO:0006366","count":9}]},{"hash":"1950444980694021550","title":"Spliceosome-driven mRNA processing and RNA silencing","description":"This cluster centers on post-transcriptional RNA handling: strong signals for spliceosome-mediated and alternative mRNA splicing, small-subunit processome assembly, and mRNA stabilization. It also includes ncRNA- and miRNA-mediated gene silencing, indicating RNA-based regulatory pathways after transcription. Although a couple of terms are obsolete or peripheral, the dominant theme is RNA processing and post-transcriptional regulation.","confidence":"High","size":17,"edges":123,"triangles":504,"max_degree":16,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":10},{"id":"GO:0006378","count":10},{"id":"GO:0031047","count":10},{"id":"GO:1901407","count":8},{"id":"GO:0000380","count":7}]},{"hash":"482306365511958606","title":"Developmental transcriptional regulation and stress responses","description":"The terms center on transcriptional control (DNA-templated transcription, circadian regulation of gene expression) and responses to environmental cues (hypoxia signaling, xenobiotic response) alongside developmental processes (neurulation, intestinal epithelial maturation, elastin metabolism, B cell homeostasis). This suggests a theme of gene regulation during development and in response to environmental stresses, rather than a single narrow function.","confidence":"Medium","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051541","count":17},{"id":"GO:0006351","count":17},{"id":"GO:0097411","count":17},{"id":"GO:0060574","count":17},{"id":"GO:0001922","count":17}]},{"hash":"996165054452430179","title":"UV-Induced DNA Damage Repair and Cell Cycle Regulation","description":"The top terms point to nucleotide-excision repair (including transcription-coupled NER) and responses to UV light (UV-B/UV-C), indicating a DNA damage response axis driven by UV exposure, coupled with regulation of the cell cycle and transcription. Some developmental terms are present but secondary to the core UV/repair theme.","confidence":"High","size":17,"edges":41,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0000720","count":3},{"id":"GO:0071157","count":3},{"id":"GO:0010224","count":3},{"id":"GO:0048597","count":3},{"id":"GO:0045944","count":3}]},{"hash":"1741222594549855533","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around nervous system development (dendrite morphogenesis, multicellular organism development), neuronal function (excitatory postsynaptic potential, sensory perception of pain), and key signaling pathways (Wnt signaling, PI3K activity), plus transcription and ion transport. This combination suggests proteins involved in neuronal development and communication rather than a single, non-neuronal process. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043552","count":13},{"id":"GO:0048813","count":13},{"id":"GO:0046827","count":13},{"id":"GO:0006351","count":12},{"id":"GO:0006813","count":12}]},{"hash":"2260700260426030926","title":"Nuclear transport and cell cycle regulation","description":"The cluster\u2019s top GO terms cluster around nuclear transport processes (NLS-bearing protein import into nucleus, mRNA export from nucleus, nuclear pore complex assembly) and cell cycle-related functions (regulation of cell cycle, cell division), with an additional note on intraflagellar transport, suggesting broader cellular trafficking roles. This combination best explains the observed terms more than any single narrow pathway.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":7},{"id":"GO:0043547","count":6},{"id":"GO:0006607","count":6},{"id":"GO:0015991","count":6},{"id":"GO:0060188","count":5}]},{"hash":"2161941281770821325","title":"Endosome-lysosome trafficking and innate receptor signaling","description":"The cluster shows enrichment for endocytic/trafficking processes (endosomal vesicle fusion, lysosome targeting, Golgi retention, PI5P metabolism, pinocytosis) along with signaling pathways linked to TGF-beta (SMAD-related assembly, TGF-beta receptor signaling) and innate immunity (TLR3/TLR4 signaling). This pattern suggests proteins functioning at endosomal/lysosomal compartments that regulate receptor trafficking and signaling rather than a single enzymatic activity.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007183","count":4},{"id":"GO:0034058","count":4},{"id":"GO:1904562","count":4},{"id":"GO:0007179","count":4},{"id":"GO:0034141","count":4}]},{"hash":"159537923551360539","title":"Cell cycle progression and vesicle trafficking","description":"The top GO terms hint at core cell-cycle processes (mitotic cell cycle, DNA replication, GTPase regulation) with additional emphasis on vesicle transport pathways (endosome-to-Golgi and endosome maturation) and cytoskeletal remodeling (lamellipodium morphogenesis). This suggests proteins coordinating cell division with intracellular transport and membrane remodeling, rather than a single isolated function. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0034499","count":2},{"id":"GO:0051044","count":2}]},{"hash":"479755709187813089","title":"TGF-beta signaling and transcriptional regulation","description":"These proteins are enriched for TGF-beta signaling and SMAD-related transcriptional regulation, as shown by GO:0007179 and GO:0007183, with downstream DNA-templated transcription. The inclusion of cell-cycle, stress response, calcium signaling, and protein folding terms aligns with broader regulatory programs tied to TGF-beta\u2013driven transcriptional control, suggesting a cohesive signaling-to-transcription module. High","confidence":"","size":17,"edges":77,"triangles":152,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007183","count":12},{"id":"GO:0007179","count":12},{"id":"GO:0006351","count":8},{"id":"GO:0001702","count":7},{"id":"GO:0007049","count":6}]},{"hash":"1139022268627193380","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":18,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0006620","count":2},{"id":"GO:0051083","count":2},{"id":"GO:0030838","count":2}]},{"hash":"181738432187406614","title":"Wnt Regulation and Protein Processing","description":"The top GO terms cluster around modulation of signaling (both positive and negative regulation of canonical Wnt signaling) and protein-level regulation (deubiquitination, post-translational targeting to membranes, and regulation of protein assembly). There are also broader regulatory/quality-control themes (negative regulation of inclusion body assembly and cellular response to heat), suggesting a group of proteins involved in signaling control and protein maturation/trafficking rather than a single metabolic pathway. Confidence: Medium","confidence":"","size":17,"edges":117,"triangles":455,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090090","count":6},{"id":"GO:0016579","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0006260","count":5},{"id":"GO:0070880","count":5}]},{"hash":"792301002111914416","title":"Glycolysis and pentose phosphate pathway","description":"Core signals are glycolysis and pentose phosphate pathway activities, with additional carbohydrate metabolism and hexosamine turnover; thus the cluster likely represents central carbohydrate metabolism linking glycolysis and PPP.","confidence":"High","size":17,"edges":8,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006098","count":3},{"id":"GO:0016310","count":3},{"id":"GO:0009051","count":2},{"id":"GO:0006048","count":2},{"id":"GO:0006043","count":2}]},{"hash":"691379096817203200","title":"Developmental transcriptional regulators and angiogenesis","description":"The terms cluster around transcription regulation (RNA polymerase II\u2013mediated) and developmental/vascular processes such as angiogenesis, endothelial chemotaxis, neural crest migration, pancreas morphogenesis, and multicellular growth, with some related immune/vascular context (LPS response, coagulation). This suggests proteins that regulate gene expression during development and vascular formation. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0007596","count":4},{"id":"GO:0045766","count":4},{"id":"GO:0014068","count":4}]},{"hash":"1235732230165930499","title":"Ubiquitin-Proteasome\u2013Mediated Cell Cycle Regulation","description":"This cluster is dominated by GO terms for ubiquitination and proteasomal degradation (K11-linked ubiquitination; autoubiquitination; SCF-dependent proteolysis; ubiquitin-dependent ERAD pathway) and key cell-cycle events (G2/M transition; mitotic cell cycle; APC/C-dependent catabolic process). Together, these terms indicate a group of proteins that regulate mitosis through ubiquitin-proteasome pathways, with some ancillary terms like embryonic development, peroxisome import, and DNA repair reflecting broader roles or annotations.","confidence":"High","size":17,"edges":131,"triangles":611,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070979","count":13},{"id":"GO:0051865","count":13},{"id":"GO:0031146","count":13},{"id":"GO:0030433","count":13},{"id":"GO:0000086","count":12}]},{"hash":"164595343863923868","title":"Bacterial central metabolism and cofactor biosynthesis","description":"The prominent GO terms point to core metabolic activities (valine catabolism, fatty acid beta-oxidation, oxaloacetate/glycolytic metabolism) and biosynthesis of essential cofactors (phylloquinone, menaquinone) along with protein lipoylation, plus antibiotic biosynthesis, which is typical of bacterial secondary metabolism. This combination suggests a cluster focused on energy production and the biosynthesis of cofactors required for key enzymatic complexes. ","confidence":"Medium","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":13},{"id":"GO:0006574","count":12},{"id":"GO:0006635","count":12},{"id":"GO:0042372","count":12},{"id":"GO:0009234","count":12}]},{"hash":"250918613317554120","title":"T cell and mast cell activation signaling","description":"Dominant theme is immune cell activation and signaling, including PI3K/MAPK pathways, calcium signaling, T cell proliferation (CD8+), granzyme B production, and mast cell chemotaxis. Some terms are obsolete, but together they point to a coordinated immune activation program.","confidence":"Medium","size":17,"edges":45,"triangles":45,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0014068","count":9},{"id":"GO:0043552","count":8},{"id":"GO:0048661","count":8},{"id":"GO:0035584","count":8},{"id":"GO:0002551","count":8}]},{"hash":"1238786040047044515","title":"MAPK signaling in muscle and craniofacial development","description":"The top GO terms point to ERK1/2 (MAPK) signaling and processes like myoblast fusion and embryonic cranial skeleton morphogenesis, suggesting a core theme of MAPK-mediated signaling guiding muscle and craniofacial development. Additional terms about phosphorylation, apoptosis regulation, and lipid signaling fit within this developmental signaling network, supporting a cohesive, though broad, functional cluster around developmental signaling and tissue morphogenesis. ","confidence":"Medium","size":17,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":7},{"id":"GO:0007520","count":7},{"id":"GO:0043065","count":7},{"id":"GO:0033138","count":6},{"id":"GO:0043552","count":6}]},{"hash":"2132026155263071688","title":"Ubiquitin-ERAD Regulation","description":"The top terms mainly center on negative and regulatory control of ubiquitin-dependent ERAD and deubiquitination, suggesting a group of proteins that modulate proteostasis via the ubiquitin-proteasome system. Additional links to NF-kappaB sequestration and cell death imply involvement in stress-response signaling that influences degradation pathways and cell fate. While a couple terms are peripheral (lipid droplets, antibacterial peptide regulation), the core theme is regulation of ubiquitin-mediated degradation and ERAD.","confidence":"Medium","size":17,"edges":132,"triangles":624,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":10},{"id":"GO:2000157","count":7},{"id":"GO:1903094","count":7},{"id":"GO:0061060","count":6},{"id":"GO:0034389","count":6}]},{"hash":"581578560893897418","title":"Mitotic spindle assembly and microtubule dynamics","description":"The GO terms cluster around mitotic spindle orientation, centrosome separation, and regulation of microtubule-based processes, plus-end directed microtubule dynamics, and vesicle transport along microtubules, indicating a cohesive role in microtubule remodeling during cell division; the neuron projection maintenance term suggests broader cytoskeletal functions as well.","confidence":"High","size":17,"edges":109,"triangles":393,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0051296","count":17},{"id":"GO:1990942","count":17},{"id":"GO:0070462","count":17},{"id":"GO:0007100","count":17},{"id":"GO:0032886","count":17}]},{"hash":"47341794806431670","title":"Ciliogenesis and cell division regulation","description":"The cluster shows strong signals for mitotic processes (division septum assembly, mitotic cell cycle, exit from mitosis, cell division) alongside ciliogenesis and ciliary signaling (smoothened signaling pathway, positive regulation of non-motile cilium assembly) and trafficking/exocytosis regulation. This pattern suggests proteins that coordinate cell division with cilium formation and ciliary signaling, a cohesive theme in linking cell cycle control to ciliogenesis.","confidence":"High","size":17,"edges":25,"triangles":0,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000917","count":10},{"id":"GO:0007224","count":10},{"id":"GO:0000278","count":10},{"id":"GO:0051301","count":10},{"id":"GO:0010458","count":10}]},{"hash":"1907611809996981104","title":"Neuronal signaling and drug-related behaviors","description":"The top GO terms cluster around neural signaling and behavioral pharmacology, including dopaminergic synaptic transmission, behavioral response to cocaine, response to morphine, visual learning, and brain-related signaling (e.g., prostaglandin signaling and brain renin-angiotensin system). Protein phosphorylation also points to signaling cascades. Although some terms like saliva secretion and heart development appear, the strongest, coherent theme is brain function, neurotransmission, and neuropharmacology, suggesting this cluster represents neural signaling pathways and drug-induced behaviors.","confidence":"High","size":17,"edges":134,"triangles":650,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0046541","count":14},{"id":"GO:0007507","count":13},{"id":"GO:0006468","count":13},{"id":"GO:0001963","count":13},{"id":"GO:0048148","count":13}]},{"hash":"430799334301925874","title":"Phototransduction and Retina Signaling","description":"The cluster is dominated by GO terms tied to the visual system: phototransduction, retina development, and sensory perception; membrane potential regulation and phosphorylation align with retinal neural signaling; circadian rhythm aligns with light-input pathways; a few terms (thermogenesis, vasopressin regulation) are less directly related, so the core theme centers on eye/visual signaling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006468","count":8},{"id":"GO:0071502","count":8},{"id":"GO:0042391","count":8},{"id":"GO:0002024","count":8},{"id":"GO:0019233","count":8}]},{"hash":"722229458898230417","title":"Neural signaling and enteric nervous system activity","description":"The top GO terms cluster around nervous system and sensory functions: cellular response to temperature stimulus, sensory perception of pain, enteric nervous system development, peristalsis, regulation of membrane potential, and regulation of blood pressure by vasopressin, plus ERK signaling. This points to neuronal signaling with emphasis on the enteric nervous system and sensory-gut regulation, rather than a single metabolic or detox pathway. Some terms (photoreceptor maintenance, xenobiotic response) reflect broader sensory roles, but the dominant theme remains neural/sensory control of gut motility and vascular signaling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":10},{"id":"GO:0042391","count":10},{"id":"GO:0042493","count":10},{"id":"GO:0002024","count":10},{"id":"GO:0048484","count":10}]},{"hash":"720697438037920224","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000398","count":7},{"id":"GO:0000472","count":6},{"id":"GO:0036265","count":6},{"id":"GO:0000480","count":6},{"id":"GO:0000447","count":6}]},{"hash":"1447616842958397707","title":"Vascular Inflammation and ECM-Driven Angiogenesis","description":"This cluster combines inflammatory signaling with endothelial remodeling and ECM organization: inflammatory response, anti-regulatory signaling (negative regulation of protein kinase activity) and positive regulation of angiogenesis, plus collagen fibril organization indicating extracellular matrix remodeling. Endothelial migration is negatively regulated and cells respond to mechanical stimuli, fitting a scenario of inflammation-induced vascular remodeling and angiogenesis mediated by ECM changes.","confidence":"High","size":17,"edges":16,"triangles":0,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006469","count":6},{"id":"GO:0006954","count":5},{"id":"GO:0030308","count":5},{"id":"GO:0045766","count":5},{"id":"GO:0030199","count":5}]},{"hash":"1248536127060078058","title":"Ion and nutrient transmembrane transporters","description":"This cluster is dominated by GO terms for transmembrane transport of various ions and nutrients (sodium, potassium, phosphate, nitrate, sialic acid, vitamins), plus a neuronal context term about neurotransmitter loading. The shared theme is membrane transport activity, so the label \"Ion and nutrient transmembrane transporters\" is representative of the cluster\u2019s function.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901216","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0098700","count":3},{"id":"GO:0015739","count":3},{"id":"GO:0035435","count":3}]},{"hash":"991381817376713133","title":"Developmental and Stress-Response Genes","description":"This cluster centers on developmental processes (forebrain development, neural tube closure, skeletal system development) alongside core cellular functions (mitotic cell cycle, DNA-templated transcription) and stress/immune-related responses (cellular response to cadmium, ER-stress\u2013induced apoptotic signaling, defense response to Gram-positive bacteria). The broad mix suggests a set of proteins involved in development that also participate in stress signaling and immune responses, rather than a single narrow function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0050830","count":6},{"id":"GO:0001403","count":6},{"id":"GO:0030900","count":6}]},{"hash":"155264648249864943","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0030433","count":7},{"id":"GO:0051607","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0051865","count":5}]},{"hash":"1938244730473880293","title":"GPCR-driven cAMP/cGMP signaling","description":"The proteins appear to participate in GPCR-mediated signaling that triggers production of the second messengers cAMP and cGMP, supported by enrichment for GPCR signaling terms and related cAMP/cGMP biosynthetic pathways, as well as adrenergic and forskolin-associated signaling routes. The presence of blue light signaling and hypoxia detection terms suggests sensory contexts where these GPCR-initiated cascades operate, making this a cohesive signaling module.","confidence":"High","size":17,"edges":10,"triangles":0,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0070483","count":12},{"id":"GO:1904322","count":12},{"id":"GO:0001973","count":12},{"id":"GO:0030828","count":12},{"id":"GO:0006171","count":12}]},{"hash":"262453018932731075","title":"Signaling and vesicle trafficking regulators","description":"This cluster\u2019s top GO terms repeatedly point to regulatory roles in signaling (ERK cascade, phosphorylation) and intracellular transport (Golgi\u2013endosome and endosome\u2013melanosome pathways), along with related processes like ubiquitination and cytoskeletal remodeling (stress fiber assembly). Although the terms span multiple specific processes, the common theme is regulatory functions governing signaling and vesicle trafficking, rather than a single enzymatic activity or pathway. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0033138","count":3},{"id":"GO:0043149","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0050975","count":3}]},{"hash":"1328109343064606201","title":"Immune activation and synaptic signaling","description":"The terms point to immune functions (adaptive immune response, T cell costimulation, classical complement activation, heterophilic cell-cell adhesion) alongside neural/synaptic activity (regulation of synapse assembly, membrane depolarization, sodium/potassium ion transport, excitatory postsynaptic potential). This mixture suggests proteins involved in both immune interactions and neural signaling rather than a single cohesive pathway, so a label capturing both themes is appropriate. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":6},{"id":"GO:0046718","count":5},{"id":"GO:0051963","count":5},{"id":"GO:0031295","count":5},{"id":"GO:0006958","count":5}]},{"hash":"1561317949429079069","title":"Actin Cytoskeleton Remodeling and Cell Motility","description":"The cluster is enriched for GO terms such as filopodium assembly, lamellipodium assembly, actin cytoskeleton organization, and actin filament bundle formation, plus regulation of Rho signaling, which together drive actin-based protrusions and cell motility. The insulin receptor signaling pathway term hints at cross-talk that can modulate cytoskeletal dynamics. Therefore, the proteins likely operate in actin remodeling and motility.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0046847","count":7},{"id":"GO:0035023","count":6},{"id":"GO:0030036","count":6},{"id":"GO:0008286","count":6},{"id":"GO:0030032","count":6}]},{"hash":"492515773300264280","title":"Vesicle trafficking and actin dynamics","description":"The terms converge on processes that control movement of membranes and cargo inside the cell (intracellular transport, PI signaling, actin crosslinking), as well as specialized membrane formation (prospore membrane, Cvt pathway). Although a few terms imply multicellular contexts (heart development, tight junctions), the dominant signal is vesicle trafficking coupled with cytoskeletal dynamics.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0032120","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0048015","count":3}]},{"hash":"1263851854255847833","title":"Rho-regulated actin remodeling and vesicle trafficking","description":"The cluster centers on actin-based protrusion formation (microspikes, filopodia) and Rho signaling, plus endocytosis and COPII cargo loading, indicating a cohesive theme of cytoskeletal remodeling paired with vesicle trafficking; immune/developmental terms are secondary.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0030035","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0006897","count":3},{"id":"GO:0048538","count":3}]},{"hash":"1065315371926392256","title":"Ubiquitin-Dependent Protein Degradation","description":"Most terms center on ubiquitination and ubiquitin-dependent protein catabolism (including polyubiquitination and K11-linked ubiquitination, and ERAD-related pathways). This points to a core function in tagging proteins for degradation. A few terms touch on growth or migration, which may reflect broader cellular roles or secondary associations, but do not outweigh the ubiquitin-centric signal. Therefore, a concise label is \u201cUbiquitin-Dependent Protein Degradation.\u201d","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0000209","count":5},{"id":"GO:0042787","count":5},{"id":"GO:0016567","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0043066","count":4}]},{"hash":"35819954134430492","title":"Developmental transcriptional regulation and lineage differentiation","description":"This cluster centers on transcriptional control during development (negative regulation of RNA polymerase II transcription and miRNA transcription) and includes differentiation programs across multiple lineages (myeloid dendritic cells, macrophages, mammary gland epithelium, erythroid cells, and primitive streak-related development), suggesting a common theme of developmental gene regulation guiding lineage specification.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:1902895","count":5},{"id":"GO:0090009","count":5},{"id":"GO:0043011","count":5},{"id":"GO:0050673","count":4}]},{"hash":"1492311179443654095","title":"Innate Immune Defense and Leukocyte Activation","description":"Most represented terms point to innate immunity: complement activation via the lectin pathway, defense responses to fungi, and neutrophil-mediated killing of bacteria, as well as leukocyte tethering/rolling, suggesting a function in innate immune defense and leukocyte recruitment. The presence of developmental terms (midbrain, palate, pancreas morphogenesis) indicates possible multifunctionality or annotation breadth, so the immune signal is strong but not exclusive. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0030901","count":7},{"id":"GO:0060021","count":5},{"id":"GO:1903238","count":5},{"id":"GO:0061113","count":5}]},{"hash":"572206398776218851","title":"Embryonic organogenesis and morphogenesis","description":"This cluster centers on development of organs and tissues, with GO terms for heart, inner ear, cartilage, and semicircular canal formation, plus midbrain development and organ induction. Wnt signaling and angiogenesis reflect morphogenetic signaling guiding tissue formation, while transcriptional regulation indicates broader developmental control.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0030901","count":7},{"id":"GO:0001878","count":5},{"id":"GO:0016055","count":5},{"id":"GO:0045766","count":5}]},{"hash":"2186788491713991582","title":"Neural adhesion and synapse formation with immune regulation","description":"This cluster is dominated by cell\u2013cell adhesion (homophilic and heterophilic) and nervous system development including positive regulation of synapse assembly, while also showing innate and adaptive immune signals such as innate immune response, complement activation, and regulation of NK/T cell activity. The combination points to adhesion proteins at neural interfaces/synapses that also engage immune pathways, with a possible nod to cardiac conduction (AV node). ","confidence":"Medium","size":17,"edges":72,"triangles":106,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":10},{"id":"GO:0007156","count":9},{"id":"GO:0007399","count":8},{"id":"GO:0006958","count":8},{"id":"GO:0090138","count":7}]},{"hash":"318459966782667673","title":"Embryonic patterning and organogenesis","description":"The top GO terms cluster around developmental patterning and organ formation, including left-right patterning, mesoderm development, craniofacial/roof of mouth development, pancreatic cell development, and EMT involvement in heart development, with some transcriptional regulatory terms suggesting regulatory proteins coordinating these processes. This points to a cohesive theme of embryogenesis and organogenesis, despite a few general cellular terms. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":4},{"id":"GO:0007498","count":4},{"id":"GO:0060021","count":4},{"id":"GO:0003323","count":4},{"id":"GO:0000122","count":3}]},{"hash":"63605827504880962","title":"ECM remodeling and coagulation","description":"The cluster shows strong enrichment for extracellular matrix disassembly and collagen catabolic processes, plus activation/regulation of coagulation, plasminogen activation, and fibrinolysis, indicating a coordinated ECM remodeling and coagulation program. Amelogenesis ties to enamel ECM biology, supporting the extracellular matrix theme; transcription regulation terms appear secondary. Overall, the dominant signal is ECM remodeling linked to coagulation/fibrinolysis.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0030574","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0002542","count":6},{"id":"GO:0030194","count":6},{"id":"GO:0097186","count":6}]},{"hash":"1053549841972628397","title":"Embryonic Development and Differentiation","description":"The cluster\u2019s GO terms point to various developmental and differentiation processes across lineages (myotube differentiation, embryonic digit morphogenesis, EMT in heart development, trophoblast giant cell differentiation, and nerve/myelin-related maintenance), along with signaling and cell-cycle contexts (SMAD signaling, p53-mediated DNA damage response, and spindle assembly). Although there are no network edges to tie them into a single module, the common thread is developmental differentiation and related signaling pathways. Sensory perception of sound appears among the terms but does not dominate the theme, suggesting some annotation noise rather than a core function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0060395","count":3},{"id":"GO:0014902","count":3}]},{"hash":"1866447759080369390","title":"Platelet Inflammatory Signaling","description":"The GO terms converge on platelet-related functions: serotonin secretion by platelets; receptor internalization; calcium-mediated signaling; and inflammation (IL-6 production). LDL particle stimulus, platelet involvement in vascular inflammation, and platelet\u2013endothelium adhesion fit with platelet activation and inflammatory signaling, with mitochondrial depolarization reflecting platelet activation/apoptotic processes. Overall, the cluster likely reflects platelet-driven inflammatory signaling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071404","count":2},{"id":"GO:0031623","count":2},{"id":"GO:0032755","count":2},{"id":"GO:0050850","count":2},{"id":"GO:0048266","count":2}]},{"hash":"93810621584578452","title":"Vertebrate organogenesis and differentiation","description":"Most terms cluster around development and tissue formation across organs (lung mesenchyme, cortex layering, cartilage growth) and cell differentiation (myotube differentiation, T cell differentiation), with ERK/MAPK signaling regulation. The combination suggests a general developmental program driving tissue specification in vertebrates, rather than a single pathway or tissue. Thus this cluster can be labeled as vertebrate organogenesis and differentiation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0009636","count":5},{"id":"GO:0060484","count":4},{"id":"GO:0046638","count":4},{"id":"GO:0021819","count":4}]},{"hash":"102745545423324437","title":"Cell cycle and transcription regulation","description":"The cluster centers on mitotic control and transcription-related processes, with GO terms for mitotic progression and cohesion, DNA-templated transcription, RNA polymerase II regulation, and mRNA processing, suggesting a cohesive nuclear function linking cell cycle to gene expression.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045842","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0007049","count":1},{"id":"GO:0043550","count":1}]},{"hash":"1111824627802576560","title":"Bone formation and mineralization","description":"The top GO terms cluster around ossification, biomineral tissue development, osteoblast differentiation, and regulation of blood coagulation\u2014pointing to bone formation and mineralization as the central theme. Some other terms (transcription regulation, endocytosis, GPCR signaling, pregnancy) may reflect broader roles of the proteins or annotation noise, but they do not outweigh the bone-related signals.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0031214","count":3},{"id":"GO:0030194","count":3},{"id":"GO:0045667","count":3}]},{"hash":"1146740110683167456","title":"Ubiquitin-Proteasome System and Immune Signaling","description":"Dominant presence of ubiquitination and ubiquitin-dependent protein catabolic processes (including autoubiquitination and K6-linked ubiquitination) and histone catabolic processes points to ubiquitin-mediated protein turnover as the core theme. Immune-related terms such as adaptive immune response and TNF signaling suggest these ubiquitin modifiers also influence immune signaling pathways. Some ancillary terms are less informative but do not override the main pattern.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0016567","count":7},{"id":"GO:0051865","count":7},{"id":"GO:1903762","count":6},{"id":"GO:0085020","count":6}]},{"hash":"589754471826817214","title":"GPCR signaling and cytoskeletal dynamics","description":"The top GO terms cluster around thrombin-activated GPCR signaling, regulation of Rho and Ral pathways, and actin-related processes like filopodium assembly, along with clathrin-mediated endocytosis, suggesting a shared theme of signaling cascades that drive cytoskeletal remodeling and trafficking. Some terms extend to vascular remodeling and immune signaling, but the dominant pattern points to GPCR-mediated signaling linked to cytoskeletal dynamics.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0070493","count":5},{"id":"GO:0007205","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0008344","count":4},{"id":"GO:0060313","count":4}]},{"hash":"165091930778658762","title":"Cartilage morphogenesis and collagen remodeling","description":"The top GO terms cluster around collagen fibril organization and catabolic processes, cartilage morphogenesis, endochondral ossification, and broader developmental processes, with supporting themes of proteolysis and hypoxia response. This suggests the proteins in the cluster participate in extracellular matrix remodeling and skeletal tissue development, particularly cartilage formation and ossification.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0001666","count":4},{"id":"GO:0030574","count":4},{"id":"GO:0060707","count":4},{"id":"GO:0060536","count":4}]},{"hash":"1029575571358639817","title":"Ribosome Biogenesis and rRNA Processing","description":"This cluster is dominated by GO terms related to translation, ribosome biogenesis, and rRNA maturation (SSU/LSU) with involvement in rRNA modification and snoRNP assembly, pointing to a shared function in ribosome production and RNA processing.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":14},{"id":"GO:0000462","count":5},{"id":"GO:0042254","count":4},{"id":"GO:0031118","count":3},{"id":"GO:0000470","count":3}]},{"hash":"2112528512493385457","title":"Growth Factor Stimulus Responses and Neutrophil Chemotaxis","description":"The cluster is dominated by terms describing cellular responses to diverse stimuli, especially growth factor\u2013related signals (TGF-\u03b2, insulin, PDGF) and retinoic acid, plus neutrophil chemotaxis. This pattern, along with calcium release regulation and cell migration terms, points to a cohesive functional module coordinating growth factor signaling with immune cell movement.","confidence":"High","size":16,"edges":23,"triangles":10,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071560","count":14},{"id":"GO:0030593","count":14},{"id":"GO:0043552","count":14},{"id":"GO:0060444","count":14},{"id":"GO:0032869","count":14}]},{"hash":"1594389028401365385","title":"Heterochromatin formation and telomere regulation","description":"These proteins cluster around chromatin silencing and genome stability. The top GO terms center on heterochromatin formation in rDNA, subtelomeric regions, and silent mating-type loci, along with regulation of telomere maintenance and transcription. This suggests a functional module dedicated to chromatin state control and telomere-associated genome stability, rather than a single pathway.","confidence":"High","size":16,"edges":86,"triangles":214,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0000183","count":7},{"id":"GO:0006348","count":7},{"id":"GO:0030466","count":7},{"id":"GO:0006351","count":6}]},{"hash":"1258719505198431086","title":"Muscle and neural differentiation program","description":"The cluster is enriched with GO terms for differentiation across multiple lineages, especially skeletal muscle differentiation (myotube, myoblast fusion, skeletal muscle cell differentiation) and neural/nerve-related development (oculomotor nerve development, myelination), plus heart valve and pigment cell differentiation, indicating a coordinated differentiation regulatory network rather than a single pathway.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":15},{"id":"GO:0014908","count":13},{"id":"GO:2000793","count":13},{"id":"GO:0061103","count":13},{"id":"GO:0021557","count":13}]},{"hash":"665405886757889901","title":"Eye and Inner Ear Development","description":"The top GO terms cluster strongly around sensory organ development, especially eye-related processes (camera-type eye development, lens fiber cell differentiation, visual perception) and inner ear morphogenesis/development, with a few broader embryonic patterning terms. This indicates the proteins are functionally tied to ocular and inner ear development rather than unrelated processes.","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:0048839","count":7},{"id":"GO:0030901","count":7},{"id":"GO:0043010","count":6},{"id":"GO:0070306","count":6}]},{"hash":"480651009086669603","title":"Organelle targeting and cytoskeletal organization","description":"The cluster centers on protein targeting/import into organelles (mitochondria), protein folding/refolding, and cytoskeletal/ciliary organization (centrosome microtubule anchoring, ciliary motility, photoreceptor outer segment organization), suggesting a cohesive theme around organelle targeting coupled with cytoskeletal infrastructure for transport and function.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0030150","count":5},{"id":"GO:0000413","count":4},{"id":"GO:0060296","count":4},{"id":"GO:0043278","count":4},{"id":"GO:0070389","count":4}]},{"hash":"1085236014097335607","title":"Cardiovascular Regulation and Immune Signaling","description":"The cluster is dominated by GO terms tied to blood pressure regulation and vascular tone (positive regulation of blood pressure, vasopressin-mediated arterial blood pressure regulation, and regulation of smooth muscle contraction), along with immune-related activity (response to lipopolysaccharide, interleukin-10 production, and platelet activation). The presence of circadian rhythm and retina/phototransduction terms suggests additional coordination with sensory and temporal regulation, indicating these proteins may broadly participate in linking vascular/immune signaling with circadian and sensory cues. Overall, the label captures the central cardiovascular-immune theme with ancillary sensory modulation.","confidence":"Medium","size":16,"edges":22,"triangles":11,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":9},{"id":"GO:0032496","count":9},{"id":"GO:0001992","count":7},{"id":"GO:0045986","count":7},{"id":"GO:0022410","count":7}]},{"hash":"4513546442141492","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048535","count":2},{"id":"GO:0061158","count":2},{"id":"GO:0043029","count":2},{"id":"GO:0002635","count":2},{"id":"GO:0030433","count":2}]},{"hash":"1856924384164704177","title":"Neural development and interneuron differentiation","description":"This cluster is dominated by neural lineage terms: subpallium neuron fate commitment, cerebral cortex GABAergic interneuron differentiation, and spinal cord motor neuron and oligodendrocyte fate specification, indicating a focus on neural development and interneuron specification. There are additional development terms for other organs (pancreas, bronchiole, skeletal muscle) suggesting broader differentiation programs, but the strongest signal is neural differentiation. Confidence: Medium","confidence":"","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031018","count":12},{"id":"GO:0006366","count":12},{"id":"GO:0060163","count":11},{"id":"GO:0021892","count":11},{"id":"GO:0060435","count":11}]},{"hash":"1467450266890404222","title":"Vertebrate embryonic morphogenesis and transcriptional regulation","description":"The proteins appear to participate in vertebrate embryonic development across multiple tissues (eye, heart, limb, pancreas, neural crest, neurons) and in transcriptional regulation by RNA polymerase II, suggesting regulators of developmental programs that coordinate tissue morphogenesis with gene expression.","confidence":"High","size":16,"edges":7,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0048048","count":6},{"id":"GO:0060441","count":6},{"id":"GO:0031018","count":6},{"id":"GO:0006366","count":6}]},{"hash":"1594540465066715795","title":"Apoptosis with lipid signaling and Rac regulation","description":"This cluster centers on apoptosis-related terms (apoptotic process; extrinsic apoptotic signaling via death receptors) and includes lipid signaling processes (glycosphingolipid biosynthesis; phosphatidylinositol dephosphorylation) plus Rac/GTPase\u2013related regulation (positive regulation of GTPase activity; negative regulation of Rac signaling). The combination suggests proteins coordinating cell death with membrane lipid signaling and Rac-mediated signaling pathways, with some trafficking-related terms supporting membrane dynamics. Confidence: Medium","confidence":"","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0075015","count":2},{"id":"GO:0006688","count":2},{"id":"GO:0048147","count":2},{"id":"GO:0045671","count":2}]},{"hash":"1476989510460446193","title":"Unknown","description":"The top GO terms are highly diverse, including regulation of sodium ion transporter activity, AV node action potential, mast cell chemotaxis, myoblast differentiation, and even mechanosensory perception of sound, with several obsolete PI3K-related terms and broad proteolysis. There is no clear, cohesive theme tying these functions together given the lack of shared process or interaction signals, so no meaningful single function label can be assigned.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000649","count":6},{"id":"GO:0014068","count":5},{"id":"GO:0050910","count":5},{"id":"GO:0043552","count":4},{"id":"GO:0048661","count":4}]},{"hash":"1215240798735194673","title":"Apoptosis and Xenobiotic Stress Response","description":"This cluster centers on apoptosis alongside cellular responses to chemical or xenobiotic stimuli, with supporting signals in cAMP-responsive pathways and phosphoinositide signaling. While some terms are unrelated or obsolete, the recurrent themes are stress-induced signaling and programmed cell death, occasionally touching on epidermal development. ","confidence":"Medium","size":16,"edges":16,"triangles":5,"max_degree":7,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006915","count":6},{"id":"GO:0071320","count":6},{"id":"GO:0014912","count":6},{"id":"GO:2000327","count":6},{"id":"GO:0003335","count":6}]},{"hash":"798224578421488030","title":"SNARE-mediated secretory vesicle transport","description":"The terms cluster around SNARE-mediated vesicle trafficking in the secretory pathway: ER\u2013Golgi transport (retrograde and anterograde), intra-Golgi routing, and delivery to the plasma membrane, plus SNARE complex assembly and general protein transport. The nod to NK cell degranulation and histamine secretion supports a role in secretory granule release. Overall, these proteins likely participate in SNARE-driven secretory vesicle transport and degranulation.","confidence":"High","size":16,"edges":21,"triangles":1,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0035493","count":3},{"id":"GO:0006891","count":3},{"id":"GO:0015031","count":3}]},{"hash":"1679602818687976756","title":"Mitotic chromatin assembly and cytoskeleton dynamics","description":"The top GO terms cluster around centromeric chromatin assembly (CENP-A), cell division, microtubule severing, and actin cytoskeleton regulation, all indicating mitotic chromosome management and spindle/cytoskeletal remodeling. While some terms touch other processes, the prevailing signal ties chromatin organization to mitotic machinery and cytoskeleton.","confidence":"High","size":16,"edges":16,"triangles":4,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0061641","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0051013","count":2},{"id":"GO:0030433","count":2}]},{"hash":"318104631120423574","title":"Immune signaling and chemotaxis cluster","description":"Explanation: The top GO terms are dominated by immune-related processes, including T cell receptor signaling, neutrophil chemotaxis, GM-CSF stimulus, and TGF-beta stimulus, pointing to leukocyte signal transduction and directed migration. Other terms related to second messenger catabolism and phototransduction appear as ancillary signals, but the core theme centers on immune signaling and chemotaxis.","confidence":"Medium","size":16,"edges":29,"triangles":13,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":6},{"id":"GO:0006198","count":5},{"id":"GO:0007603","count":5},{"id":"GO:0071560","count":5},{"id":"GO:0030593","count":5}]},{"hash":"684493401449768436","title":"Neuroendocrine and sensory signaling","description":"The top GO terms cluster around neural and hormonal control of physiology: cellular responses to temperature, pain perception, circadian rhythms, GPCR signaling, vasopressin-regulated blood pressure, and retina development. While a term related to neutrophil chemotaxis is immune-related, the prevailing theme is signaling pathways that integrate sensory inputs with neuroendocrine regulation of physiological states. This suggests a coherent cluster of proteins involved in neural, sensory, and endocrine signaling controlling systemic physiology.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":9},{"id":"GO:0090023","count":9},{"id":"GO:0002024","count":9},{"id":"GO:0032720","count":9},{"id":"GO:0010579","count":9}]},{"hash":"1604403884336812530","title":"Brain function and drug response","description":"The top GO terms are heavily skewed toward brain function and sensory processing (brain renin-angiotensin system, visual learning and visual perception, sensory perception of pain) and modulation by drugs (behavioral response to cocaine, response to morphine). The presence of ERK cascade regulation and prostaglandin signaling suggests common neural signaling pathways and inflammatory/neurotransmitter responses. While heart development appears among the terms, the dominant themes are neural signaling, perception, and drug-related behavior, making this cluster best described as brain function and drug response.","confidence":"High","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":13},{"id":"GO:0048148","count":13},{"id":"GO:0002035","count":13},{"id":"GO:0070374","count":13},{"id":"GO:0010759","count":13}]},{"hash":"1752535478951087445","title":"Neurotransmitter Secretion and Uptake","description":"The proteins are enriched for terms related to secretion and transport of neurotransmitters (glycine, serotonin) and dopamine uptake/catabolism, indicating a module of synaptic signaling, with a note that perineurial glial growth suggests a neural support context.","confidence":"Medium","size":16,"edges":7,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1905847","count":5},{"id":"GO:0042066","count":5},{"id":"GO:0061537","count":5},{"id":"GO:0014064","count":5},{"id":"GO:0051583","count":5}]},{"hash":"639687094332096481","title":"Vision and circadian GPCR signaling","description":"The cluster prominently features phototransduction and retina development, pointing to the visual system, and it also includes a circadian sleep/wake cycle term, suggesting a link between vision and circadian regulation. Additionally, GPCR-mediated signaling is indicated by terms like dopamine receptor signaling and prostaglandin response. While vascular-related terms appear, the strongest cohesive theme across the top terms is GPCR signaling connected to vision and circadian processes, supporting this label.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030168","count":11},{"id":"GO:0042493","count":11},{"id":"GO:0071380","count":11},{"id":"GO:0007191","count":11},{"id":"GO:0008283","count":11}]},{"hash":"1966796738891193946","title":"Organogenesis and developmental signaling","description":"This cluster centers on developmental processes and organ formation, with terms pointing to heart development (trabecula formation; cardiac muscle tissue development), enteric nervous system development, and liver regeneration, plus broader signaling and proliferation activities (ERK/MAPK cascade, dopamine receptor signaling, miRNA transcription regulation). The variety suggests a theme of developmental signaling across multiple tissues rather than a single, cohesive pathway, giving a moderate level of confidence in this label.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0071380","count":3},{"id":"GO:0007191","count":3},{"id":"GO:0043552","count":2}]},{"hash":"1573931394916957141","title":"Developmental Signaling and Synaptic Organization","description":"This cluster combines terms for embryonic morphogenesis and tissue development (embryonic body morphogenesis, vagina development) with multiple signaling pathways (STAT phosphorylation, interleukin-27 signaling, Hedgehog/SMO) and synaptic functions (trans-synaptic signaling, synapse organization, cell adhesion, and collagen-related ECM). The shared theme appears to be developmental signaling that guides tissue formation and neural connectivity, modulated by ECM/adhesion components.","confidence":"Medium","size":16,"edges":116,"triangles":508,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0035745","count":14},{"id":"GO:0042517","count":14},{"id":"GO:0070106","count":14},{"id":"GO:0060068","count":13},{"id":"GO:0007156","count":13}]},{"hash":"1888277507533161767","title":"GPCR-driven cardiovascular and neuropeptide signaling","description":"Top GO terms suggest a core of GPCR-mediated signaling regulating blood pressure, coagulation, and neuropeptide pathways, with Rho signaling as a contributor. Some terms also touch on energy metabolism and thermogenesis, indicating broader regulatory roles. Overall, the cluster centers on signaling processes governing cardiovascular and neuroendocrine physiology, hence the GPCR-focused label.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":11},{"id":"GO:0019233","count":10},{"id":"GO:0007596","count":10},{"id":"GO:0035025","count":10},{"id":"GO:0010579","count":10}]},{"hash":"742965627340644814","title":"Developmental morphogenesis and chromatin organization","description":"The highest-frequency terms include brain development, urinary bladder development, skeletal system development, epidermis morphogenesis, and chromatin organization, indicating a developmental/morphogenetic program with concurrent gene regulation. Vesicle transport to the ER-Golgi suggests secretory processes essential for tissue formation, while neuron apoptosis and hypoxia response reflect developmental stress responses. Overall, these terms point to a cluster of proteins involved in tissue morphogenesis and regulation of chromatin during development.","confidence":"Medium","size":16,"edges":23,"triangles":16,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0008283","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0071456","count":2},{"id":"GO:0060044","count":2}]},{"hash":"699165150098695168","title":"B cell receptor signaling and adaptive immunity","description":"This cluster is characterized by GO terms centered on adaptive immune response and B cell biology, including B cell receptor signaling, affinity maturation, and cytokine production (IL-2, IL-4, IL-7). The presence of small GTPase signaling (Rac/Rho) indicates downstream signaling and cytoskeletal regulation linked to B cell activation, supporting a cohesive theme of B cell\u2013driven immune signaling.","confidence":"High","size":16,"edges":18,"triangles":3,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0002250","count":13},{"id":"GO:0050853","count":13},{"id":"GO:1900042","count":13},{"id":"GO:0035023","count":13},{"id":"GO:0098761","count":13}]},{"hash":"2031355401793042629","title":"Diverse Transmembrane Metabolite Transporters","description":"The top GO terms indicate transport across membranes for multiple substrates, including sugars (galactose, arabinose), sialic acid, vitamins, nitrate/nitrite, and aromatic compounds, plus a neurotransmitter loading process. This points to a theme of membrane transport of diverse metabolites rather than a single substrate class, suggesting a cluster of transport proteins with broad or varied substrate specificity. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015757","count":4},{"id":"GO:1900754","count":4},{"id":"GO:0098700","count":4},{"id":"GO:0042128","count":4},{"id":"GO:0015739","count":4}]},{"hash":"1252387777768532413","title":"Neuronal synaptic plasticity with astrocyte activation","description":"The cluster is dominated by terms tied to synaptic plasticity, memory, and axon growth, with astrocyte activation and activity-dependent signaling (NF-kappaB) pointing to neuron\u2013glia interactions in plasticity. Other terms like hypoxia response and heart-rate regulation suggest broader neural circuit involvement, but the core theme remains neuronal plasticity and glial support.","confidence":"High","size":16,"edges":20,"triangles":6,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060291","count":11},{"id":"GO:0008360","count":10},{"id":"GO:0071456","count":10},{"id":"GO:0007613","count":10},{"id":"GO:0007409","count":10}]},{"hash":"1265231465625442665","title":"Secretory vesicle trafficking and pigment organelle assembly","description":"Top GO terms cluster around vesicle transport in the secretory pathway (ER\u2013Golgi, COPII, intra-Golgi) and pigment-related organelle biogenesis (melanosome/pigmentation). This makes \"Secretory vesicle trafficking and pigment organelle assembly\" a natural label; peripheral terms like autophagy and spindle assembly are less central but can intersect with related cellular processes.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006891","count":2},{"id":"GO:0043473","count":2},{"id":"GO:0006914","count":2},{"id":"GO:0042338","count":2},{"id":"GO:0006888","count":2}]},{"hash":"159508689726049418","title":"Innate immune and synaptic signaling","description":"The top GO terms point to innate immune pathways (NOD2 signaling, Fc receptor signaling, innate immune response) alongside neural/synaptic processes (dendritic spine morphogenesis, protein localization to the synapse) and common signaling cascades (JNK, PDGF receptor signaling). This suggests a cluster of proteins that interface immune signaling with synaptic/neural functions, possibly in microglia or neuron-immune signaling contexts.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0070433","count":11},{"id":"GO:0045087","count":11},{"id":"GO:0007266","count":10},{"id":"GO:0043113","count":10},{"id":"GO:0060997","count":10}]},{"hash":"2116579681471106414","title":"Neural and Retinal Development with Vesicle Trafficking","description":"The top GO terms cluster around neural/retinal development (brain, retina) and growth, and include DNA-templated transcription, alongside vesicle trafficking (COPII budding, Golgi\u2013ER transport) and actin remodeling, suggesting a developmental program that links gene regulation and tissue growth to secretory pathway dynamics; epithelial proliferation and cellular fusion terms further imply tissue remodeling during development.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060041","count":7},{"id":"GO:0007420","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0007568","count":7},{"id":"GO:0035264","count":7}]},{"hash":"1109267064527157979","title":"Mitochondrial amino acid and B6 cofactor biosynthesis","description":"This cluster centers on mitochondrial metabolism, especially amino acid pathways (serine, glycine) and cofactor biosynthesis (pyridoxine/B6, quinolinate/NAD) along with Fe-S cluster assembly and related tRNA modification. The combination of serine/glycine processing, NAD precursor production, and Fe-S cluster assembly strongly points to a mitochondrial metabolic module focused on amino acid processing and vitamin/cofactor biosynthesis.","confidence":"High","size":16,"edges":103,"triangles":430,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070903","count":6},{"id":"GO:0046724","count":6},{"id":"GO:0034516","count":6},{"id":"GO:0006564","count":6},{"id":"GO:0043420","count":6}]},{"hash":"402622814736861439","title":"Neuronal Synaptic Plasticity and Receptor Trafficking","description":"This cluster centers on neuronal signaling and plasticity, with GO terms such as long-term synaptic potentiation, regulation of long-term plasticity, and excitatory postsynaptic potential, indicating dynamic regulation of synapses. Receptor internalization and positive regulation of receptor recycling further point to trafficking at the synapse, while mitochondrial membrane organization suggests energetic support for synaptic activity. The presence of xenobiotic and interferon responses hints at stress-related modulation of neurons, but the core theme is synaptic signaling and receptor trafficking.","confidence":"High","size":16,"edges":28,"triangles":19,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0048169","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0001921","count":3}]},{"hash":"543904637167296350","title":"Multi-tissue developmental differentiation","description":"Many top GO terms describe developmental processes across diverse tissues (amygdala, eye, pancreas, chondroblasts, vagina) and regulation of neuronal timing and differentiation, suggesting the cluster centers on developmental differentiation rather than a single tissue. A few terms relate to metabolism and immune signaling (fatty acid oxidation, HDL particle assembly, macrophage foam cell differentiation), which can be part of developmental programs but are secondary to the main theme.","confidence":"Medium","size":16,"edges":10,"triangles":1,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021764","count":15},{"id":"GO:0071638","count":15},{"id":"GO:0060164","count":15},{"id":"GO:0090108","count":15},{"id":"GO:0060068","count":15}]},{"hash":"274908870137525701","title":"Mitochondrial energy metabolism and stress responses","description":"These proteins appear to form a mitochondrial-focused module, with GO terms centering on energy production and metabolite transport (iron import into mitochondrion; mitochondrial ATP and citrate transmembrane transport; thiosulfate transport), as well as mitochondrial dynamics (mitochondrial membrane fission) and adaptation to stress (adaptive thermogenesis; response to superoxide; response to fatty acid; cellular response to amino acid starvation). The combination of transport, energy production, and redox/nutrient-response terms supports a cohesive theme of mitochondrial metabolism and stress handling.","confidence":"High","size":16,"edges":16,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0048250","count":9},{"id":"GO:1990845","count":9},{"id":"GO:0090149","count":9},{"id":"GO:0070542","count":9},{"id":"GO:0000002","count":9}]},{"hash":"796386082481365049","title":"Endocytosis and ER-Golgi Vesicle Trafficking","description":"This cluster is dominated by terms for endocytosis and vesicle transport among endosomes, Golgi, and ER, plus associated signaling pathways (EGFR, TCR) and thymus development, suggesting a cohesive role in membrane trafficking that modulates receptor signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006897","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0006623","count":3},{"id":"GO:0042147","count":3},{"id":"GO:0006890","count":3}]},{"hash":"1135644428454650649","title":"BMP signaling and stem cell homeostasis","description":"The cluster\u2019s top terms center on BMP signaling and intestinal stem cell homeostasis, suggesting a theme of signaling pathways governing tissue development and maintenance. Additional terms point to vesicle trafficking and proteolysis regulation, which can modulate signaling processes, though some items (e.g., granule maturation and T cell death regulation) are less tightly connected. Overall, the group appears to reflect signaling-driven developmental and homeostatic processes with supporting trafficking steps.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990502","count":2},{"id":"GO:0070236","count":2},{"id":"GO:0048642","count":2},{"id":"GO:0008101","count":2},{"id":"GO:0036335","count":2}]},{"hash":"2014459907776166817","title":"Mast cell signaling and actin remodeling","description":"This cluster is dominated by GO terms for Fc-epsilon receptor signaling and regulation of mast cell activation, complemented by processes involving actin filament organization, clathrin coat assembly, and Kit signaling. The convergence on immune receptor signaling and cytoskeletal dynamics (actin remodeling, vesicle trafficking) suggests a cohesive role in mast cell\u2013related signaling and cytoskeletal reorganization, with broader ECM and signaling pathway connections. The presence of neuronal migration term is an outlier but does not overwhelm the immune-centric theme. Therefore, labeling it as Mast cell signaling and actin remodeling captures the core function represented by the majority of terms.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038095","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0051531","count":3},{"id":"GO:0006470","count":3},{"id":"GO:0033007","count":2}]},{"hash":"148292584682430777","title":"Insulin/IGF signaling and actin dynamics","description":"The top GO terms point to insulin receptor signaling and IGF receptor signaling, plus regulation of fatty acid metabolism, indicating metabolic signaling. At the same time, terms related to actin polymerization, filament bundle assembly, and crosslinking show coordinated cytoskeletal remodeling. Although there are no reported edges among proteins, the cluster appears to combine metabolic signaling with cytoskeletal regulation. Therefore, a label that reflects both themes is appropriate.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060378","count":2},{"id":"GO:0010748","count":2},{"id":"GO:0051764","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0070358","count":2}]},{"hash":"2294877303878631503","title":"Immune Signaling and Neural Junctions","description":"The GO terms cluster around immune cell signaling (mast cell degranulation, B cell receptor signaling, macrophage activation regulation, STAT phosphorylation) and neural/junctional processes (sensory detection of sound, paranodal junction assembly, AV node adhesion, synapse assembly), suggesting a shared theme of cell-to-cell signaling at immune\u2013neural interfaces and junctional organization.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050910","count":7},{"id":"GO:0043303","count":6},{"id":"GO:0050853","count":6},{"id":"GO:0051963","count":5},{"id":"GO:0086072","count":5}]},{"hash":"646717301135142152","title":"Polyamine biosynthesis and transport","description":"This cluster centers on polyamine metabolism: putrescine and spermidine biosynthesis from arginine via ornithine, and regulation of polyamine transport, with arginine catabolic process feeding into this pathway. While a few terms (kidney development, trans-Golgi network organization) are broader or less directly tied to metabolism, the dominant signal is polyamine production and transport. ","confidence":"Medium","size":16,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009089","count":3},{"id":"GO:0006527","count":2},{"id":"GO:0001822","count":2},{"id":"GO:1902269","count":2},{"id":"GO:0033387","count":2}]},{"hash":"525639475723901201","title":"Ubiquitin-dependent regulation across muscle and immune signaling","description":"The cluster\u2019s top GO terms center on ubiquitin-mediated protein catabolism and ubiquitination (including K33-linked), suggesting a core theme of ubiquitin-driven regulation. Additional terms point to muscle-related processes (sarcomere organization, skeletal muscle differentiation), circadian rhythm regulation, and immune signaling (B cell receptor pathway), which can all be modulated by ubiquitin signaling, supporting a cohesive label focused on ubiquitin-dependent regulation across diverse cellular functions.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0042752","count":10},{"id":"GO:0035853","count":7},{"id":"GO:0070294","count":7},{"id":"GO:0045214","count":7}]},{"hash":"1867675356436748368","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms cluster around embryonic development, tissue morphogenesis, and patterning across multiple lineages (heart/EMT in endocardial cushions, placenta, cartilage, pancreas, trophoblast, and left-right patterning), suggesting a cohesive theme of early development and organogenesis. Some terms related to RNA processing appear but are secondary to the developmental themes.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":6},{"id":"GO:0060806","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0035270","count":6},{"id":"GO:0060972","count":6}]},{"hash":"2211427709914856564","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0061158","count":3},{"id":"GO:0060710","count":3},{"id":"GO:0060041","count":2},{"id":"GO:0045494","count":2}]},{"hash":"1590164170948013246","title":"Translation machinery with cell-cycle and ubiquitin regulation","description":"The cluster is dominated by translation (GO:0006412) with 9 proteins, while other terms point to regulation of the cell cycle, ubiquitin-dependent proteolysis, and proteostasis (e.g., protein stabilization, protein-DNA complex disassembly, negative regulation of ubiquitin ligase activity). The presence of stress-related terms (response to antibiotic, cellular response to actinomycin D) suggests a link between translation, protein turnover, and cell-cycle regulation under stress. Together, these terms indicate a coherent theme around the translation machinery coupled with proteostasis and cell-cycle control.","confidence":"Medium","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0046677","count":2},{"id":"GO:1901798","count":2},{"id":"GO:0071157","count":2},{"id":"GO:0072717","count":2}]},{"hash":"1533687298937312799","title":"Spliceosome and RNA Processing","description":"The top GO terms are dominated by RNA maturation and splicing activities: mRNA cis splicing via spliceosome, tRNA processing, spliceosomal snRNP assembly, and histone mRNA metabolism, plus related processes like P-body assembly and transcription termination. Together these point to a cluster of proteins involved in RNA processing and spliceosome machinery, likely functioning in the nucleus. A few terms (e.g., stress response, hair cycle, cell cycle regulation) appear ancillary but do not offset the dominant RNA-processing theme.","confidence":"High","size":15,"edges":100,"triangles":396,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":12},{"id":"GO:0008033","count":9},{"id":"GO:0033962","count":8},{"id":"GO:0006369","count":8},{"id":"GO:0009414","count":8}]},{"hash":"796807575498568143","title":"Multilineage Differentiation","description":"The top GO terms point to diverse differentiation processes across tissues: muscle (myotube differentiation, skeletal muscle cell differentiation, myoblast fusion), neural and sensory lineages (oculomotor nerve development, carotid body glomus cell differentiation), pigment cell differentiation (melanocyte differentiation), astrocyte differentiation, and broader regulation of differentiation. The common thread is cells differentiating into various lineages rather than a single pathway, indicating a cluster enriched for differentiation programs across tissues.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0048712","count":14},{"id":"GO:2001038","count":14},{"id":"GO:0014908","count":13},{"id":"GO:2000793","count":13},{"id":"GO:0061103","count":13}]},{"hash":"1941198495578592279","title":"Neuronal actin remodeling and synaptic morphogenesis","description":"The GO terms point to actin filament polymerization and assembly (lamellipodium, filopodium, ruffle) governed by Rac signaling, coupled with dendrite development and regulation of excitatory synaptic potentials. This combination suggests actin-driven neuronal morphogenesis and synaptic remodeling.","confidence":"High","size":15,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030838","count":3},{"id":"GO:0016358","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0007049","count":2},{"id":"GO:0010592","count":2}]},{"hash":"300044232356186805","title":"Embryonic organogenesis and transcriptional regulation","description":"The cluster highlights broad developmental processes across multiple organs (brain, heart, muscle, eye, uterus) and axis patterning (anterior/posterior, primitive streak), indicating embryogenesis and organ formation. The presence of transcription-related GO terms (transcription by RNA polymerase II and its negative regulation) suggests these proteins regulate gene expression during development, coordinating tissue morphogenesis. Therefore, a label capturing both embryonic organogenesis and transcriptional control best represents the cluster.","confidence":"Medium","size":15,"edges":12,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0008045","count":7},{"id":"GO:0006366","count":7},{"id":"GO:0035284","count":6},{"id":"GO:0007517","count":6}]},{"hash":"1389546663034038666","title":"Engulfment and lamellipodium remodeling","description":"The topGO terms highlight phagocytosis and engulfment (including engulfment of apoptotic cells) alongside lamellipodium morphogenesis and tight junction assembly, suggesting a cluster of proteins involved in cytoskeletal remodeling during engulfment and cell\u2013cell adhesion processes. Some terms (e.g., AMPA receptor clustering, heart development, yeast response) may reflect broader annotations or pleiotropy, but the core theme centers on engulfment and cell motility/adhesion.","confidence":"Medium","size":15,"edges":21,"triangles":1,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001878","count":5},{"id":"GO:0035728","count":4},{"id":"GO:2000394","count":4},{"id":"GO:0006909","count":4},{"id":"GO:0043552","count":4}]},{"hash":"1354316801890010231","title":"RNA processing and ER-Golgi trafficking","description":"The cluster centers on RNA metabolism (splicing, mRNA transport, translation initiation) and vesicle transport between the ER and Golgi, with TORC1 signaling and GTPase activity regulation supporting growth and trafficking control. A small subset includes defense-related response, but the dominant pattern ties together gene expression machinery and the secretory pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0070262","count":3}]},{"hash":"256800733474208066","title":"Vacuolar amino acid transporters","description":"Most of the GO terms point to transmembrane movement of amino acids into or out of vacuoles (lysine, arginine, tyrosine, serine, alanine). This strongly suggests a cluster of vacuolar amino acid transport proteins. A few terms like sensory perception of sound and myelination appear in the set but do not align with this core function; they are likely unrelated annotations. Overall, the cluster is best captured by the theme of vacuolar amino acid transport.","confidence":"High","size":15,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":4},{"id":"GO:0042552","count":3},{"id":"GO:0089707","count":3},{"id":"GO:1990818","count":3},{"id":"GO:0090514","count":3}]},{"hash":"610237780237384001","title":"Core cell-cycle chromatin and translation machinery","description":"This cluster centers on centromeric chromatin assembly (CENP-A) and core gene-expression processes, including ribosome biogenesis, translation initiation/reinitiation, and transcription, alongside cell division. The combination of chromatin assembly, transcription, and protein synthesis pathways points to a cohesive set of proteins underpinning fundamental cell-cycle and expression machinery.","confidence":"High","size":15,"edges":15,"triangles":5,"max_degree":6,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0061641","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0002188","count":3}]},{"hash":"141050402126823500","title":"Adaptive immune signaling and leukocyte trafficking","description":"Top GO terms indicate adaptive immune processes (B cell receptor signaling, adaptive immune response, tolerance regulation) along with leukocyte trafficking and antibody-related transport (immunoglobulin transcytosis). The presence of cell adhesion and synapse assembly terms suggests cell\u2013cell interactions that support immune cell movement and signaling. While some terms (AV node related) are tissue-specific and less connected, the dominant pattern is immune signaling and leukocyte trafficking, justifying the label.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0086016","count":3},{"id":"GO:0006508","count":3},{"id":"GO:0007156","count":3},{"id":"GO:0072672","count":3}]},{"hash":"257151536982058021","title":"Migration and cytoskeleton remodeling in development","description":"This cluster is dominated by GO terms tied to cell movement and cytoskeleton dynamics (cell migration, axon extension, actin cytoskeleton reorganization, angiogenesis), suggesting a cohesive theme around motility and morphogenesis. Additional terms touch on differentiation and cell cycle signals, but the core theme appears to be developmentally related migration and structural remodeling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":2},{"id":"GO:0032212","count":2},{"id":"GO:0010800","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0045736","count":2}]},{"hash":"1082663576038713899","title":"Monoaminergic and Glycinergic Neurotransmission","description":"The GO terms strongly point to synaptic signaling involving monoamines and glycine, including dopamine uptake and catabolism, glycine secretion/import, and serotonin secretion, suggesting a cohesive theme of neurotransmitter release and handling. A couple of outliers related to glial growth and pituitary development are present but do not override the dominant neurotransmission-focused signals.","confidence":"Medium","size":15,"edges":18,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:1905847","count":4},{"id":"GO:0042066","count":4},{"id":"GO:0061537","count":4},{"id":"GO:0014064","count":4},{"id":"GO:0051583","count":4}]},{"hash":"1691962744109643087","title":"Cell adhesion and migration signaling","description":"The top GO terms center on integrin-mediated signaling, focal adhesion assembly, and keratinocyte migration, pointing to a core function in cell-ECM adhesion and movement. Additional signals like Notch processing and TGF-beta response fit into a broader signaling network that governs remodeling and development, while other terms reflect related processes in immunity and excitability. Overall, the dominant theme is adhesion-associated signaling guiding cell migration and tissue dynamics.","confidence":"Medium","size":15,"edges":10,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042518","count":3},{"id":"GO:0007229","count":3},{"id":"GO:0051549","count":3},{"id":"GO:0007220","count":2},{"id":"GO:0048041","count":2}]},{"hash":"792227319849376492","title":"Oxidative Stress Response and Endocytosis","description":"The top GO terms center on oxidative stress and membrane trafficking: cellular response to hydrogen peroxide (GO:0070301), oxidation-reduction processes (GO:0055114), fatty acid response (GO:0071398), and endocytosis with regulation of phagocytosis (GO:0006897, GO:0050765). Together these point to a theme of managing stress signals at the plasma membrane and through endocytic pathways. The other terms (spermatid differentiation, neuron projection development, nucleotide biosynthesis) are more peripheral and do not form a single coherent functional axis, so the oxidative stress/trafficking theme best represents the cluster.","confidence":"Medium","size":15,"edges":92,"triangles":317,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0070301","count":5},{"id":"GO:0071398","count":3},{"id":"GO:0050765","count":3},{"id":"GO:0048515","count":3}]},{"hash":"2187648975307616603","title":"Neural development and feeding regulation","description":"The cluster centers on central nervous system development and signaling, with terms like cerebral cortex development, CNS neuron development, and neuron projection development, plus neuropeptide signaling and positive regulation of appetite/feeding behavior. Notch signaling regulation fits with developmental control, while digestion and blood pressure terms may reflect broader gut-brain/autonomic regulation but do not dominate. Overall, the signals point to brain development and neuropeptide-driven feeding behavior.","confidence":"Medium","size":15,"edges":20,"triangles":3,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0045747","count":3},{"id":"GO:0021987","count":2},{"id":"GO:0008217","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0021954","count":2}]},{"hash":"2218029942003099411","title":"Transmembrane sugar and metabolite transporters","description":"This cluster is dominated by GO terms for transmembrane transport of sugars and small metabolites (glucose, galactose, xylose, 4-hydroxyphenylacetate) and related compounds (xenobiotics, organic anions). There are also related stress-response terms (hydrogen peroxide, vitamin E), suggesting transporters involved in managing metabolic and redox states. Overall, the shared theme is membrane transport of carbohydrates and related metabolites.","confidence":"High","size":15,"edges":23,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":4},{"id":"GO:0044381","count":3},{"id":"GO:0042542","count":2},{"id":"GO:0020027","count":2},{"id":"GO:0033197","count":2}]},{"hash":"66669265247873054","title":"Hypoxia-Responsive Metabolism and Survival","description":"Genes in this cluster point to adaptation to low oxygen, with enrichment for hypoxia and erythropoietin signaling, alongside mitochondrial energy production and survival pathways (mitochondrial complex IV assembly, proton transport, aerobic respiration, PI3K/AKT signaling, anti-apoptotic processes). This suggests a cohesive theme of hypoxia-driven energy metabolism coupled to cell survival responses.","confidence":"High","size":15,"edges":59,"triangles":122,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0071456","count":3},{"id":"GO:0036018","count":3},{"id":"GO:0043524","count":3},{"id":"GO:0033617","count":3},{"id":"GO:1902600","count":2}]},{"hash":"829440047439735421","title":"Embryonic Development and Lipid Transport","description":"The terms show a mix of developmental processes (in utero embryonic development, cerebral cortex development) with lipid-related metabolism and particle assembly (very-low-density lipoprotein particle assembly, lipoprotein metabolic process), plus ER-Golgi transport and focal adhesion assembly that support secretion and cell interactions during development; xenobiotic and hypoxia responses reflect stress contexts in developing tissues. This combination points to a theme of lipid production/transport in embryonic contexts and associated secretory pathways, hence the label.","confidence":"Medium","size":15,"edges":19,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":4},{"id":"GO:0097284","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0021987","count":3},{"id":"GO:0008283","count":2}]},{"hash":"1168500298862684395","title":"Mitochondrial transport, metabolism, and dynamics","description":"Top GO terms indicate a cohesive mitochondrial theme: metabolite transport across mitochondrial membranes (iron import, ATP and citrate transport, thiosulfate transport), energy metabolism and adaptive thermogenesis, responses to fatty acids and oxidative stress, and mitochondrial membrane fission plus genome maintenance. Together, these terms define a cluster centered on mitochondrial transport, metabolism, and dynamic regulation.","confidence":"High","size":15,"edges":31,"triangles":23,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0048250","count":13},{"id":"GO:1990845","count":13},{"id":"GO:0090149","count":13},{"id":"GO:0070542","count":13},{"id":"GO:0000002","count":13}]},{"hash":"698675247460639990","title":"Bacterial fatty acid and lipid biosynthesis","description":"The cluster\u2019s top GO terms are dominated by fatty acid biosynthetic processes across multiple chain lengths (long-, very long-, medium-chain) and related lipid metabolism (long-chain fatty acid import; lipoteichoic acid biosynthesis). Additional terms for nonribosomal peptide NRPS activation and siderophore biosynthesis suggest broader bacterial secondary metabolism, but the strongest and most cohesive signal is lipid biosynthesis in a bacterial context. Confidence: High","confidence":"High","size":15,"edges":100,"triangles":393,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006633","count":7},{"id":"GO:0001676","count":6},{"id":"GO:0036112","count":6},{"id":"GO:0044539","count":6},{"id":"GO:0008206","count":6}]},{"hash":"2166774003349215020","title":"Innate antiviral immune response cluster","description":"Dominated by GO terms for innate immune signaling against viruses, including cellular response to dsRNA, type I interferon, and innate immune response, with a secondary presence of cell cycle-related terms. The core theme is antiviral innate immunity, though some terms suggest additional regulatory or cell-cycle associations. ","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050689","count":7},{"id":"GO:0051301","count":7},{"id":"GO:0071360","count":7},{"id":"GO:0071357","count":7},{"id":"GO:0045087","count":7}]},{"hash":"2275101051539866954","title":"RNA Splicing Regulation and Circadian Rhythm","description":"The cluster shows strong representation of RNA processing terms\u2014RNA splicing, regulation of alternative splicing via spliceosome, and mRNA stabilization\u2014indicating proteins involved in RNA maturation and surveillance. In addition, circadian rhythm terms (circadian rhythm, positive regulation of circadian rhythm) suggest temporal control of gene expression. The overlap points to a core function in RNA-based regulation with clock-linked control, with apoptotic and androgen receptor signaling terms likely reflecting broader regulatory roles.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0048026","count":4},{"id":"GO:0030521","count":3},{"id":"GO:0048255","count":3},{"id":"GO:0008380","count":3}]},{"hash":"470211370156858301","title":"Retina development and phototransduction","description":"This cluster is dominated by GO terms for retina development in camera-type eyes and phototransduction, suggesting a core theme of eye/retinal signaling. Additional terms touch on circadian rhythms and vascular/smooth muscle signaling, which can relate to retinal physiology and shared signaling pathways (e.g., GTPase activity). Taken together, the most representative function appears to revolve around retinal development and light-detection processes, with ancillary signaling roles that support this theme.","confidence":"Medium","size":15,"edges":46,"triangles":45,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060041","count":15},{"id":"GO:0008284","count":15},{"id":"GO:0043547","count":15},{"id":"GO:0008283","count":15},{"id":"GO:0001992","count":14}]},{"hash":"1713967001626407738","title":"Cell Division and Stress-Response","description":"This cluster centers on mitosis and cell division (cell division, mitotic spindle assembly, septum digestion after cytokinesis) and extends to stress-related signaling and apoptosis (hypoxia response, heat-stress\u2013induced mRNA export regulation, TGF-beta signaling, and apoptotic processes). The combination suggests proteins that coordinate cell-cycle progression with stress-induced fate decisions, with a few broader developmental terms appearing as secondary roles. Confidence: Medium","confidence":"","size":15,"edges":21,"triangles":8,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":8},{"id":"GO:0000920","count":8},{"id":"GO:0071560","count":7},{"id":"GO:0007568","count":7},{"id":"GO:0090307","count":6}]},{"hash":"495602313085421680","title":"Unknown","description":"The top GO terms span diverse biological processes\u2014metabolism (serine catabolism, GMP/GTP biosynthesis, H2S biosynthesis, glucose starvation), transport, and oxidative notes\u2014alongside immune/developmental terms (lymphocyte proliferation, IL-4 response, retina development) and even a broad oxidation-reduction note. This broad, disparate set of functions provides no single coherent theme linking the proteins, so a definite cluster function cannot be assigned. ","confidence":"","size":15,"edges":18,"triangles":8,"max_degree":7,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0006565","count":6},{"id":"GO:0006177","count":6},{"id":"GO:0046651","count":6},{"id":"GO:0070814","count":6},{"id":"GO:0071353","count":6}]},{"hash":"1225249452490004759","title":"Immune tolerance and trafficking regulators","description":"This cluster is dominated by immune-tolerance terms (self-antigen and B cell tolerance), mast cell cytokine production, and receptor catabolic processes with endosome transport, suggesting regulation of immune signaling and receptor turnover; some developmental terms may be annotations noise, but the core theme is immune tolerance regulation and receptor trafficking.","confidence":"Medium","size":15,"edges":42,"triangles":34,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0002651","count":15},{"id":"GO:0060068","count":15},{"id":"GO:0032801","count":15},{"id":"GO:0009611","count":15},{"id":"GO:0032762","count":15}]},{"hash":"2212019777617608760","title":"Unknown","description":"The top GO terms span diverse developmental processes across plants and animals (e.g., uterine epithelium, phloem, plant ovule morphogenesis, various neuron differentiations, pancreatic D cells) and even include unrelated metabolic and signaling terms (sulfur oxidation, non-canonical NF-kappaB signaling), giving no cohesive function or pathway to tie the proteins together. Therefore a specific, intuitive label cannot be reliably assigned.","confidence":"","size":15,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035847","count":15},{"id":"GO:0019417","count":15},{"id":"GO:2000744","count":15},{"id":"GO:0010088","count":15},{"id":"GO:0021702","count":15}]},{"hash":"550881708321624545","title":"Neuronal growth and dendrite morphogenesis","description":"The cluster is dominated by neuronal development terms: hippocampus development, dendrite morphogenesis, and ephrin receptor signaling, which together point to neurite outgrowth and synaptic wiring. Supporting terms on cell adhesion (adherens junction organization, focal adhesion assembly) and protein regulation (ubiquitination) fit within the neuronal development and maintenance theme, suggesting coordinated growth and connectivity in neural tissues.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035264","count":6},{"id":"GO:0034332","count":6},{"id":"GO:0021766","count":5},{"id":"GO:0048013","count":5},{"id":"GO:0033138","count":5}]},{"hash":"1749027095480226434","title":"Tissue development and cell cycle control","description":"The cluster shows a strong representation of multicellular and tissue-focused development terms (skin development, multicellular organism development) alongside key cell cycle processes (mitotic cell cycle, cell division) and somatic stem cell maintenance, suggesting coordinated development and proliferation in tissues. Regulatory signaling (Rho pathway) further supports cytoskeletal and morphogenic control during tissue formation, with a few outlier terms related to immune cell trafficking and metabolism. ","confidence":"High","size":15,"edges":29,"triangles":23,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043588","count":4},{"id":"GO:0035024","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0051301","count":3}]},{"hash":"2118000351554766857","title":"Embryonic Neural and Cardiac Development","description":"The cluster shows enrichment for embryonic development terms with a strong emphasis on nervous system formation (neuron migration, motor neuron axon guidance, forebrain neuron fate), and heart/pulmonary myocardium development, plus organ induction and cranial skeleton morphogenesis. This points to proteins involved in early tissue patterning and neural\u2013cardiac organogenesis.","confidence":"High","size":15,"edges":11,"triangles":2,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021983","count":9},{"id":"GO:0021882","count":9},{"id":"GO:0007275","count":9},{"id":"GO:0007507","count":8},{"id":"GO:0001759","count":8}]},{"hash":"199889281786313833","title":"Insulin signaling and metabolic regulation","description":"The cluster is dominated by insulin signaling and metabolism-related GO terms, including insulin receptor signaling, insulin-responsive glucose import, glycogen biosynthesis, and fatty acid oxidation, pointing to coordinated regulation of energy storage and utilization. Additional terms tied to secretion (COPII vesicle loading) and extracellular matrix metabolism (hyaluronan) may reflect broader cellular context, but the core theme is insulin-driven metabolic control.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900026","count":4},{"id":"GO:0008286","count":4},{"id":"GO:0030212","count":3},{"id":"GO:0090110","count":3},{"id":"GO:0010748","count":3}]},{"hash":"1009134317861965275","title":"Adaptive immune signaling and hematopoiesis","description":"The proteins cluster around adaptive immune functions (adaptive immune response, B cell maturation, IL-4 production, IL-7 response) and hematopoiesis, with accompanying cytoskeletal and MAPK signaling (Rho/Rac, ERK cascades) typical of immune receptor signaling. This combination suggests a theme of immune cell development and signaling rather than a single metabolic or structural process. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":9},{"id":"GO:0048009","count":9},{"id":"GO:0002250","count":9},{"id":"GO:0070374","count":9},{"id":"GO:1904140","count":8}]},{"hash":"1779234900620550178","title":"Neurovascular Development Regulators","description":"Proteins in this cluster predominantly act as negative regulators of signaling during neural and vascular development. Top GO terms include inhibition of angiogenesis and blood vessel remodeling, brain development, and synaptic vesicle priming, along with regulation of Rho and Ras signaling and NF-kB (I-kappaB) phosphorylation. This combination suggests a shared function in coordinating neurovascular development and related immune signaling, rather than a single pathway. The acrosome reaction term appears peripheral but may reflect broader regulatory capabilities across tissues.","confidence":"Medium","size":15,"edges":57,"triangles":79,"max_degree":13,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0016525","count":7},{"id":"GO:0035023","count":6},{"id":"GO:0007420","count":5},{"id":"GO:0007340","count":5},{"id":"GO:0060313","count":5}]},{"hash":"1239738635335064419","title":"Bacterial lipid metabolism and related biosynthesis","description":"The top GO terms overwhelmingly reflect fatty acid metabolism across chain lengths and fatty acid import, indicating a core theme of lipid handling. Additional terms point to acetyl-CoA\u2013linked biosynthesis and bile acid metabolism, supporting energy and lipid-activation pathways. The presence of lipoteichoic acid biosynthesis and siderophore/menaquinone biosynthesis suggests involvement in specialized lipid-associated biosynthetic processes in bacteria. Overall, these proteins likely function in lipid metabolism and lipid-derived biosynthesis.","confidence":"Medium","size":15,"edges":32,"triangles":20,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0001676","count":7},{"id":"GO:0036112","count":7},{"id":"GO:0044539","count":7},{"id":"GO:0008206","count":7},{"id":"GO:0043041","count":7}]},{"hash":"1164561873916894793","title":"Heart and vascular development with hypoxia signaling","description":"This cluster shows enrichment for cardiovascular-related GO terms: heart development, blood vessel diameter maintenance, oxygen transport, hypoxia response, and nitric oxide biosynthesis, plus platelet aggregation. The presence of oxidant detoxification and ECM/remodeling terms (negative regulation of collagen biosynthesis, fibroblast migration) also fits vascular development and remodeling. Together, these terms point to a coordinated heart and vascular development program with hypoxia and NO signaling involvement.","confidence":"High","size":15,"edges":35,"triangles":45,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":5},{"id":"GO:0042542","count":4},{"id":"GO:0032966","count":4},{"id":"GO:0010764","count":4},{"id":"GO:0050880","count":4}]},{"hash":"1302847721047147704","title":"Mitochondrial Transport, Metabolism, and Stress","description":"The GO terms cluster around mitochondria: multiple transport processes across mitochondrial membranes (ATP, citrate, thiosulfate), membrane fission, responses related to energy expenditure and metabolism (adaptive thermogenesis, fatty acid response), and stress responses (superoxide, starvation) with iron import into mitochondrion. This points to a cohesive theme of mitochondrial energy metabolism, material transport, and stress adaptation rather than cytosolic pathways, supporting a label focused on mitochondrial transport/metabolism and associated stress responses.","confidence":"High","size":15,"edges":17,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0048250","count":10},{"id":"GO:1990845","count":10},{"id":"GO:0090149","count":10},{"id":"GO:0070542","count":10},{"id":"GO:0000002","count":10}]},{"hash":"1206781148590436060","title":"Insulin Signaling and Metabolic Regulation","description":"The top GO terms center on insulin/IGF receptor signaling and downstream metabolic processes, including glycogen biosynthesis and fatty acid beta-oxidation, pointing to an insulin-driven metabolic regulation role. Vesicle docking/exocytosis and filopodium assembly terms add a cytoskeletal/trafficking dimension that could relate to insulin secretion or vesicle trafficking, reinforcing a cohesive insulin-regulated metabolic/secretory theme.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014065","count":3},{"id":"GO:0010748","count":3},{"id":"GO:0032000","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0048009","count":3}]},{"hash":"2099198151246738887","title":"Unknown","description":"This cluster's top GO terms span immune responses (response to LPS, complement activation, coagulation), multiple developmental processes (midbrain, inner ear, pituitary), and broad transcription regulation, with no single cohesive function linking all terms. The lack of interactions reinforces the absence of a clear unified role, so a specific label could not be confidently assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0044130","count":6},{"id":"GO:0032496","count":6},{"id":"GO:0030901","count":6},{"id":"GO:0021983","count":6}]},{"hash":"1376372445399146739","title":"GPCR-GTPase Signaling Regulation","description":"The terms highlight GPCR-mediated signaling and regulation of small GTPases (Rac and GTPase activity), with neurotransmitter secretion as a downstream process, suggesting a signaling-regulation-focused cluster. Some unrelated terms appear (dATP catabolism, aging), and there are no edges, so the core theme is broader signaling control rather than a single pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0035021","count":4},{"id":"GO:0000161","count":4},{"id":"GO:0051262","count":4},{"id":"GO:0046061","count":4}]},{"hash":"1226514355152347629","title":"RNA processing and translation control in development","description":"Top GO terms indicate strong emphasis on RNA metabolism: alternative mRNA splicing via spliceosome, positive regulation of splicing, small-subunit processome assembly, mRNA stabilization, and miRNA-mediated silencing, plus developmental processes such as skeletal muscle differentiation and neuromuscular balance. This points to a cluster of proteins involved in RNA processing and regulation of gene expression during development, including neural and muscular contexts, with additional hints of translation regulation. Confidence reflects a plausible, but not exclusively defined, connection between RNA processing/splicing and developmental programs.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:2001014","count":4},{"id":"GO:0050885","count":4},{"id":"GO:0000380","count":4},{"id":"GO:0001825","count":4},{"id":"GO:0021942","count":4}]},{"hash":"547197397027266178","title":"Cardiac conduction system and heart rhythm control","description":"The prominent GO terms describe SA node, AV node, atrial and ventricular action potentials, and regulation of heart rate by cardiac conduction, pointing to proteins involved in the cardiac conduction system and rhythm maintenance. Some adhesion and synapse-related terms may reflect cell\u2013cell interactions in cardiac tissue, but the core cluster aligns with pacemaker/conduction functions.","confidence":"High","size":15,"edges":76,"triangles":166,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0086091","count":7},{"id":"GO:0007156","count":6},{"id":"GO:0006508","count":6},{"id":"GO:0086015","count":6},{"id":"GO:0060307","count":6}]},{"hash":"1222871018886783727","title":"Receptor Internalization and Adhesion Signaling","description":"The listed GO terms cluster around receptor internalization, integrin-mediated signaling, virion attachment via receptors, cell motility regulation, and junction assembly, with additional links to lipid particle responses and lysosomal protein catabolism. This points to a shared theme of surface receptor trafficking and adhesion-driven signaling that modulates endocytosis and cell movement, potentially in CNS immune contexts such as microglia. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031623","count":5},{"id":"GO:2001046","count":5},{"id":"GO:0030913","count":5},{"id":"GO:0071404","count":4},{"id":"GO:1904352","count":4}]},{"hash":"651905371562261975","title":"Ubiquitin-dependent regulation of transcription and signaling","description":"This cluster is dominated by GO terms for ubiquitination and ubiquitin-dependent proteolysis (ubiquitin-dependent protein catabolic process, protein ubiquitination, autoubiquitination), with additional terms pointing to transcriptional regulation, apoptosis/necroptosis control, and signaling pathways (TLR signaling) and vitamin D response. The common theme is ubiquitin-mediated regulation of protein turnover and signaling that modulates cell fate and responses.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0000122","count":7},{"id":"GO:0000209","count":6},{"id":"GO:0043066","count":6},{"id":"GO:0034121","count":6}]},{"hash":"1021283448878521877","title":"Skin, lens, and glial development","description":"This cluster\u2019s top GO terms cluster around differentiation and development in several tissues: keratinocytes and skin barrier (skin), lens fiber development (eye), and astrocyte/Schwann cell development (glia). While a few terms (e.g., complement activation) are less directly tied to development, the dominant signals point to tissue-specific differentiation programs across epidermal, ocular, and neural-support cells. Overall, the set likely reflects proteins involved in divergent development pathways rather than a single unified process.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045616","count":5},{"id":"GO:0001867","count":5},{"id":"GO:0072201","count":5},{"id":"GO:0010625","count":5},{"id":"GO:0070307","count":5}]},{"hash":"1695741854671533389","title":"Unknown","description":"The top GO terms span several systems (eye/retina function: retina development, phototransduction, visual learning; smooth muscle and circadian processes; blood pressure regulation and coagulation; immune defense). There isn't a single cohesive biological process uniting all terms for this cluster, so a specific functional label cannot be confidently assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0040015","count":10},{"id":"GO:0042742","count":10},{"id":"GO:0007596","count":10},{"id":"GO:0008542","count":10},{"id":"GO:0001992","count":9}]},{"hash":"776450389416498115","title":"Retinal photoreceptor signaling and endocytosis","description":"Reason: The top GO terms emphasize retina development, regulation of opsin-mediated signaling, and clathrin-dependent endocytosis, along with dopaminergic synaptic transmission, suggesting a set of proteins involved in retinal photoreceptor signaling and vesicle trafficking. Additional terms such as ubiquitination and apoptosis reflect broader regulatory layers that can intersect these processes.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0072583","count":1},{"id":"GO:1900136","count":1}]},{"hash":"441660406383906255","title":"Ribosome Biogenesis and Translation Initiation","description":"This cluster is driven by GO terms related to ribosome assembly and translation initiation, including formation of the translation preinitiation complex and translation reinitiation, plus maturation of 5.8S and LSU/SSU rRNA. These core terms suggest a theme around ribosome biogenesis and translation control, with other terms representing broader cellular processes that may be incidental. Confidence reflects a solid but not exclusive link to ribosome-related function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0007049","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0000466","count":2}]},{"hash":"2104886265775694989","title":"Developmental growth factor signaling and endocytic trafficking","description":"The proteins are enriched for terms related to angiogenesis regulation, VEGF and EGF responses, Ras signaling, and negative regulation of GTPase activity, as well as actin cytoskeleton organization and endosome-to-lysosome transport; the presence of placental and spinal cord development terms suggests a developmental signaling module that integrates growth-factor cues with vesicular trafficking and cytoskeletal dynamics.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008333","count":3},{"id":"GO:0001893","count":2},{"id":"GO:0034260","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0030036","count":2}]},{"hash":"1053576741137380148","title":"Unknown","description":"The top GO terms show a scattered mix: negative regulation of keratinocyte proliferation; fibrinolysis; regulation of chylomicron remnant clearance; regulation of DNA binding; phospholipase A2 activity regulation (obsolete); extracellular negative regulation of signal transduction; apoptotic signaling regulation (obsolete); hemolysis; locomotory behavior; and response to stilbenoid. This lack of a common biological process or pathway, along with zero edges among the proteins, indicates no coherent functional theme tying the cluster together.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010839","count":1},{"id":"GO:0042730","count":1},{"id":"GO:0090321","count":1},{"id":"GO:0043388","count":1},{"id":"GO:0032429","count":1}]},{"hash":"1979468187229026033","title":"RNA metabolism and cell fate signaling","description":"The top GO terms center on RNA processing and turnover (P-body assembly, deadenylation, poly(A) tail shortening, ribosome biogenesis), suggesting a core role in gene expression regulation. A subset of terms points to signaling and differentiation processes (TGF-beta receptor signaling, apoptotic response to DNA damage, lens fiber differentiation, fertilization, proliferation), indicating additional, less cohesive links to cell fate and stress responses. Overall, the cluster seems driven by RNA metabolism with some related signaling/differentiation context.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030512","count":2},{"id":"GO:1902231","count":2},{"id":"GO:0070306","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0008283","count":2}]},{"hash":"96416702062203646","title":"Chromatin organization and ribosome biogenesis","description":"This cluster shows multiple chromatin- and nucleosome-related terms (nucleosome assembly, heterochromatin organization, histone modifications, nuclear size regulation) with a secondary signal for rRNA maturation and translation, suggesting a nuclear/chromatin-focused group that also involves ribosome biogenesis processes.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071169","count":2},{"id":"GO:0002181","count":1},{"id":"GO:0080182","count":1},{"id":"GO:0070828","count":1},{"id":"GO:0006334","count":1}]},{"hash":"2296738712313935316","title":"Ribosome biogenesis and translation initiation","description":"Top GO terms point to ribosome-related processes, including maturation of LSU rRNA and 5.8S rRNA and formation of the translation preinitiation complex, plus translation reinitiation. These consistently indicate a core theme of ribosome assembly and initiation of translation. Some developmental and apoptotic terms appear in the list, but they likely reflect broader cellular roles or annotation overlap rather than a distinct cluster function. Thus, the label centers on ribosome biogenesis and translation initiation.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0000463","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0000466","count":4},{"id":"GO:0002188","count":4}]},{"hash":"1679971958736978753","title":"Embryonic eye morphogenesis and retina development","description":"Most of the top GO terms are directly about eye formation and retinal development (embryonic eye morphogenesis, in utero embryonic development, camera-type eye development, retina development). There are also related developmental terms (pituitary gland development, osteoblast development) and transcriptional regulation terms, suggesting a broader embryonic development program with a strong eye development signal. Thus the label captures the dominant theme while acknowledging broader context.","confidence":"Medium","size":14,"edges":31,"triangles":13,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048048","count":6},{"id":"GO:0001701","count":5},{"id":"GO:0043010","count":5},{"id":"GO:0060441","count":5},{"id":"GO:0006366","count":5}]},{"hash":"2150943039579582446","title":"Dopaminergic Signaling and Cocaine Response","description":"The top GO terms cluster around dopaminergic synaptic transmission and neural signaling (synaptic transmission, dopaminergic; regulation of membrane potential) with a notable emphasis on behavioral and chemical stimuli (behavioral response to cocaine; response to xenobiotic stimulus; prostaglandin-related signaling). While a couple terms touch heart development and thermogenesis, the predominant theme is neuronal communication and drug-related responses, suggesting this cluster largely reflects dopaminergic signaling and cocaine-associated behavior.","confidence":"Medium","size":14,"edges":41,"triangles":31,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":12},{"id":"GO:0007507","count":11},{"id":"GO:0071502","count":11},{"id":"GO:0002024","count":11},{"id":"GO:0006468","count":10}]},{"hash":"1481569948847926164","title":"Multi-Tissue Development and Differentiation","description":"This cluster centers on developmental processes and tissue-specific differentiation across multiple organs (amygdala, pancreas, chondroblasts, embryonic eye, vagina), including regulation of neuron timing and morphogenesis. The presence of lipid metabolism regulation terms may reflect metabolic shifts accompanying development, but the dominant pattern is broad development and differentiation across tissues.","confidence":"Medium","size":14,"edges":18,"triangles":4,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021764","count":10},{"id":"GO:0071638","count":10},{"id":"GO:0060164","count":10},{"id":"GO:0090108","count":10},{"id":"GO:0060068","count":10}]},{"hash":"1910938798840032033","title":"Developmental signaling and differentiation","description":"The cluster centers on developmental signaling (PI3K/AKT, Hedgehog), differentiation (neurogenesis, myoblast differentiation), and tissue morphogenesis (cell adhesion, collagen organization), with apoptosis as part of developmental remodeling. This suggests a cohesive theme of developmental regulation and tissue formation.","confidence":"Medium","size":14,"edges":53,"triangles":78,"max_degree":10,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0060068","count":8},{"id":"GO:0006915","count":8},{"id":"GO:0022008","count":8},{"id":"GO:0043491","count":8},{"id":"GO:0045663","count":8}]},{"hash":"1889851909184682070","title":"Embryonic tissue morphogenesis","description":"The top GO terms span development of multiple tissues and lineages (heart, notochord, axial mesoderm, vestibular receptors, neural axonogenesis, and even vaginal development), indicating a broad theme of embryonic morphogenesis across mesodermal and neural tissues rather than a single, cohesive functional module.","confidence":"Medium","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060068","count":8},{"id":"GO:0021836","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0021952","count":8},{"id":"GO:0071688","count":8}]},{"hash":"1930876300491364691","title":"Developmental signaling and cell-cycle regulators","description":"This cluster centers on proteins involved in embryonic development and morphogenesis (embryonic body morphogenesis, dorsal root ganglion development, renal vesicle formation) and also on cell-cycle control (regulation of the cell cycle, centriole-centriole/cohesion). The inclusion of Wnt signaling modulation and extracellular matrix-related processes (heparan sulfate proteoglycan biosynthesis) suggests a coordinated role in developmental signaling and proliferation. The proton transmembrane transport term hints at membrane-associated proteins that may participate in signaling or transport in developing tissues, reinforcing a developmental signaling theme.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0015991","count":6},{"id":"GO:0010909","count":5},{"id":"GO:0010172","count":5},{"id":"GO:0070602","count":5},{"id":"GO:0072033","count":5}]},{"hash":"2093588727931442377","title":"RNA splicing and mRNA regulation","description":"The cluster shows strong enrichment for spliceosome-related processes (alternative splicing, regulation of splicing), mRNA stability and stabilization, and ncRNA/miRNA\u2013mediated gene silencing, pointing to a core function in RNA processing and post-transcriptional regulation. Some terms like blastocyst formation or viral translation reinitiation may reflect broader contexts but do not override the central RNA metabolism theme. ","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":11},{"id":"GO:0048026","count":10},{"id":"GO:0031047","count":10},{"id":"GO:0000380","count":9},{"id":"GO:0001825","count":9}]},{"hash":"1286802518578633099","title":"mRNA Splicing and Processing","description":"Proteins in this cluster are strongly associated with spliceosome-mediated splicing, splice site recognition, and regulation of mRNA processing, export, and stability, including small-subunit processome assembly and mRNA export. While a couple of terms touch on broader post-transcriptional control (miRNA silencing, viral translation reinitiation), the dominant theme is RNA maturation and splicing. ","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000380","count":9},{"id":"GO:0001825","count":9},{"id":"GO:0075525","count":9},{"id":"GO:0035278","count":9},{"id":"GO:0048026","count":9}]},{"hash":"2126813224243691434","title":"Endothelial tight junctions and transcytosis","description":"The strongest signals are bicellular tight junction assembly and transcytosis, with lymph vessel morphogenesis reinforcing a vascular/lymphatic endothelial theme. Additional terms point to broader signaling roles (Wnt pathways, neuronal plasticity) that can influence endothelial remodeling, but the core shared function appears to be junctional organization and vesicular transport in vascular endothelium.","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070830","count":3},{"id":"GO:0045056","count":3},{"id":"GO:0036303","count":2},{"id":"GO:1904395","count":2},{"id":"GO:0090238","count":2}]},{"hash":"978853050032606495","title":"Mitotic Regulation and Ubiquitin-Proteasome\u2013Mediated DNA Repair","description":"The cluster\u2019s strongest signals are mitosis-related: G2/M transition, chromosome segregation, and exit from mitosis, plus heavy involvement of ubiquitin-proteasome\u2013dependent protein degradation (SCF-dependent ubiquitination, protein turnover). DNA repair (nucleotide-excision repair) and chromatin-related processes (histone demethylation) further support a role in cell-cycle\u2013linked genome maintenance. Some terms reflect innate immune interactions (ISG15 conjugation, viral processes), but they appear as peripheral associations rather than core drivers, so the dominant theme remains mitotic control and proteasome-regulated DNA repair.","confidence":"High","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0000086","count":14},{"id":"GO:0031146","count":14},{"id":"GO:0007059","count":14},{"id":"GO:0016032","count":14},{"id":"GO:0010458","count":14}]},{"hash":"1072947847902605806","title":"Protein folding and quality control across compartments","description":"The terms cluster around chaperone-assisted folding, ER folding, ubiquitin-proteasome quality control, and protein targeting/trafficking to membranes, nucleus, and mitochondria, pointing to broader protein homeostasis maintenance across cellular compartments.","confidence":"Medium","size":14,"edges":21,"triangles":0,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006469","count":4},{"id":"GO:0097428","count":3},{"id":"GO:0070389","count":3},{"id":"GO:0046825","count":3},{"id":"GO:0034975","count":3}]},{"hash":"1085483334029692797","title":"Mitochondrial translation and energy metabolism","description":"The cluster is dominated by terms related to mitochondrial gene expression (mitochondrial translation, cristae formation, protein insertion into the mitochondrial membrane) and energy production processes (NADH dehydrogenase electron transport, ATP synthesis, proton motive force). Additional terms touch on mitochondrial ion homeostasis, supporting a cohesive theme of mitochondrial protein synthesis coupled to oxidative phosphorylation and membrane dynamics. This supports a high confidence in the label as representative of the cluster\u2019s function.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0030007","count":3},{"id":"GO:0042407","count":3},{"id":"GO:0051204","count":3},{"id":"GO:0070131","count":3}]},{"hash":"91752382011699396","title":"Cytoskeletal remodeling and cell migration","description":"The top GO terms point to actin-driven membrane protrusions (lamellipodium and podosome assembly), various forms of cell migration (hemocyte, radial glial, cortical neuron), and associated vesicle trafficking (Golgi to plasma membrane transport) support for migratory processes. While a few terms are less directly tied, the dominant theme across the cluster is cytoskeletal dynamics enabling cell movement and tissue development.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043001","count":3},{"id":"GO:1902236","count":3},{"id":"GO:0071803","count":3},{"id":"GO:0035099","count":3},{"id":"GO:0010592","count":3}]},{"hash":"1035599225629113051","title":"Cell cycle and developmental signaling","description":"This cluster is dominated by core cell cycle signals (DNA replication, G1/S transition, general cell cycle) and apoptosis, suggesting a theme around proliferation and cell fate decisions. It also contains developmental signals (mesoderm formation, Hedgehog-related neural tube patterning) and a neural plasticity term, indicating coexisting developmental signaling and regulatory pathways. The combination points to a cluster centered on cell-cycle control with developmental signaling context.","confidence":"Medium","size":14,"edges":9,"triangles":0,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0001707","count":3},{"id":"GO:0006260","count":3},{"id":"GO:1901621","count":3}]},{"hash":"192066164248712743","title":"Skeletal muscle sarcomere organization and calcium response","description":"The cluster is dominated by GO terms tied to muscle structure and function: sarcomere organization, skeletal muscle thin filament assembly, skeletal muscle fiber adaptation, and response to calcium ion, all pointing to muscle contraction machinery. While some terms (histone acetylation, ascospore wall) appear noisy or cross-annotated, the recurring theme is assembly and regulation of sarcomeric components and calcium-dependent contraction, justifying a label centered on skeletal muscle architecture and calcium signaling.","confidence":"High","size":14,"edges":46,"triangles":97,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0051592","count":2},{"id":"GO:0043983","count":2},{"id":"GO:0071963","count":2},{"id":"GO:0030240","count":2},{"id":"GO:0030476","count":2}]},{"hash":"1992829406427481156","title":"Neural and Cardiac Development Signaling","description":"The proteins in this cluster are linked to tissue differentiation in neural contexts (midbrain dopaminergic neuron differentiation; cerebellar Purkinje cell precursor signaling) and cardiac tissues (atrial cardiomyocyte development), with supporting signaling pathways such as calcineurin-NFAT and cell-cell junction organization. While a uterine epithelium development term appears among the top terms, the strongest and most coherent theme centers on neural and cardiac developmental signaling and maturation.","confidence":"High","size":14,"edges":56,"triangles":90,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0035847","count":14},{"id":"GO:1904948","count":14},{"id":"GO:0097067","count":14},{"id":"GO:0021937","count":14},{"id":"GO:0045216","count":14}]},{"hash":"498821023550203162","title":"Protein maturation and intracellular targeting","description":"The top GO terms center on protein folding/maturation (ER folding, chaperone-related refolding), post-translational targeting to membranes and organelles (nucleus export, mitochondrion targeting), and protein quality control, suggesting a cohesive module focused on proper protein maturation and delivery within the cell. A few terms (mesoderm formation, DNA replication) are less related and may reflect annotations or background signals. ","confidence":"Medium","size":14,"edges":20,"triangles":7,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0097428","count":2},{"id":"GO:0070389","count":2},{"id":"GO:0046825","count":2},{"id":"GO:0034975","count":2},{"id":"GO:0031204","count":2}]},{"hash":"1020488290848925615","title":"Neural calcium signaling and synaptic plasticity","description":"This cluster is dominated by GO terms tied to neurons, synaptic plasticity, calcium signaling (release and import regulation), and neural development (axonogenesis, visual perception). The convergence on calcium-dependent signaling and synaptic modulation, with supporting terms for neural growth and vision, supports a cohesive theme of neuronal signaling and plasticity. Confidence: High","confidence":"","size":14,"edges":15,"triangles":0,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048168","count":5},{"id":"GO:0051281","count":5},{"id":"GO:0007223","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0007409","count":4}]},{"hash":"1286528455727216581","title":"Retina phototransduction and circadian signaling","description":"The Top Terms show strong emphasis on retinal functions: retina development in camera-type eye, phototransduction, regulation of opsin-mediated signaling pathway, and circadian sleep/wake cycle process, all aligning with light-detection and circadian light input. While there are also terms related to GPCR signaling and systemic processes (vasopressin regulation of blood pressure, intestinal smooth muscle contraction, platelet activation, IL-10 production), these appear less central to the dominant theme of visual/light signaling in this cluster. Therefore, the label captures the core function of the proteins.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001992","count":14},{"id":"GO:0045986","count":14},{"id":"GO:0022410","count":14},{"id":"GO:0060041","count":14},{"id":"GO:0007603","count":14}]},{"hash":"1564877835728954186","title":"Multi-tissue embryonic development","description":"GO terms cluster around embryonic development across diverse tissues (cranial skeleton, cartilage, bone, glial differentiation, pancreas, midbrain, uterus, etc.), suggesting proteins function in broad organogenesis during development.","confidence":"High","size":14,"edges":18,"triangles":0,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0003148","count":5},{"id":"GO:0051216","count":4},{"id":"GO:0048701","count":4},{"id":"GO:0002076","count":4}]},{"hash":"1576391427963170664","title":"Hypoxia- and oxidative-stress signaling","description":"The top GO terms point to responses to low oxygen and reactive oxygen species generation, along with regulation of various signaling pathways (including opsin/GPCR-related signaling and broader signal transduction). While there are some developmental terms and obsolete annotations present, the shared theme across terms is signaling activity tied to hypoxic/oxidative stress and related cellular adjustments (e.g., cell shape regulation). This suggests a cluster centered on stress-responsive signaling rather than a single, cohesive developmental program. ","confidence":"Medium","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042554","count":14},{"id":"GO:0008360","count":14},{"id":"GO:0071456","count":14},{"id":"GO:0048855","count":14},{"id":"GO:0042994","count":14}]},{"hash":"1381845990008114668","title":"Plant hormone metabolism and fruit ripening","description":"This cluster is dominated by GO terms for gibberellin, auxin, and ethylene biosynthesis/catabolism, plus fruit ripening and related stress responses (like hydrogen peroxide\u2013mediated programmed cell death). While a couple terms (penicillin biosynthesis, proanthocyanidin biosynthesis) seem less related, the strongest signal ties to plant hormone metabolism and maturation processes, consistent with roles in hormone-regulated ripening and associated cellular responses.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0045487","count":2},{"id":"GO:0010421","count":2},{"id":"GO:0009852","count":2},{"id":"GO:0009835","count":2}]},{"hash":"1962563207575715480","title":"Ubiquitin-Dependent Protein Turnover and Regulation","description":"The top GO terms point to ubiquitin-mediated protein modification and degradation (ubiquitin-dependent protein catabolic process, autoubiquitination, K6-linked ubiquitination) along with regulation of apoptosis and growth, indicating a cohesive theme around ubiquitin-proteasome\u2013mediated turnover and signaling control.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0033151","count":6},{"id":"GO:0051865","count":6},{"id":"GO:1903762","count":6},{"id":"GO:0046621","count":6}]},{"hash":"1856376242044107113","title":"Mitochondrial energy metabolism and stress response","description":"The GO terms point to mitochondria-centric processes, including membrane fission, iron import, ATP transport, and thermogenesis, with accompanying responses to oxidative stress, fatty acids, and amino acid starvation\u2014together indicating a cluster tied to mitochondrial energy production and stress management.","confidence":"High","size":14,"edges":24,"triangles":9,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0090149","count":4},{"id":"GO:0000002","count":4},{"id":"GO:0060546","count":4},{"id":"GO:0048250","count":3},{"id":"GO:1990845","count":3}]},{"hash":"7940271794860337","title":"PI3K/AKT signaling in development and migration","description":"Top GO terms cluster around PI3K/AKT signaling and downstream developmental and migratory processes, including heart development, angiogenesis regulation, apoptosis, collagen organization, Rho signaling, synapse assembly, and interneuron migration. This suggests the proteins are tied to PI3K-driven pathways influencing development and cell movement, even though individual roles vary. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043552","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0006915","count":5},{"id":"GO:0043491","count":5}]},{"hash":"1847369031452679871","title":"Neuronal synaptic signaling and axon domain localization","description":"The cluster shows strong enrichment for neuronal communication and axon domain organization: long-term synaptic depression, dendritic spine maintenance, regulation of neurotransmitter secretion, and protein localization to paranode and juxtaparanode regions of axons. While a few terms (e.g., spermatid development) are less directly related, the dominant pattern ties to synaptic function and the localization of proteins to specialized axonal domains, suggesting a cohesive neuronal signaling theme.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":3},{"id":"GO:0060292","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0007605","count":3},{"id":"GO:1900026","count":3}]},{"hash":"259767191780088023","title":"Collagen ECM Remodeling and Skin Coagulation","description":"This cluster centers on collagen fibril organization and biosynthetic/catabolic processes, paired with skin development, pointing to extracellular matrix (ECM) synthesis and remodeling in connective tissue. The co-occurrence of coagulation and complement/immune terms suggests involvement in wound healing and immune\u2013coagulation interfaces, while eye morphogenesis appears peripheral to the main ECM/skin theme.","confidence":"Medium","size":14,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048593","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0030199","count":3},{"id":"GO:0032964","count":3},{"id":"GO:0090331","count":3}]},{"hash":"630620394904700898","title":"Developmental signaling and morphogenesis","description":"The Top Terms include developmental processes (uterus development, neuron projection development, dendrite morphogenesis, tight junction assembly) and signaling pathways (TGF-beta stimulus response, integrin-mediated signaling), with additional immune terms (adaptive immune response, phagocytosis). This mix points to a broad theme of development and tissue morphogenesis governed by signaling and cell interactions, rather than a single precise function. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":6},{"id":"GO:0032005","count":5},{"id":"GO:0010976","count":5},{"id":"GO:0071560","count":5},{"id":"GO:0009395","count":5}]},{"hash":"277815610454760084","title":"Unknown","description":"The top GO terms span very diverse processes (glutamine metabolism, carbohydrate phosphorylation, oxidative stress response, proteasome regulation, CENP-A chromatin assembly, mitochondrial inner-membrane protein insertion, SNARE disassembly) and the proteins appear across multiple cellular compartments with no clear, single shared function. This lack of a cohesive theme makes it hard to assign a specific, representative label, so I mark this cluster as Unknown.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006541","count":4},{"id":"GO:0046835","count":4},{"id":"GO:0034599","count":3},{"id":"GO:1901800","count":3},{"id":"GO:1903007","count":3}]},{"hash":"911187293521711408","title":"Cell Cycle and Mitosis","description":"The top GO terms are dominated by cell cycle and mitosis-related processes (cell cycle, cell division, exit from mitosis, centriole regulation). Other terms touch on stress responses and vesicle/endosome related processes, but these appear secondary to core cell division control. This makes \"Cell Cycle and Mitosis\" a concise, representative label for the cluster.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0071454","count":1},{"id":"GO:0006915","count":1}]},{"hash":"2103701378244751606","title":"Unknown","description":"The Top Terms are highly diverse, spanning plant-specific responses (phototropism, gravitropism) and animal processes (skeletal muscle differentiation, sarcomere organization, dendritic cell differentiation, synaptic vesicle endocytosis), plus general terms like protein homooligomerization and renal sodium absorption. With no evident shared function or pathway and no edges linking the proteins, there is no coherent theme to name a meaningful cluster; thus the label Unknown with no confidence.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0009638","count":3},{"id":"GO:2001200","count":3},{"id":"GO:0035853","count":3},{"id":"GO:0070294","count":3}]},{"hash":"2225422962434412074","title":"Actin-driven cell migration and neural morphogenesis","description":"The cluster is dominated by terms for actin-based structures (lamellipodium and filopodium assembly), GTPase activation, and cell spreading, plus endosomal transport, all pointing to dynamic cytoskeletal remodeling and vesicle trafficking underlying cell movement. Neural development terms like midbrain morphogenesis and spinal cord development suggest a neural-context aspect to these processes, tying cytoskeletal dynamics to morphogenesis.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0060313","count":4},{"id":"GO:1904693","count":4},{"id":"GO:0043314","count":4},{"id":"GO:1900026","count":4},{"id":"GO:0030032","count":4}]},{"hash":"2185438640448517692","title":"Chromatin assembly and histone regulation","description":"The cluster is dominated by nucleosome assembly and histone modification/heterochromatin regulation terms, pointing to chromatin organization and epigenetic control, with a minor signal for cell cycle-related processes (centrosome cycle).","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010596","count":3},{"id":"GO:0061098","count":2},{"id":"GO:2001275","count":2},{"id":"GO:0061188","count":2},{"id":"GO:0007098","count":2}]},{"hash":"726415499604826678","title":"Neural development and signaling regulation","description":"The proteins show enrichment for neural development terms (neuron development, neuron maturation, cell migration, synaptic plasticity regulation) and for regulation of signaling pathways (insulin receptor signaling, PI3K activity), suggesting a cohesive theme of neural development with coordinated signaling control and related cell movements.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0046626","count":4},{"id":"GO:0048666","count":4},{"id":"GO:0043552","count":3},{"id":"GO:0060045","count":3}]},{"hash":"2034024001155874644","title":"Neural-immune adhesion and signaling","description":"The top GO terms point to roles in neural connectivity (synapse assembly, axonal fasciculation, AV node activity), cell\u2013cell adhesion, muscle/tissue structure (sarcomere organization), proteolysis, and both innate and adaptive immune responses (neutrophil extravasation). This suggests a cohesive theme of adhesion and intercellular signaling that spans neural, cardiac, immunological, and structural contexts. Confidence: Medium","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051965","count":4},{"id":"GO:0007413","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0045214","count":3},{"id":"GO:0007156","count":3}]},{"hash":"2089955117531000283","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":72,"triangles":226,"max_degree":12,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0046272","count":4},{"id":"GO:0031247","count":4},{"id":"GO:0006874","count":4},{"id":"GO:0032361","count":4},{"id":"GO:0046839","count":4}]},{"hash":"524919516084178776","title":"Carbohydrate and vitamin transporter cluster","description":"The top GO terms point to transmembrane transport activities for multiple sugars (xylose, galactose, glucose) and vitamins/related compounds (ascorbic acid, dehydroascorbic acid), plus xenobiotic transport, indicating a cohesive group of membrane transporters involved in nutrient and cofactor uptake. A secondary note is the vesicle-related process, which may reflect shared transport machinery or related functions. ","confidence":"High","size":13,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043252","count":5},{"id":"GO:0015753","count":5},{"id":"GO:0044381","count":5},{"id":"GO:0042908","count":5},{"id":"GO:0015757","count":5}]},{"hash":"787327248320040404","title":"Retroviral life cycle and latency factors","description":"Explanation: The GO terms cluster around viral infection and retroviral biology\u2014viral life cycle, uncoating, proviral latency establishment, and reverse transcription (RNA-templated DNA biosynthesis). Additional items like symbiont entry into host and translation initiation/protein folding reflect host machinery hijacked during infection, supporting a retroviral entry/replication/latency theme.","confidence":"High","size":13,"edges":30,"triangles":20,"max_degree":11,"top_function":"protein folding","top_go_terms":[{"id":"GO:1901407","count":8},{"id":"GO:0010610","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0000413","count":4},{"id":"GO:0019058","count":4}]},{"hash":"447298904385671719","title":"Developmental signaling and cytoskeletal remodeling","description":"Top GO terms point to roles in tissue development (bone and cardiac muscle), cytoskeletal dynamics (lamellipodium morphogenesis, microtubule-based localization), signaling pathways (JNK cascade), and immune responses (innate and adaptive). This pattern suggests a cluster of proteins involved in developmental signaling and structural remodeling across tissues, rather than a single narrow function.","confidence":"Medium","size":13,"edges":9,"triangles":0,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060348","count":9},{"id":"GO:0046328","count":9},{"id":"GO:1990441","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0035728","count":8}]},{"hash":"1340230576673968625","title":"Immune-Driven Inflammation and Angiogenesis Regulation","description":"This cluster shows strong signals for immune activation (immune response, leukocyte adhesion, neutrophil chemotaxis, IL-1 signaling), endothelial activation, and vascular remodeling, including negative regulation of angiogenesis and responses to hypoxia. The combination suggests proteins coordinating inflammation with changes in blood vessels and tissue regeneration under low-oxygen conditions.","confidence":"High","size":13,"edges":50,"triangles":78,"max_degree":12,"top_function":"wound healing","top_go_terms":[{"id":"GO:0031100","count":4},{"id":"GO:0016525","count":4},{"id":"GO:0001666","count":3},{"id":"GO:0006955","count":3},{"id":"GO:0048661","count":3}]},{"hash":"203651890646592951","title":"Lipid, steroid, and bile acid metabolism","description":"This cluster is dominated by GO terms tied to lipid and steroid metabolism and bile acid biosynthesis (triglyceride, bile acid, androgen, prostaglandin, aldosterone, retinoic acid pathways), with supporting signals from hepatocyte differentiation and digestive tract development, suggesting liver-associated metabolic functions and detoxification capacity (insecticide metabolic process). The convergence of multiple lipid/steroid-related biosynthetic processes points to a cohesive metabolic theme rather than disparate functions.","confidence":"Medium","size":13,"edges":15,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071615","count":2},{"id":"GO:0070365","count":2},{"id":"GO:0006641","count":2},{"id":"GO:0006699","count":2},{"id":"GO:0008209","count":2}]},{"hash":"1128973644233735533","title":"Neural development and secretory pathway","description":"The cluster includes GO terms centered on brain and nervous system development, alongside processes tied to the secretory pathway (COPII-coated vesicle budding) and ubiquitin-dependent protein catabolic/ERAD processes. This combination suggests proteins involved in neural development with roles in protein trafficking and turnover, and possibly cell-cell interactions relevant to neural tissue. While some terms are broader (e.g., heterotrimerization, adhesion), the dominant theme links neural development with vesicle trafficking and protein quality control.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0006471","count":3},{"id":"GO:0051152","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0030433","count":3}]},{"hash":"577632021110133363","title":"Actin Cytoskeleton Remodeling and Motility","description":"This cluster's top GO terms cluster around Rho-regulated actin dynamics: regulation of Rho signaling, microspike assembly and actin crosslinking, and cellular processes like adhesion and migration, as well as responses to mechanical stimuli. While a few terms relate to tissue development (bone and corpus callosum) these appear peripheral; the dominant signal is actin cytoskeleton remodeling driving cell adhesion, movement, and mechanotransduction.","confidence":"High","size":13,"edges":11,"triangles":1,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0048549","count":2}]},{"hash":"2059192496590699509","title":"Innate Immune Signaling and Tissue Remodeling","description":"Top terms cluster around innate immune responses (defense against Gram-positive bacteria, LPS signaling, TLR signaling, IL-8 production), indicating a core innate immune signaling module. Additional terms point to tissue remodeling in inflammatory contexts (collagen fibril organization, lymph vessel morphogenesis). Some outliers (axonogenesis, brassinosteroid detection) may reflect multifunctional annotations, but the dominant theme is innate immune signaling with remodeling.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050830","count":7},{"id":"GO:0071260","count":7},{"id":"GO:0045416","count":7},{"id":"GO:0031663","count":7},{"id":"GO:0007409","count":7}]},{"hash":"1608776356882971642","title":"Developmental Differentiation and Innate Immune Signaling","description":"The top GO terms span developmental processes (neuron development, myotube differentiation, substrate adhesion-dependent cell spreading) alongside innate immune responses (innate immune response, cellular response to lipopolysaccharide) and transcriptional regulation. This suggests the cluster captures proteins involved in both differentiation/development and immune signaling, rather than a single cohesive pathway, so the label emphasizes the two main themes.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048666","count":4},{"id":"GO:0048240","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0014902","count":3},{"id":"GO:0034446","count":3}]},{"hash":"542102475179581964","title":"Neural development and ECM-adhesion signaling","description":"This cluster centers on neural-related processes (prepulse inhibition, social behavior) and extracellular matrix interactions (collagen fibril organization, cell adhesion), with additional immune signaling components (TNF regulation, NK cell differentiation). Although some terms are obsolete and the set is heterogeneous, the strongest cohesive theme appears to be neural development linked to ECM-adhesion signaling, with supplementary immune modulation.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:1904378","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0030199","count":2},{"id":"GO:0060134","count":2},{"id":"GO:0007155","count":2}]},{"hash":"1378524873195863148","title":"Neuronal development and monoaminergic signaling","description":"These terms cluster around brain development (thalamus and adenohypophysis) and neural/glial growth, with several GO terms tied to neurotransmission and monoamine handling (glycine, dopamine, serotonin secretion, uptake, and catabolism). The convergence of developmental and neurotransmitter-related processes supports a label for proteins involved in neuronal development and monoaminergic signaling.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021794","count":4},{"id":"GO:1905847","count":3},{"id":"GO:0042066","count":3},{"id":"GO:0061537","count":3},{"id":"GO:0014064","count":3}]},{"hash":"2176006472412574645","title":"Central metabolism and amino acid and cofactor biosynthesis","description":"GO terms include TCA cycle, 2-oxoglutarate metabolism, lysine and histidine biosynthesis, biotin and folate biosynthesis, and porphyrinogen biosynthesis, indicating a cluster of enzymes in central metabolism and diverse biosynthetic pathways.","confidence":"Medium","size":13,"edges":61,"triangles":149,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":5},{"id":"GO:0006103","count":4},{"id":"GO:0019878","count":4},{"id":"GO:0033512","count":3},{"id":"GO:0042759","count":3}]},{"hash":"2041961283305592207","title":"Unknown","description":"The top terms span immune/stress responses, retinoic acid signaling, and various metabolic/developmental processes with no single dominant function tying the proteins together; the absence of edges also hinders a clear functional label, so a specific label isn\u2019t justifiable.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045471","count":3},{"id":"GO:0009615","count":3},{"id":"GO:0071222","count":3},{"id":"GO:0060068","count":2},{"id":"GO:0009611","count":2}]},{"hash":"595159489704124309","title":"ERAD and Autophagy Proteostasis Regulators","description":"The cluster\u2019s top GO terms point to ubiquitin-dependent ER-associated degradation (ERAD), protein deubiquitination, deglycosylation, and autophagy-related processes (aggrephagy and autophagosome maturation regulation), indicating a core theme of proteostasis control via ubiquitin-proteasome and selective autophagy pathways, with some trafficking/cell-cycle related terms as a secondary note.","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":8},{"id":"GO:0016579","count":8},{"id":"GO:1904378","count":7},{"id":"GO:1903071","count":7},{"id":"GO:0034140","count":7}]},{"hash":"1393757366073522500","title":"MHC II antigen presentation and T cell activation","description":"The cluster\u2019s GO terms cluster around antigen processing and presentation via MHC II and T cell\u2013related responses (cytokine production, apoptosis), with ER- and transport-related terms supporting MHC II loading and trafficking. While a couple terms reference other processes, the dominant theme is antigen presentation and T cell activation.","confidence":"Medium","size":13,"edges":17,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":2},{"id":"GO:0006621","count":2},{"id":"GO:0010204","count":2},{"id":"GO:0002369","count":2},{"id":"GO:0070231","count":2}]},{"hash":"1457054529079109054","title":"Inflammatory signaling and leukocyte migration","description":"This cluster shows strong representation of TNF-related responses (cellular and general) and immune cell trafficking (neutrophil extravasation, thymocyte migration), with supporting signaling context from Notch processing and PKC signaling, alongside keratinocyte differentiation. Together these terms point to a theme of inflammation-driven signaling and leukocyte movement, with some skin differentiation context.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030216","count":7},{"id":"GO:0007220","count":6},{"id":"GO:0034612","count":6},{"id":"GO:0010042","count":6},{"id":"GO:2000391","count":5}]},{"hash":"1559918324744874330","title":"Proteostasis and Protein Maturation","description":"High overlap of GO terms centers on protein folding, maturation, and quality control (ER folding, chaperone cofactor-dependent refolding, and ubiquitin-proteasome\u2013mediated quality control). Additional terms reference post-translational targeting to membranes and organelles, consistent with broader proteostasis across compartments. A few terms (mesoderm formation, DNA replication) are development- or nucleus-related and may reflect multifunctional proteins or annotation noise, but the dominant theme points to protein maturation and quality control pathways.","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0097428","count":13},{"id":"GO:0070389","count":13},{"id":"GO:0046825","count":13},{"id":"GO:0034975","count":13},{"id":"GO:0031204","count":13}]},{"hash":"569561990905483270","title":"Neural signaling and sensory perception cluster","description":"The top GO terms cluster around nervous system function and sensory processing: dopaminergic synaptic transmission, behavioral response to cocaine, visual perception and learning, sensory perception of pain, and ERK signaling, all of which point to neural signaling and sensory pathways. Additional terms like cellular response to prostaglandin E and vasopressin-regulated blood pressure suggest neuroendocrine modulation, while heart development appears as a broader developmental context. Taken together, the shared theme is neural signaling and sensory processing, with some peripheral physiological connections.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":13},{"id":"GO:0001963","count":13},{"id":"GO:0048148","count":13},{"id":"GO:0071380","count":13},{"id":"GO:0010759","count":13}]},{"hash":"1488779532837779348","title":"MAPK-regulated cerebellar development and glial differentiation","description":"The top GO terms strongly point to MAPK/ERK signaling regulation (negative regulation of ERK1/2 cascade) and cerebellar development (cerebellar cortex formation, Bergmann glial cell differentiation). This suggests a cluster of proteins involved in modulating MAPK signaling during cerebellar development and glial maturation, with additional signaling terms reflecting broader pathway interactions. Confidence is medium due to some terms (e.g., T cell signaling) that are less cerebellum-specific but may reflect general signaling cross-talk.","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":11},{"id":"GO:0000200","count":11},{"id":"GO:0050860","count":11},{"id":"GO:0048679","count":9},{"id":"GO:0060020","count":9}]},{"hash":"2137455019331837857","title":"Host Defense and Cellular Stress Response","description":"This cluster centers on defense against invaders and cellular stress signaling, with GO terms such as host-mediated suppression of symbiont invasion, apoptotic process, and response to xenobiotic stimulus pointing to protective and stress-responsive pathways; other terms appear related to development or obsolete annotations, likely reflecting noise.","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046597","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0071320","count":2},{"id":"GO:0014912","count":2},{"id":"GO:2000327","count":2}]},{"hash":"1106653035094836577","title":"Neural development and transcription regulation","description":"The top GO terms center on neural development (forebrain development, neural tube closure), DNA-templated transcription, and modulation of signaling (negative regulation of canonical Wnt signaling) plus cell migration, suggesting a cohesive theme around neural development and gene regulation. While there are some outliers related to immune or stress responses, the dominant signals point to a neural development and transcriptional control module.","confidence":"Medium","size":13,"edges":22,"triangles":7,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0090090","count":8},{"id":"GO:0043065","count":8},{"id":"GO:0050830","count":8},{"id":"GO:0001403","count":8}]},{"hash":"268780255829489021","title":"Embryonic Development and Neural Connectivity","description":"The cluster centers on developmental processes across tissues (embryonic morphogenesis, heart development, and vagina development) and includes proteins involved in cell adhesion and collagen organization, as well as neural connectivity processes (synapse organization, trans-synaptic signaling, chemorepulsion in olfactory bulb interneurons, and myelination) with hedgehog signaling linking morphogenesis and neural patterning. This suggests a coherent theme of developmental regulation coordinating tissue morphogenesis and neural circuit formation.","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060068","count":7},{"id":"GO:0007156","count":7},{"id":"GO:0030199","count":7},{"id":"GO:0007224","count":7},{"id":"GO:0099557","count":7}]},{"hash":"1705712569482160488","title":"RNA processing and ribosome biogenesis under TORC1 signaling","description":"The cluster\u2019s terms center on RNA processing (notably mRNA splicing via spliceosome) and components of ribosome biogenesis, translation initiation/reinitiation, and ribosomal export, all linked to TORC1 signaling and nutrient/ growth responses, suggesting a cohesive theme of RNA processing and protein synthesis regulated by growth signals.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000398","count":6},{"id":"GO:0007584","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0051301","count":4}]},{"hash":"14729687903777144","title":"Glycosylation and GPI-anchor biosynthesis","description":"The strongest signals in this cluster are dolichol-linked oligosaccharide biosynthesis and GPI anchor biosynthetic processes, both key steps in glycoprotein maturation in the secretory pathway. This points to a core theme around glycosylation-related protein processing, even though some other GO terms here appear more context-specific or broad (e.g., hypoxia response, pollen tube guidance). Overall, the glycosylation/ER-associated maturation idea best ties the terms together.","confidence":"Medium","size":13,"edges":12,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:0098907","count":3},{"id":"GO:0006488","count":3},{"id":"GO:0010183","count":3},{"id":"GO:0006506","count":3}]},{"hash":"393078497673757953","title":"Multicellular development and tissue organization","description":"The cluster shows a strong signal for organismal development across tissues (skin, vagina, dendrite development, general multicellular development) along with structural/interaction terms (cell\u2013cell adhesion, collagen fibril organization), pointing to roles in tissue morphogenesis and extracellular matrix organization. Some terms (like the ERAD pathway) appear as noise and don\u2019t fit the core theme, but the dominant pattern centers on development and tissue architecture.","confidence":"Medium","size":13,"edges":34,"triangles":36,"max_degree":9,"top_function":"autophagy","top_go_terms":[{"id":"GO:0050773","count":8},{"id":"GO:0043588","count":8},{"id":"GO:0008284","count":8},{"id":"GO:0030433","count":8},{"id":"GO:0007275","count":8}]},{"hash":"576217220905499216","title":"Hair follicle development and vascular remodeling","description":"The cluster shows enrichment for hair follicle morphogenesis and positive regulation of hair follicle cell proliferation, alongside endothelial lumen extension, ERK signaling regulation, and mechanical stimulus response. Together, these terms suggest coordinated skin/hair morphogenesis with associated angiogenesis and tissue remodeling. Other terms like macrophage differentiation and phospholipid homeostasis point to broader membrane signaling and immune-related aspects but do not override the central theme of development and remodeling. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031532","count":5},{"id":"GO:0071338","count":4},{"id":"GO:0097498","count":4},{"id":"GO:0090316","count":4},{"id":"GO:0070374","count":4}]},{"hash":"108879542278087998","title":"Mitotic spindle assembly and microtubule dynamics","description":"The top terms are dominated by mitosis-related processes (mitotic spindle assembly, meiotic spindle orientation, mitotic metaphase chromosome recapture), plus-end and cytoplasmic microtubule depolymerization, centrosome separation, and regulation of microtubule-based processes, with a note on actomyosin ring assembly for cytokinesis. These collectively indicate a cohesive theme of spindle formation and microtubule remodeling during cell division, with only a peripheral link to neuron projection maintenance. ","confidence":"High","size":13,"edges":63,"triangles":161,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":7},{"id":"GO:0051296","count":6},{"id":"GO:1990942","count":6},{"id":"GO:0070462","count":6},{"id":"GO:0007100","count":6}]},{"hash":"812035903046856786","title":"Innate Immune Signaling and Cytoskeleton Remodeling","description":"The top GO terms show a predominance of innate immune response, combined with actin cytoskeleton dynamics (actin filament bundle assembly, cell migration) and signaling regulation (NF-kappaB, ubiquitination). This points to a functional theme where immune signaling interfaces with cytoskeletal remodeling and receptor trafficking, possibly coordinating immune cell movement and polarity, with some cross-talk to receptor clustering pathways such as AMPA receptors. Confidence in this cohesive theme is moderate, given the diverse terms and some potentially orthogonal annotations.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0051017","count":4},{"id":"GO:0032088","count":4},{"id":"GO:0090162","count":4},{"id":"GO:0016477","count":4}]},{"hash":"2184875051269478885","title":"Ubiquitin-Dependent Protein Degradation","description":"The cluster is dominated by GO terms for ubiquitination (multiple linkages, including K48 and K63, and autoubiquitination) and proteasomal protein catabolic processes, with histone catabolic process as a related degradation pathway. A few terms touch adaptive immune signaling, but the core theme is tagging proteins with ubiquitin for proteasome-mediated degradation, supporting a label around the ubiquitin-proteasome system.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051865","count":8},{"id":"GO:0085020","count":8},{"id":"GO:0070936","count":8},{"id":"GO:0042787","count":8},{"id":"GO:0036205","count":7}]},{"hash":"1592896988455300466","title":"Sphingolipid transport and metabolism","description":"This cluster is dominated by GO terms for ceramide transport (including ER to Golgi ceramide transport), glycosphingolipid metabolic processes, and glycolipid transport, pointing to a cohesive role in sphingolipid trafficking and lipid metabolism. The presence of related membrane transport terms supports a broader membrane transport theme, with immune-defense terms likely reflecting incidental or context-dependent aspects of membranes. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009615","count":2},{"id":"GO:0072488","count":1},{"id":"GO:0015695","count":1},{"id":"GO:0009816","count":1},{"id":"GO:0006687","count":1}]},{"hash":"1383691096286051821","title":"Hair Keratinization","description":"The proteins are enriched for keratinization with a secondary association to the hair cycle, indicating a theme of keratin fiber formation in hair/epidermal tissues and hair follicle biology.","confidence":"High","size":13,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":11},{"id":"GO:0042633","count":2}]},{"hash":"44760705384359637","title":"Hair Cycle and Keratinization","description":"The top GO terms point to hair-related processes, specifically hair cycle and keratinization, indicating the proteins are likely involved in hair follicle biology and keratin-rich structure formation. This combination suggests a cohesive cluster of keratinocytes and hair shaft proteins.","confidence":"High","size":13,"edges":77,"triangles":275,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0042633","count":13},{"id":"GO:0031424","count":12}]},{"hash":"1858263791961505066","title":"Ion Transport and Action Potential Signaling","description":"This cluster centers on sodium and potassium ion transmembrane transport, membrane depolarization, and excitatory postsynaptic potentials, with a specific reference to AV node action potentials, pointing to electrical signaling in excitable tissues like neurons and the heart. Additional terms on proteolysis and cell adhesion appear ancillary to this core theme. Overall, the proteins seem to co-aggregate around ion transport and membrane potential dynamics that underlie electrical signaling.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050910","count":4},{"id":"GO:2000649","count":3},{"id":"GO:0051899","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0071805","count":3}]},{"hash":"1305965270258049561","title":"Neuronal signaling and circadian behavior","description":"The top GO terms cluster around neural signaling and behavioral regulation, including circadian rhythm, calcium-mediated signaling, thermotaxis, anesthesia-resistant memory, and serotonin biosynthesis, pointing to neuronal control of daily rhythms and sensory-driven behavior. A few terms (response to pyrethroid, phytoalexin metabolism, methanofuran biosynthetic process) are less directly related and may reflect broader metabolic or detox contexts, but the core theme centers on neural signaling and circadian/behavioral processes.","confidence":"High","size":13,"edges":50,"triangles":122,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046684","count":5},{"id":"GO:0051454","count":5},{"id":"GO:0007623","count":5},{"id":"GO:2001120","count":5},{"id":"GO:0052314","count":5}]},{"hash":"1411593393047819853","title":"Glutamatergic Synaptic Transmission","description":"This cluster centers on excitatory neurotransmission and glutamate signaling, with strong representation of ionotropic glutamate receptor signaling, regulation of glutamatergic synaptic transmission, and excitatory postsynaptic potentials. While there is also GABA signaling present, the dominant theme is glutamatergic synapse function and ion channel\u2013mediated excitation, consistent with neural signaling and related behavioral phenotypes. ","confidence":"High","size":13,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":12},{"id":"GO:0071805","count":12},{"id":"GO:0060079","count":12},{"id":"GO:0001661","count":11},{"id":"GO:0007626","count":11}]},{"hash":"2125062309424208024","title":"ECM Remodeling in Development and Immunity","description":"Cluster features strong signals for extracellular matrix organization and remodeling (collagen fibril organization, ossification, embryonic cranial skeleton morphogenesis), along with cell adhesion and proteolysis, pointing to tissue remodeling and skeletal development. The presence of nervous system development and gastrointestinal epithelium maintenance terms suggests broader developmental roles, while complement activation and T cell proliferation indicate coordinated immune interactions. Taken together, these terms describe proteins involved in ECM remodeling during development with immune involvement.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":5},{"id":"GO:0007399","count":4},{"id":"GO:0043931","count":4},{"id":"GO:0030277","count":4},{"id":"GO:0042102","count":4}]},{"hash":"2270542222935789396","title":"Actin-based cytoskeleton dynamics and polarity","description":"The cluster\u2019s GO terms converge on actin-driven processes: microspike and focal adhesion assembly, Rho signaling, and cell shape/polarity maintenance, with supporting signals from thrombin receptor pathways and even mitotic spindle components, reflecting broader cytoskeletal remodeling roles in adhesion, migration, and division.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070493","count":2},{"id":"GO:0048549","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0030035","count":2},{"id":"GO:0090307","count":2}]},{"hash":"1451885984829418134","title":"Unknown","description":"The GO terms show a wide range of functions\u2014from barrier formation (septate junctions, glial blood-brain barrier) and ion transport (calcium, monoatomic ions) to developmental/regulatory processes (bone resorption, angiogenesis, optic nerve development, tracheal tube size). This lack of a single cohesive theme among the terms suggests there is no clear, unifying function for this cluster.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019991","count":2},{"id":"GO:0060857","count":2},{"id":"GO:0045671","count":2},{"id":"GO:0035151","count":2},{"id":"GO:0070296","count":2}]},{"hash":"1917957193133131255","title":"Amino Acid Catabolism and Energy Metabolism","description":"Most frequent GO terms concern amino acid catabolism (lysine, leucine, alanine) and related energy pathways (pyruvate metabolism, gluconeogenesis) and starvation response. This pattern suggests a cluster enriched for enzymes and regulatory proteins governing amino acid breakdown and the generation of glucose and energy, rather than a single signaling or developmental pathway. Notably, a few terms related to liver development or Notch signaling appear but are less representative.","confidence":"Medium","size":12,"edges":46,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0019878","count":5},{"id":"GO:0006814","count":4},{"id":"GO:0033512","count":4},{"id":"GO:0006090","count":4},{"id":"GO:0001889","count":4}]},{"hash":"972368500522135514","title":"Ribosome biogenesis and translation regulation","description":"Most terms describe ribosome biogenesis and translation (translation, SSU-rRNA maturation, small subunit assembly, and small-subunit processome assembly). A few other terms touch RNA processing and translational control (alternative splicing via spliceosome, miRNA-mediated silencing, viral translation termination-reinitiation), with a couple of development-related terms as minor associations; however the core theme is ribosome production and translation control.","confidence":"High","size":12,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0000028","count":2},{"id":"GO:0001825","count":2},{"id":"GO:0051965","count":2}]},{"hash":"1332566111188253319","title":"Tissue differentiation and development","description":"The top GO terms cluster around differentiation and development across multiple tissues (muscle, heart, nerve, melanocytes, renal interstitial tissue, myelination, etc.), plus processes like myoblast fusion, indicating a shared theme of tissue-specific development rather than a single precise function.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0014908","count":12},{"id":"GO:2000793","count":12},{"id":"GO:0061103","count":12},{"id":"GO:0021557","count":12},{"id":"GO:0030318","count":12}]},{"hash":"1572254496337158629","title":"Plant xylan biosynthesis and secondary cell wall assembly","description":"The dominant GO terms point to plant-type secondary cell wall biogenesis and glucuronoxylan biosynthesis, indicating a focus on cell wall polysaccharide construction (xylan) in plants. A few other terms (pseudouridine synthesis, chromatin regulation) are less cohesive with this theme, suggesting some annotation noise or multi-function proteins. Overall, the cluster seems best described by xylan-based cell wall biosynthesis, hence this label.","confidence":"Medium","size":12,"edges":11,"triangles":3,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0009834","count":2},{"id":"GO:0006486","count":2},{"id":"GO:0010417","count":2},{"id":"GO:0075015","count":2},{"id":"GO:0005978","count":2}]},{"hash":"1744226258708570935","title":"Intracellular Vesicle Trafficking (Golgi\u2013ER/Endosome)","description":"The dominant GO terms point to multiple vesicle transport processes within the secretory pathway, including Golgi\u2013endosome, ER\u2013Golgi, and general vesicle movement (anterograde/retrograde). This suggests that the proteins in this cluster are primarily involved in intracellular trafficking rather than a single linear function. A few terms (apoptosis, ubiquitination, splicing, defense) may reflect multifunctional roles or incidental associations, but the trafficking theme is most representative.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0006895","count":2},{"id":"GO:0006890","count":2}]},{"hash":"619102735876605535","title":"Cross-tissue differentiation and development","description":"This cluster\u2019s terms are dominated by differentiation processes across multiple tissues (skeletal muscle differentiation and myoblast fusion; nerve development; melanocyte and carotid body glomus cell differentiation; astrocyte differentiation regulation; heart valve-related proliferation). The common theme is lineage specification and tissue development rather than a single pathway, suggesting a label that captures broad developmental differentiation across tissues.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0048712","count":12},{"id":"GO:2001038","count":12},{"id":"GO:0014908","count":11},{"id":"GO:2000793","count":11},{"id":"GO:0061103","count":11}]},{"hash":"281169643068795524","title":"mRNA Splicing and Export","description":"The proteins are enriched for spliceosome-mediated splicing and other mRNA processing steps (export from the nucleus, alternative splicing, processome assembly, and mRNA stabilization), indicating a cohesive module dedicated to post-transcriptional maturation of mRNA, particularly splicing and export mechanisms.","confidence":"High","size":12,"edges":3,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006406","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0000380","count":3},{"id":"GO:0001825","count":3},{"id":"GO:0075525","count":3}]},{"hash":"2130080328052839024","title":"Carbohydrate and Lipid Metabolism","description":"Based on the top GO terms, the proteins are enriched for diverse metabolic processes spanning carbohydrate catabolism (xylitol catabolic process, galactose catabolic pathway via D-galactonate, pyruvate fermentation to ethanol) and energy generation (NADH oxidation). They also include lipid-related metabolism (prostaglandin metabolic process, retinol metabolic process) and a signaling-regulation aspect (extracellular negative regulation of signal transduction), suggesting a broad metabolic-division cluster rather than a single, cohesive pathway. ","confidence":"Medium","size":12,"edges":63,"triangles":191,"max_degree":11,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0051160","count":7},{"id":"GO:0006693","count":7},{"id":"GO:0018119","count":7},{"id":"GO:0043458","count":7},{"id":"GO:0006116","count":7}]},{"hash":"1468015534290011638","title":"Multiorgan development","description":"The proteins are enriched for GO terms spanning development of multiple tissues and organs (heart, fat cell, mammary gland, amygdala, vagina) and include regulatory aspects like timing of neuron differentiation and gene expression. This points to a broad developmental/differentiation theme across diverse organs, rather than a single specific process.","confidence":"High","size":12,"edges":8,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045444","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0045994","count":6},{"id":"GO:0032922","count":6},{"id":"GO:0060749","count":6}]},{"hash":"1132378362036237209","title":"Cytoskeleton dynamics in development and tissue organization","description":"This cluster centers on cytoskeletal regulation (microtubule binding and localization) and its roles in development and tissue architecture, evidenced by neuron projection development, cardiac muscle filament assembly, and tight junction assembly, with supporting signaling (TGF-beta) and broader remodeling contexts. Confidence: Medium","confidence":"","size":12,"edges":15,"triangles":3,"max_degree":10,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1904528","count":10},{"id":"GO:1904694","count":9},{"id":"GO:0032005","count":9},{"id":"GO:0010976","count":9},{"id":"GO:0071560","count":9}]},{"hash":"2268540221191751333","title":"Epigenetic regulation and RNA processing","description":"This cluster is driven by methylation-related processes (histone, protein, and tRNA methylation) alongside transcription and RNA processing activities (RNA polymerase II transcription and rRNA processing), pointing to a shared theme of gene-expression regulation through methylation and RNA maturation. Some terms are obsolete or metabolic (aging, cobalamin biosynthesis), which appear as background noise rather than defining the cluster.","confidence":"Medium","size":12,"edges":64,"triangles":201,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0051573","count":4},{"id":"GO:0021983","count":4},{"id":"GO:0035690","count":3},{"id":"GO:0006366","count":3},{"id":"GO:0006479","count":3}]},{"hash":"1996065347703042058","title":"Embryonic organogenesis and tissue morphogenesis","description":"The cluster centers on developmental processes across multiple organs, with GO terms for brain region development (medulla oblongata, midbrain dopaminergic neuron differentiation), renal outer medulla and oviduct development, prostate gland development, and maintenance of organ identity. Also includes cell movement/migration and cytoskeletal remodeling (pseudopodium assembly), typical of morphogenesis. Overall, the common theme is embryonic organ formation and tissue differentiation rather than a single, cohesive signaling pathway.","confidence":"Medium","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0016477","count":8},{"id":"GO:0021550","count":7},{"id":"GO:0072054","count":7},{"id":"GO:0060066","count":7},{"id":"GO:0045976","count":7}]},{"hash":"2137113429715977363","title":"Cardiovascular signaling and oxidative stress response","description":"The terms point to oxidative stress response (hydrogen peroxide), vascular and heart development with VEGF signaling, and cell migration, along with sphingolipid biosynthesis regulation and phosphorylation control, suggesting a cluster of proteins involved in signaling pathways governing cardiovascular development and cellular adaptation to stress. Some terms touch on immune signaling and synaptic regulation, but the dominant theme is stress-responsive vascular signaling and developmental processes.","confidence":"Medium","size":12,"edges":9,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0070301","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0098761","count":3},{"id":"GO:0090153","count":3},{"id":"GO:0016477","count":3}]},{"hash":"2160177162513980001","title":"Neural development and synaptic adhesion","description":"The top GO terms point strongly to brain development (including corticospinal tract morphogenesis and Purkinje cell development) and synaptic organization (neuroligin clustering, postsynaptic assembly) with cell\u2013cell adhesion. A few terms relate to general growth or other developmental processes, but the dominant theme is neural development and synaptic adhesion.","confidence":"High","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0021957","count":3},{"id":"GO:1903142","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0000122","count":3}]},{"hash":"574673586751720445","title":"Unknown","description":"The GO terms cover diverse processes\u2014nucleocytoplasmic transport (RNA export, nuclear membrane localization, nuclear import), translation, cell-cycle transitions, ubiquitin-dependent protein degradation, and various organelle localizations\u2014showing no single coherent function across the cluster. Therefore, a concise label cannot be assigned.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0002181","count":1},{"id":"GO:0036228","count":1},{"id":"GO:0090526","count":1},{"id":"GO:0000061","count":1}]},{"hash":"176668196379090822","title":"Chromatin modification during cell division","description":"This cluster is most strongly tied to mitosis and chromatin regulation, with repeated terms for cell division, mitotic cell cycle, and histone modification (methylation and dephosphorylation). While a few unrelated terms (photosynthesis, defense response, morphine) appear, they are not central to the main theme, which is chromatin control during cell division. ","confidence":"Medium","size":12,"edges":10,"triangles":0,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0035435","count":3},{"id":"GO:0000413","count":3},{"id":"GO:0043278","count":3},{"id":"GO:2001162","count":3}]},{"hash":"1035823288718294407","title":"Mitochondrial-mediated apoptotic regulation and ubiquitination","description":"These proteins are enriched for mitochondrial apoptotic events (cytochrome c release, regulation of mitochondrial depolarization) and ubiquitin-related processes (polyubiquitination). The co-occurrence of intrinsic, oxidative-stress\u2013linked apoptotic signaling and ubiquitin-based regulation strongly suggests involvement in mitochondria-driven apoptosis control, with ubiquitin pathways modulating this signaling. ","confidence":"High","size":12,"edges":10,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":2},{"id":"GO:1903378","count":2},{"id":"GO:0001836","count":2},{"id":"GO:0051902","count":2},{"id":"GO:0043154","count":2}]},{"hash":"916453208646841220","title":"ER folding and membrane targeting in development","description":"The cluster\u2019s top GO terms center on protein folding in the ER (GO:0034975), post-translational targeting to membranes (GO:0031204), and related protein maturation/trafficking processes (e.g., protein export regulation, oligomerization). This points to a group of proteins involved in proper folding and localization of other proteins within the secretory pathway, with additional developmental signals such as axonogenesis and mesoderm formation, suggesting a role in development where protein maturation and trafficking are tightly coordinated. ","confidence":"Medium","size":12,"edges":21,"triangles":4,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006469","count":7},{"id":"GO:0007409","count":4},{"id":"GO:0097428","count":3},{"id":"GO:0070389","count":3},{"id":"GO:0046825","count":3}]},{"hash":"1777731453303703466","title":"Hepatic lipid and steroid metabolism","description":"This cluster centers on liver-associated metabolic pathways, including triglyceride metabolism, bile acid biosynthesis, and steroid-related processes (androgen/aldosterone biosynthesis). The presence of prostaglandin biosynthesis and retinoic acid catabolism supports lipid/retinoid signaling roles. Additionally, camphor catabolic and oxidative deethylation terms hint at xenobiotic processing typical of hepatic detoxification, with hepatocyte differentiation suggesting a developmental/liver-specific context. Overall, the terms point to liver-centric lipid and steroid metabolism with detoxification features.","confidence":"Medium","size":12,"edges":14,"triangles":1,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0019383","count":5},{"id":"GO:0071615","count":4},{"id":"GO:0070365","count":4},{"id":"GO:0006641","count":4},{"id":"GO:0006699","count":4}]},{"hash":"705741257713333046","title":"Transmembrane Ion and Metabolite Transport","description":"The GO terms are dominated by various transmembrane transport processes, including ions (sodium, potassium, phosphate, nitrate) and small molecules (sialic acid, fucose, arabinose, vitamins) as well as neurotransmitter loading into synaptic vesicles, pointing to a cluster of membrane transport proteins handling ion and nutrient movement across membranes rather than a single substrate pathway.","confidence":"High","size":12,"edges":20,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":7},{"id":"GO:0098700","count":7},{"id":"GO:0015739","count":7},{"id":"GO:0035435","count":7},{"id":"GO:0071805","count":7}]},{"hash":"1907890636413242754","title":"Neuronal vesicle trafficking and signaling","description":"The cluster is dominated by neuronal-related processes: synaptic vesicle budding, calcium-dependent exocytosis, phototransduction, and brain development, with connections to vesicle trafficking via COPII regulation and Hedgehog/Smoothened signaling. These terms together point to a coherent theme of neuronal vesicle trafficking and synaptic signaling, justifying a single, specific label.","confidence":"High","size":12,"edges":60,"triangles":166,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0071257","count":12},{"id":"GO:0070142","count":12},{"id":"GO:1903554","count":12},{"id":"GO:0003400","count":12},{"id":"GO:0007603","count":12}]},{"hash":"1586802247855979290","title":"Rho GTPase\u2013driven actin dynamics and cell migration","description":"The cluster is dominated by terms tied to actin cytoskeleton organization, filopodium assembly, and cell migration, all regulated by Rho family GTPases and related signaling (small GTPase-mediated signal transduction; regulation of Rho signaling). The presence of adhesion/spreading and cytoskeletal remodeling points to a cohesive theme of morphodynamics and motility across cells. Some immune/developmental terms appear, but the core signal centers on cytoskeletal dynamics driving movement and shape changes.","confidence":"High","size":12,"edges":22,"triangles":9,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900026","count":10},{"id":"GO:0046847","count":10},{"id":"GO:0007264","count":10},{"id":"GO:0007507","count":9},{"id":"GO:0035023","count":9}]},{"hash":"1002773010019780900","title":"RNA and Protein Methylation","description":"The top GO terms are dominated by methylation and related post-translational modification processes (RNA methylation: rRNA, tRNA, RNA methylation; histone methylation; N-terminal peptidyl-alanine trimethylation; peptidyl-arginine hydroxylation). A few terms for lipid biosynthesis are present but appear peripheral to the main theme. This suggests the cluster centers on methylation/modification-related enzymes and activities. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030961","count":2},{"id":"GO:0006656","count":2},{"id":"GO:0090398","count":2},{"id":"GO:0006744","count":2},{"id":"GO:0018012","count":2}]},{"hash":"871393409927478472","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":12,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006295","count":3},{"id":"GO:0006296","count":3},{"id":"GO:1905765","count":3},{"id":"GO:0007095","count":3},{"id":"GO:0061819","count":3}]},{"hash":"1421863559099230530","title":"Cortical neural development and migration with Wnt signaling","description":"The top GO terms center on forebrain/cortical development, radial glial differentiation, and radially oriented cortical neuron migration, with multiple entries involving positive regulation of canonical Wnt signaling. This points to a cohesive function in cortical neuron formation and positioning, modulated by Wnt pathway activity.","confidence":"High","size":12,"edges":26,"triangles":22,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043525","count":8},{"id":"GO:0031384","count":8},{"id":"GO:0010796","count":8},{"id":"GO:0043524","count":8},{"id":"GO:0090263","count":6}]},{"hash":"189577191647737470","title":"Multi-tissue developmental signaling","description":"The top GO terms span immune differentiation (B and T cell signaling, IL-1 signaling), neural signaling (GABAergic synaptic regulation, brain development), organ and tissue development (glomerulus, retinal, myoblast differentiation), and systemic regulation (blood pressure). This mix suggests proteins involved in broad developmental signaling across multiple tissues rather than a single pathway, making a concise label like Multi-tissue developmental signaling appropriate and descriptive.","confidence":"Medium","size":12,"edges":4,"triangles":0,"max_degree":4,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0002316","count":5},{"id":"GO:0046673","count":5},{"id":"GO:0032228","count":5},{"id":"GO:0050852","count":5},{"id":"GO:0045663","count":5}]},{"hash":"865850655877840792","title":"Rho/Actin Cytoskeleton Remodeling and Cell Adhesion","description":"This cluster is enriched for GO terms related to regulation of Rho signaling, actin cytoskeleton reorganization, and structures involved in cell movement and adhesion (podosomes, filopodia, tight junctions, integrin signaling), as well as morphogenesis, suggesting a cohesive role in cytoskeletal remodeling and cell\u2013cell/matrix adhesion during organogenesis.","confidence":"High","size":12,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0031532","count":4},{"id":"GO:0071560","count":3},{"id":"GO:0007229","count":3},{"id":"GO:0070830","count":3}]},{"hash":"2260548538861841437","title":"Actin-Driven Membrane Remodeling and Filopodia","description":"The cluster is dominated by GO terms for actin cortical patch assembly, filopodium assembly, membrane invagination, and plasma membrane tubulation, pointing to actin cytoskeleton remodeling and membrane protrusion. Rac signaling regulation and related pathways further support cytoskeletal dynamics, with some unrelated terms likely reflecting broader cellular remodeling events.","confidence":"High","size":12,"edges":13,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0000147","count":3},{"id":"GO:0010324","count":3},{"id":"GO:0097320","count":3},{"id":"GO:0046847","count":3}]},{"hash":"1634322955878527159","title":"Retina-Visual Signaling and Circadian Regulation","description":"The proteins cluster around vision-related processes: visual perception, retina development, and phototransduction, along with circadian sleep/wake cycle regulation. There are also GPCR/Rho signaling and vascular regulation terms, but the strongest common theme is retinal/visual system function tied to circadian rhythms, with some broader signaling roles.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035025","count":10},{"id":"GO:0045777","count":10},{"id":"GO:0010579","count":10},{"id":"GO:0022900","count":10},{"id":"GO:0007601","count":9}]},{"hash":"2207302988559014178","title":"Cadherin-mediated adhesion in neural and inner-ear development","description":"The top GO terms cluster around cadherin- and other cell\u2013cell adhesion processes (homophilic/heterophilic adhesion and cadherin-mediated adhesion) and cell junction organization, with notable neural/inner-ear development signals (neuronal stem cell maintenance, inner ear development, oligodendrocyte progenitor regulation). This points to a cohesive theme of cadherin-based adhesion modules shaping neural and inner-ear development and glial lineage dynamics, with some related signaling context. ","confidence":"High","size":12,"edges":4,"triangles":0,"max_degree":2,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007156","count":10},{"id":"GO:0048839","count":10},{"id":"GO:0007157","count":10},{"id":"GO:0097150","count":8},{"id":"GO:0002315","count":8}]},{"hash":"213180368170555160","title":"Cerebellar development and neural signaling regulation","description":"The cluster includes terms tied to cerebellar development, such as cerebellar cortex formation and Bergmann glial cell differentiation, as well as regulation of axon regeneration, which point to neural development. There are also repeated themes of signaling pathway regulation (MAPK/ERK cascade, insulin signaling, and T cell receptor signaling), suggesting broader control of signaling in these proteins, but the strongest and most coherent signal is cerebellar neurodevelopment and its associated signaling regulation. Confidence: Medium","confidence":"Medium","size":12,"edges":58,"triangles":153,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":10},{"id":"GO:0000200","count":10},{"id":"GO:0050860","count":10},{"id":"GO:0048679","count":8},{"id":"GO:0060020","count":8}]},{"hash":"1837581481075874197","title":"Developmental differentiation and glycosylation","description":"The GO terms point to development- and differentiation-related processes, especially epidermal/sensory lineages (corneocyte development, neuromast hair cell differentiation) and bone mineralization, with a background of protein N-linked glycosylation and metabolic activity. This suggests a cohesive theme around cell fate specification in epithelial/sensory contexts, supported by glycosylation.","confidence":"Medium","size":12,"edges":13,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006487","count":2},{"id":"GO:0014912","count":2},{"id":"GO:0030501","count":2},{"id":"GO:0070658","count":1},{"id":"GO:0005975","count":1}]},{"hash":"458619368729838832","title":"Zinc ion transport and homeostasis","description":"Most top GO terms point to zinc ion import, detoxification, and intracellular zinc homeostasis, suggesting proteins focused on zinc handling. A couple of developmental terms appear incidental. Overall, the cluster is best described as zinc transport and homeostasis.","confidence":"High","size":12,"edges":15,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070574","count":2},{"id":"GO:0010312","count":2},{"id":"GO:0006831","count":2},{"id":"GO:0060173","count":2},{"id":"GO:0044749","count":2}]},{"hash":"1460052465174704120","title":"Coagulation, fibrinolysis, and angiogenesis","description":"This cluster centers on hemostasis and vascular response, with GO terms for blood coagulation, fibrinolysis, and positive regulation of angiogenesis, plus the acute-phase inflammatory response and mechanical-stimulus signaling that together point to vascular injury and wound-healing processes. Some terms are peripheral or obsolete, but the core set supports a vascular inflammation/hemostasis theme.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0010976","count":3},{"id":"GO:0042730","count":3},{"id":"GO:0042628","count":3}]},{"hash":"585452492992112240","title":"Membrane transport and cellular signaling","description":"The top GO terms cluster around membrane-associated processes (proton transmembrane transport, vacuolar acidification) and signaling/regulation (calcium release, mechanosensing, ubiquitination, NF-kB/IL-2 regulation, axonogenesis, and ECM-related organization), suggesting a broad theme of membrane transport coupled to signaling pathways that govern growth, signaling, and immune responses.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009826","count":3},{"id":"GO:0015991","count":2},{"id":"GO:0007035","count":2},{"id":"GO:0007409","count":2},{"id":"GO:0030199","count":2}]},{"hash":"299803676427221780","title":"Developmental transcriptional regulation","description":"The dominant GO terms show transcriptional control by RNA polymerase II (including negative regulation and DNA-templated transcription), paired with developmental processes such as palate formation, left-right patterning, and placental/trophoblast differentiation, suggesting a cluster of factors involved in regulating transcription during development.","confidence":"High","size":12,"edges":11,"triangles":0,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0007576","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0046022","count":5},{"id":"GO:0070895","count":5}]},{"hash":"837537537868568281","title":"Embryonic development and tissue morphogenesis","description":"These proteins are enriched for GO terms spanning embryogenesis, including mesoderm development, palate and placenta-related differentiation, left-right patterning, endocardial EMT, cartilage morphogenesis, and pancreatic endocrine development. Together they point to broad developmental and morphogenetic processes shaping tissues and organs during embryogenesis, with transcriptional regulation as a supporting regulatory layer. ","confidence":"High","size":12,"edges":11,"triangles":0,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0060021","count":9},{"id":"GO:0060972","count":8},{"id":"GO:0060707","count":8},{"id":"GO:0060806","count":8}]},{"hash":"1737401763109595832","title":"Apoptosis signaling and stress responses","description":"This cluster is dominated by GO terms tied to apoptotic pathways, especially extrinsic death receptor\u2013mediated signaling and mitochondrial involvement (cytochrome c release, mitochondrial fragmentation), along with stress-response processes like hypoxia and ROS regulation. Although a few terms (ossification, fear behavior, mechanical stimulus, cell adhesion) are broader or organismal, the core signal is apoptotic signaling integrated with cellular stress responses, suggesting a cohesive apoptotic-stress module.","confidence":"High","size":12,"edges":7,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001503","count":4},{"id":"GO:0090200","count":4},{"id":"GO:0008625","count":4},{"id":"GO:0007155","count":3},{"id":"GO:0043653","count":3}]},{"hash":"1636259621460433078","title":"Cell signaling and growth","description":"The top GO terms point to signaling pathways (GPCR/PKC signaling, calcium release) and basic cellular regulation (cell cycle, cell growth, pinocytosis) across multicellular contexts, with a few organism- or tissue-specific mentions. This suggests a cohesive theme around general cell signaling and growth-related processes rather than a single, narrow function.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0010745","count":4},{"id":"GO:2000340","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0051209","count":4}]},{"hash":"1950351952266290542","title":"Epithelial Polarity and Tight Junction Formation","description":"The top GO terms collectively point to epithelial cell organization, including bicellular tight junction assembly, apical/basal polarity establishment, basolateral membrane localization, and microvillus assembly, with supporting roles for Rho signaling and centrosome localization. While some neuronal terms are present, the dominant theme is epithelial polarity and junction formation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070830","count":3},{"id":"GO:0051835","count":3},{"id":"GO:1903361","count":3},{"id":"GO:0045198","count":3},{"id":"GO:0035023","count":3}]},{"hash":"146592810469828435","title":"Neural Sensory Perception and Dopaminergic Signaling","description":"This cluster centers on neuronal functions related to sensory perception and signaling. The top GO terms highlight auditory sensing (detection of mechanical stimulus for hearing) and optic nerve morphogenesis, along with neuronal communication such as excitatory postsynaptic potentials and dopaminergic synaptic transmission. Additional terms reference responses to psychoactive substances (cocaine, ethanol) and insecticides, indicating modulation of neural signaling, as well as circadian regulation of sleep/wake cycles. Collectively, these terms suggest a cohesive theme of neural sensory perception and neurotransmission, especially involving dopaminergic pathways.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050910","count":7},{"id":"GO:1901214","count":5},{"id":"GO:0042220","count":5},{"id":"GO:0021631","count":5},{"id":"GO:0071361","count":5}]},{"hash":"2172276458427819324","title":"Telomere maintenance and mitotic signaling","description":"The top GO terms cluster around telomere maintenance (telomerase regulation, telomere localization) and chromosome handling (spindle assembly), indicating a focus on chromosome end protection during cell division. Although there are related signaling terms (Wnt, ephrin, GPCR pathways), these appear less central to the core theme of telomere biology and mitosis in this cluster.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:0070213","count":3},{"id":"GO:1904357","count":3},{"id":"GO:0016055","count":3},{"id":"GO:0070198","count":3}]},{"hash":"381615374089328153","title":"Unknown","description":"The top terms cover widely separated themes, including development (atrial septum morphogenesis, neural fold formation, BMP response), chromatin remodeling and hormone signaling, metabolism (glucose/energy homeostasis), and proteolytic/kinin and ROS pathways. This lack of a clear, shared function or pathway, combined with zero edges, suggests the proteins do not form a cohesive functional cluster. ","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":3},{"id":"GO:0003290","count":2},{"id":"GO:0071773","count":2},{"id":"GO:0001842","count":2},{"id":"GO:0043044","count":2}]},{"hash":"642343270684186274","title":"ECM Remodeling and Mechanotransduction","description":"The cluster shows strong representation of collagen fibril organization, proteolysis, and cellular response to mechanical stimulus, all pointing to extracellular matrix remodeling and mechanosensing. Growth-related terms such as vascular smooth muscle proliferation and EGFR signaling further support a theme of tissue growth and remodeling. Some DNA-related terms may be incidental background annotations rather than core functions of the cluster.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0021762","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0071260","count":2},{"id":"GO:1904707","count":2}]},{"hash":"330580849896570140","title":"p53-mediated DNA damage response and translation control","description":"The cluster centers on DNA damage sensing and p53-mediated signaling leading to cell cycle arrest and apoptosis, with accompanying transcriptional regulation. In addition, several terms highlight regulation of translation and ribosome biogenesis, suggesting a coordinated stress response that couples DNA damage signaling to protein synthesis control (e.g., UV/gamma radiation responses, p53 targets like p21). Overall, the data point to a cohesive module around p53-driven DNA damage response and translational regulation.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0006977","count":4},{"id":"GO:1902164","count":4},{"id":"GO:1904803","count":4},{"id":"GO:0042273","count":4}]},{"hash":"1885729487181131181","title":"Ribosome Assembly and Translation Initiation","description":"This cluster is dominated by GO terms tied to protein synthesis: multiple entries for translation, formation of the translation preinitiation complex, and ribosomal small subunit assembly, plus translational initiation and elongation regulation. A few terms (mRNA decay and heterochromatin formation) are less central and likely represent secondary overlaps. Overall, the proteins appear to function principally in ribosome assembly and the initiation/early elongation phases of translation, justifying this label.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0001731","count":2},{"id":"GO:0000028","count":2},{"id":"GO:0001514","count":1},{"id":"GO:0014009","count":1}]},{"hash":"194104082981391512","title":"Developmental Signaling and Immune Pathways","description":"From the GO terms, the cluster shows enrichment for signals and pathways regulating phosphorylation and kinase activity (peptidyl-tyrosine phosphorylation, cyclin-dependent kinase activity, insulin receptor signaling) alongside several developmental processes (thymus development, hair follicle morphogenesis, EMT in heart formation) and immune signaling (B cell receptor signaling). There are also broader stress-related terms (response to X-ray, viral process) that may reflect general cellular signaling responses. The overall pattern centers on signaling regulation with developmental and immune-associated roles, justifying this as a coherent label, though the breadth reduces specificity. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050731","count":3},{"id":"GO:0048538","count":3},{"id":"GO:0046626","count":2},{"id":"GO:0045737","count":2},{"id":"GO:0016032","count":2}]},{"hash":"1114835301240955024","title":"Multitissue Cell Differentiation","description":"The GO terms point to differentiation and development across a range of tissues (immune Th2 differentiation, pancreatic alpha cells, erythrocytes, club cells, spinal cord interneurons, aortic valve formation, thyroid hormone production, etc.), suggesting a shared theme of differentiation programs rather than a single pathway. This makes \"Multitissue Cell Differentiation\" a concise, representative label.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0071353","count":9},{"id":"GO:0045064","count":8},{"id":"GO:0003310","count":6},{"id":"GO:0045648","count":6},{"id":"GO:1902499","count":6}]},{"hash":"425592658472526039","title":"Protein N-terminal and lysine acetylation","description":"Dominated by acetylation-related GO terms, such as peptidyl-lysine N6-acetylation and several N-terminal acetylation processes, suggesting these proteins primarily function in protein acetylation/modification. The additional metabolic terms (mycothiol, glucosamine, polyamine catabolism) may reflect broader acetyl-CoA\u2013linked metabolism associated with these proteins, but acetylation is the core theme.","confidence":"High","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0018003","count":10},{"id":"GO:0010125","count":10},{"id":"GO:0009447","count":10},{"id":"GO:0006041","count":10},{"id":"GO:0006474","count":10}]},{"hash":"1591930932406052140","title":"Skeletal muscle architecture and calcium signaling","description":"The cluster is dominated by terms tied to skeletal muscle structure and function, including sarcomere organization, thin filament assembly, and skeletal muscle fiber adaptation, plus a calcium ion response term, suggesting a muscle-centric role with calcium-mediated signaling. Some terms (histone acetylation/exchange, ascospore wall assembly, and retina homeostasis) seem unrelated and may reflect annotation noise or broad cross-annotations, reducing precision but not overturning the central muscle-related theme.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0051592","count":11},{"id":"GO:0043983","count":11},{"id":"GO:0071963","count":11},{"id":"GO:0030240","count":11},{"id":"GO:0030476","count":11}]},{"hash":"1272017338987553934","title":"T cell signaling and complement regulation","description":"The Top Terms cluster centers on immune regulation, including memory T cell differentiation, T cell homeostatic proliferation, and complement activation/regulation, with supporting terms for cell-matrix adhesion and PKC signaling that relate to T cell signaling and interactions with the extracellular environment. The presence of negative regulation of complement activation and extrinsic apoptotic signaling further reinforces a theme of immune control and cell survival. An outlier term for photosynthesis likely reflects annotation noise rather than a true cluster function. Overall, the dominant theme is immune signaling and regulation rather than metabolism or photosynthesis.","confidence":"Medium","size":11,"edges":18,"triangles":6,"max_degree":8,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0043382","count":7},{"id":"GO:0001867","count":7},{"id":"GO:0007160","count":7},{"id":"GO:0090036","count":7},{"id":"GO:0015979","count":7}]},{"hash":"2213170274650399467","title":"DNA replication and chromatin regulation","description":"This cluster is enriched for DNA replication and cell cycle terms (DNA replication, centrosome cycle, positive regulation of nuclear DNA replication) and chromatin-related processes (heterochromatin formation, ubiquitin chain polymerization), suggesting a shared role in nuclear DNA synthesis and chromatin dynamics; a few non-replication terms appear but do not override the core signal.","confidence":"Medium","size":11,"edges":12,"triangles":0,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0006268","count":5},{"id":"GO:0048701","count":4},{"id":"GO:0010994","count":4},{"id":"GO:0007098","count":4}]},{"hash":"997725565723457357","title":"Placental development and maternal reproductive processes","description":"The top GO terms cluster around placental biology and maternal reproduction (maternal placenta development, luteinization, maternal process involved in parturition), suggesting the proteins are primarily involved in placental formation and related pregnancy processes. Additional signals like mitochondrial outer membrane permeabilization, actin cytoskeleton remodeling, translation, and fibroblast migration point to cellular remodeling and stress responses that accompany placental and maternal tissue adaptation, supporting a reproductive-tocused label.","confidence":"Medium","size":11,"edges":39,"triangles":67,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:1903547","count":2},{"id":"GO:0060137","count":2},{"id":"GO:0001893","count":2},{"id":"GO:0097345","count":2},{"id":"GO:0032232","count":1}]},{"hash":"1486273239540855639","title":"Developmental signaling and vesicle fusion","description":"This cluster centers on GO terms tied to development (brain, nervous system, heart, skeletal) alongside calcium-regulated exocytosis, vesicle fusion, and Rho GTPase signaling. The recurring theme is signaling pathways coordinated with vesicle trafficking during development, suggesting a cohesive functional module of developmental regulation via exocytosis and cytoskeletal signaling. Some terms (abscisic acid signaling, pseudohyphal growth) may reflect conserved trafficking/signaling processes across species, but the dominant pattern supports a developmentally linked vesicle- and GTPase-mediated signaling theme.","confidence":"Medium","size":11,"edges":27,"triangles":30,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007420","count":10},{"id":"GO:0045956","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0007266","count":10},{"id":"GO:0001501","count":10}]},{"hash":"352216246399283937","title":"Angiogenic Endothelial Signaling","description":"This cluster is dominated by GO terms related to signaling cascades (ERK/MAPK, protein tyrosine kinase activity, PI3K signaling) and processes central to blood vessel formation (positive regulation of angiogenesis, endothelial tube morphogenesis) plus ECM remodeling (collagen biosynthetic process). While there are broader development terms present (e.g., embryonic digestive tract development), the cohesive theme is signaling networks that drive angiogenesis and endothelial function, justifying the label Angiogenic Endothelial Signaling.","confidence":"High","size":11,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070371","count":6},{"id":"GO:0014068","count":5},{"id":"GO:0045766","count":5},{"id":"GO:0010535","count":4},{"id":"GO:0061098","count":4}]},{"hash":"790093548986356281","title":"Arachidonic acid\u2013mediated prostaglandin signaling and inflammation","description":"The top terms cluster around lipid metabolism and inflammatory lipid mediators: arachidonic acid secretion, prostaglandin secretion, lipid storage/remodeling, and IL-8 production, suggesting a module tying lipid signaling to inflammatory responses.  ","confidence":"Medium","size":11,"edges":16,"triangles":8,"max_degree":10,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0010884","count":3},{"id":"GO:0090238","count":3},{"id":"GO:0032637","count":3},{"id":"GO:0032308","count":3}]},{"hash":"2232566085441719068","title":"Innate immune signaling and apoptosis regulation","description":"The prominent terms include innate immune response, canonical NF-kappaB signaling, and apoptotic process, with connected processes like regulation of ubiquitination and phosphorylation and calcium release that modulate signaling. This points to a program centered on immune signaling and cell fate decisions, rather than a single enzyme or structural function.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0014808","count":3},{"id":"GO:1902527","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0010800","count":3}]},{"hash":"1904687237056024442","title":"Unknown","description":"The GO terms include immune tolerance (B cell and self-antigen tolerance), inflammatory signaling (mast cell cytokine production, wound response), receptor trafficking (receptor catabolic process, endosome transport), and developmental processes (vagina development, tricuspid valve morphogenesis), plus a drug response term and an obsolete PI3K term. This spread suggests no single coherent function or pathway linking the proteins, so the cluster is best labeled Unknown with None confidence.","confidence":"","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0002651","count":11},{"id":"GO:0060068","count":11},{"id":"GO:0032801","count":11},{"id":"GO:0009611","count":11},{"id":"GO:0032762","count":11}]},{"hash":"1828504921006509417","title":"Innate defense against bacteria and fungi","description":"The cluster is enriched for innate immune and antimicrobial defense terms, including defense responses to Gram-positive bacteria and to bacteria and to fungi, as well as innate immune response. Some GPCR signaling and cell cycle terms may reflect broader regulatory roles, but the dominant theme is host defense.","confidence":"Medium","size":11,"edges":11,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0048662","count":2},{"id":"GO:0007189","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0042742","count":2}]},{"hash":"2141071637886350899","title":"Cerebral cortex development and radial glial migration","description":"The cluster is dominated by terms tied to brain development and radial glial biology, notably cortical neuron migration and forebrain radial glial differentiation, plus neural tube patterning. Additional terms point to cellular trafficking and phagocytic activity in neural contexts, consistent with glial support roles during migration and development. Overall, these proteins appear to function in neural development and glial-mediated neuronal positioning.","confidence":"High","size":11,"edges":38,"triangles":54,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021799","count":11},{"id":"GO:0071389","count":11},{"id":"GO:0021861","count":11},{"id":"GO:1903125","count":11},{"id":"GO:0043552","count":11}]},{"hash":"1961920575000350121","title":"Osteogenesis and bone matrix formation","description":"The cluster shows strong enrichment for osteoblast differentiation, bone trabecula formation, and ECM-related processes (cell-matrix adhesion and hyaluronan biosynthesis), plus developmental signals (regulation of somitogenesis, Hedgehog signaling). This points to bone development and extracellular matrix remodeling as the shared function.","confidence":"High","size":11,"edges":34,"triangles":30,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007157","count":8},{"id":"GO:0007275","count":8},{"id":"GO:0045669","count":7},{"id":"GO:0060346","count":7},{"id":"GO:1900127","count":6}]},{"hash":"2094962529339358016","title":"mRNA Processing and Translation Regulation","description":"The cluster is dominated by GO terms for mRNA processing (spliceosome-mediated and alternative splicing, mRNA stability) and translation control (preinitiation complex formation, translation reinitiation, miRNA-mediated silencing), suggesting proteins function together in mRNA maturation and regulation of protein synthesis.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":7},{"id":"GO:0010610","count":7},{"id":"GO:0001731","count":7},{"id":"GO:0002188","count":7},{"id":"GO:0045292","count":7}]},{"hash":"1349044430508165289","title":"Cellular stress responses and transcription regulation","description":"This cluster mixes GO terms tied to sensing and responding to diverse stimuli (ATP, xenobiotics, hypoxia, IL-4), with regulation of transcription and the cell cycle, plus cytoskeletal and trafficking-related processes. The common thread is cells coordinating stress-related signaling with changes in gene expression and cell behavior, despite some terms being from different kingdoms (e.g., ethylene signaling). Overall, it points to a stress-response/regulatory module governing how cells react and reprogram under stress.","confidence":"Medium","size":11,"edges":23,"triangles":19,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0071318","count":4},{"id":"GO:0071157","count":4},{"id":"GO:0006355","count":4},{"id":"GO:0035690","count":4},{"id":"GO:0031247","count":3}]},{"hash":"463676166687986336","title":"Neuronal development and synaptic/ciliary function","description":"This cluster centers on neural-related processes: neuron projection development, cilium assembly, and synaptic vesicle transport, with additional signals from dopamine metabolism regulation. Together, they suggest a module involved in neuronal differentiation and the machinery for synaptic signaling and ciliogenesis. Other terms reflect general cellular processes (protein homooligomerization, mRNA processing, intermediate filament organization) that support neural cell structure and function, and a term like larval fat body development may be context-specific rather than core to the cluster.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0031175","count":3},{"id":"GO:0060271","count":2},{"id":"GO:0070682","count":2},{"id":"GO:0006397","count":2}]},{"hash":"1132081287815410892","title":"T cell signaling and cardiac signaling modulation","description":"Most prominent term is T cell receptor signaling, with strong links to transcription and responses to immune stimuli (GM-CSF, LPS). The presence of cardiac signaling terms (hypertrophy, relaxation, cGMP-related pathways) suggests these proteins participate in broader cell signaling that connects immune activation to cardiac pathway regulation.","confidence":"Medium","size":11,"edges":23,"triangles":23,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050852","count":9},{"id":"GO:0006351","count":9},{"id":"GO:0097011","count":9},{"id":"GO:0071222","count":9},{"id":"GO:0006198","count":8}]},{"hash":"2290076499839668764","title":"Neural development and brain morphogenesis","description":"The top GO terms cluster around neural development and brain formation, including neural tube closure, cerebellar cortex formation, and regulation of axon regeneration, along with transcriptional control and growth regulation during development. While an immune defense term appears, the dominant signal points to neural development and brain patterning.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048679","count":10},{"id":"GO:0050830","count":10},{"id":"GO:0007275","count":10},{"id":"GO:0006351","count":10},{"id":"GO:0001843","count":10}]},{"hash":"2105294921439274889","title":"Neural development and cell cycle regulation","description":"This cluster is dominated by terms tied to brain development (forebrain development), transcription control (DNA-templated transcription), and cell division (mitotic cell cycle, negative regulation of cytokinesis), with additional signals about apoptosis (glial cell apoptotic process, positive regulation of apoptotic signaling). These collectively point toward proteins involved in neural development where gene expression and cell cycle progression must be coordinated, with apoptosis shaping cell fate in neural/glial contexts. Lesser terms about hypoxia response and stress-related mRNA export may reflect broader regulatory layers active in developing tissues. ","confidence":"Medium","size":11,"edges":22,"triangles":9,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0032466","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0000278","count":2},{"id":"GO:2001235","count":1}]},{"hash":"1974536714272815982","title":"PI3K/Wnt Signaling in Development","description":"This cluster appears to be centered on signaling pathways that guide development and cell movement. The frequent associations with phosphatidylinositol biosynthesis and PI3K signaling, plus the presence of terms referencing Wnt pathway activation, point to a lipid- and growth factor\u2013driven signaling theme. Supporting terms include myoblast differentiation, forebrain proliferation, thymus development, angiogenesis, and neutrophil chemotaxis, suggesting a broad coordination of differentiation, tissue development, and cell migration rather than a single cell type. The coupling of PI3K/PI3P metabolism with Wnt signaling aligns with processes that regulate proliferation, differentiation, and vascular/immune cell dynamics during development.","confidence":"Medium","size":11,"edges":9,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0045445","count":3},{"id":"GO:0030593","count":3},{"id":"GO:0031532","count":2},{"id":"GO:0046854","count":2},{"id":"GO:0048538","count":2}]},{"hash":"1369001853765320571","title":"Xenobiotic and Small Molecule Metabolism","description":"These proteins share involvement in a broad array of metabolic processes, including xenobiotic and bile acid metabolism, ethanol and flavonoid catabolism, and the metabolism of thyroid hormones and catecholamines, along with related glycosaminoglycan biosynthesis. The common thread is a general metabolic/biotransformation role rather than a single direct pathway, suggesting a cluster of enzymes/processes tied to diverse small-molecule processing and detoxification.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0030573","count":3},{"id":"GO:0048702","count":3},{"id":"GO:0000103","count":3},{"id":"GO:0006805","count":3},{"id":"GO:0018146","count":3}]},{"hash":"1846482421798008018","title":"Immune activation and cell adhesion","description":"These proteins cluster around immune signaling and cell adhesion: GO terms include B cell receptor signaling and activation, T cell proliferation, innate immune response, and complement activation, as well as phagocytosis recognition/engulfment and cell\u2013cell adhesion. The combination of adaptive (B/T cell) and innate immune processes suggests a module of immune activation and intercellular interactions.","confidence":"High","size":11,"edges":19,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0030913","count":5},{"id":"GO:0007156","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0007157","count":4},{"id":"GO:0006911","count":4}]},{"hash":"910567224737052430","title":"Mitochondrial energy metabolism and stress response","description":"The terms converge on mitochondrial function: apoptotic changes, iron import, membrane fission, ATP transport, fatty acid response, oxidative stress, and responses to nutrient stress. This suggests a coherent theme of mitochondrial energy production, lipid metabolism, and stress adaptation across the protein cluster.","confidence":"High","size":11,"edges":13,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0008637","count":4},{"id":"GO:0048250","count":3},{"id":"GO:1990845","count":3},{"id":"GO:0090149","count":3},{"id":"GO:0070542","count":3}]},{"hash":"1283110337368350470","title":"Immune receptor signaling and neurodevelopment","description":"The cluster\u2019s top GO terms heavily feature immune receptor signaling pathways (T cell and B cell receptor signaling) and NK differentiation, with additional terms tied to CNS development and synapse assembly. This suggests a module centered on signaling through immune receptors, with related neural development processes; hence a label that highlights immune signaling alongside neural development, while remaining concise.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043552","count":8},{"id":"GO:0010863","count":8},{"id":"GO:0001525","count":8},{"id":"GO:0007417","count":8},{"id":"GO:0051965","count":8}]},{"hash":"1502785264548915288","title":"Lectin-triggered innate immunity and phagocytosis","description":"The GO terms cluster around innate immune recognition and effector functions: lectin pathway\u2013mediated complement activation, stimulatory C-type lectin receptor signaling, and phagocytosis recognition. While some developmental terms appear, the dominant theme is lectin-driven immune responses and phagocytic activity, supporting a cohesive label focused on innate immunity. ","confidence":"High","size":11,"edges":43,"triangles":90,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0036303","count":11},{"id":"GO:0090238","count":11},{"id":"GO:0001867","count":11},{"id":"GO:0006910","count":11},{"id":"GO:0090403","count":11}]},{"hash":"2101405078310450465","title":"Calcium-GPCR Signaling in Immune and Heart Tissues","description":"The terms cluster around signaling pathways, notably calcium ion release and G protein-coupled receptor (GPCR) signaling, with visible links to immune regulation (chemokines, foam cell differentiation) and cardiac tissue communication. Although diverse, these GO terms converge on signaling events that control cellular activation and cross-tissue communication, suggesting a common functional axis centered on calcium and GPCR-driven signaling across immune and heart contexts.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010745","count":6},{"id":"GO:2000340","count":6},{"id":"GO:0007205","count":6},{"id":"GO:0051209","count":6},{"id":"GO:0044707","count":6}]},{"hash":"1895288588580485619","title":"Unknown","description":"The terms span diverse processes including mitochondrial fusion and calcium signaling, prostaglandin biosynthesis, bone development, meiosis, kinetochore localization, cell adhesion, DNA repair, and stress-induced cardiac hypertrophy. With no clear, single theme connecting all proteins and no edges among them, there isn\u2019t a confident, cohesive label to assign beyond Unknown.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060316","count":2},{"id":"GO:0001516","count":2},{"id":"GO:0060348","count":1},{"id":"GO:0010635","count":1},{"id":"GO:0008053","count":1}]},{"hash":"147874507594488085","title":"Proteostasis and protein degradation (ERAD, ubiquitination)","description":"The top terms cluster around translation and protein quality-control pathways, including sumoylation, autoubiquitination, ERAD, and aggresome assembly. Together these indicate a dominant theme of proteostasis\u2014protein synthesis, modification, and turnover. A few peripheral terms (transcription regulation, insecticide response, erythrocyte differentiation) may reflect broader cellular context but do not reshape the core function.","confidence":"High","size":10,"edges":40,"triangles":86,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0016925","count":7},{"id":"GO:1904378","count":6},{"id":"GO:0017085","count":6},{"id":"GO:0051865","count":6}]},{"hash":"1053764444154196320","title":"Ribosome biogenesis and translation machinery","description":"Top GO terms indicate ribosome assembly and rRNA maturation, translation, and RNA processing/folding activities, suggesting a cohesive function in building the ribosome and supporting translation. This cluster likely represents ribosome biogenesis with associated RNA maturation processes.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0042254","count":5},{"id":"GO:0000462","count":4},{"id":"GO:0000463","count":3},{"id":"GO:0042273","count":3}]},{"hash":"670738222513574722","title":"DNA Repair and Proteostasis","description":"Dominant GO terms center on DNA repair pathways (DNA repair, nucleotide-excision repair, error-free translesion synthesis), with additional terms indicating protein quality control (cellular response to misfolded protein, inclusion body assembly). While there are a few metabolic or organelle-related terms, the main signal is genomic maintenance coupled with proteostasis, justifying a label that combines DNA repair with protein homeostasis.","confidence":"High","size":10,"edges":37,"triangles":69,"max_degree":9,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":4},{"id":"GO:0070987","count":4},{"id":"GO:0006289","count":4},{"id":"GO:0044209","count":3},{"id":"GO:0007420","count":3}]},{"hash":"128339023784521823","title":"ERK/MAPK signaling in development and morphogenesis","description":"The prominent GO terms center on the ERK1/ERK2/MAPK signaling cascade (GO:0070374, GO:0070371) and developmental processes such as hair follicle morphogenesis and endothelial tube morphogenesis, along with embryonic digestive tract development. This pattern indicates the proteins are linked to ERK/MAPK signaling driving tissue development and morphogenesis, with supportive hints of cell survival and chemotaxis. Therefore, this name captures the cluster\u2019s shared functional theme.","confidence":"Medium","size":10,"edges":33,"triangles":59,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":6},{"id":"GO:0048566","count":5},{"id":"GO:0034605","count":5},{"id":"GO:1901509","count":5},{"id":"GO:2001240","count":5}]},{"hash":"459058193513684702","title":"Thermoception and nociception with chemokine production","description":"This cluster centers on temperature and mechanical stimulus detection, thermoception, and pain perception, with several terms tied to temperature sensing and nociceptive pathways (e.g., detection of temperature, thermoception, and response to capsazepine). The presence of chemokine production terms (CXCL1/5) suggests added inflammatory signaling. A few outlier terms (meiotic recombination, ubiquitination) do not align with the main theme, so the label emphasizes sensory perception with immune modulation.","confidence":"Medium","size":10,"edges":8,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0010845","count":4},{"id":"GO:0016567","count":4},{"id":"GO:2000340","count":4},{"id":"GO:0050955","count":4},{"id":"GO:0098907","count":4}]},{"hash":"1173674071316168733","title":"Nuclear export of RNA and ribosome components","description":"The top GO terms are dominated by several nucleocytoplasmic export processes (mRNA export, ribosomal subunit export, pre-miRNA export), indicating a shared function in transporting RNA and ribosomal components from the nucleus. While there are terms touching on transcription regulation and centrosome/kinetochore roles, these likely reflect broader nuclear/cell-cycle connections rather than a primary function of the cluster. Overall, the theme centers on nucleocytoplasmic transport of RNA and ribosomal elements.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0034501","count":4},{"id":"GO:0042493","count":4},{"id":"GO:0000055","count":4},{"id":"GO:0006406","count":4}]},{"hash":"1850510164564843103","title":"Spliceosome-Mediated mRNA Splicing and Processing","description":"The terms overwhelmingly center on spliceosome-driven mRNA splicing and RNA processing (cis/splicing via spliceosome, small-subunit processome assembly, mRNA stabilization, polyadenylation), with additional RNA silencing roles (regulatory ncRNA and miRNA-mediated silencing). A few terms (blastocyst formation, viral translation reinitiation) appear tangential but do not override the predominant RNA-processing theme. This label best reflects the cluster\u2019s core function as splicing and mRNA processing factors with related RNA silencing activity.","confidence":"High","size":10,"edges":5,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":5},{"id":"GO:0031047","count":5},{"id":"GO:0045292","count":5},{"id":"GO:0000380","count":4},{"id":"GO:0001825","count":4}]},{"hash":"1996281082979325587","title":"Unknown","description":"The Top Terms include diverse and unrelated processes (DNA replication, photosynthesis and bacteriochlorophyll biosynthesis, mating-type heterochromatin formation, protein catabolic and ribosomal assembly, kinetochore localization, cell cycle, neuronal dense core vesicle transport, and regulation of proliferation). There isn\u2019t a single coherent functional theme tying these terms together, so it\u2019s not possible to assign a meaningful, specific label beyond Unknown.","confidence":"","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0015979","count":4},{"id":"GO:0030494","count":4},{"id":"GO:0030466","count":4},{"id":"GO:0030163","count":4}]},{"hash":"1393559666617891515","title":"Unknown","description":"The GO terms are diverse and broad (DNA repair, apoptosis, chromatin/epigenetic regulation, development in multiple tissues, and immune signaling) with no evident shared pathway or direct link among the proteins, and there are no edges connecting them. This makes it hard to assign a cohesive, specific label, so Unknown is the best fit.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006303","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0010976","count":2},{"id":"GO:0021678","count":2},{"id":"GO:0050852","count":2}]},{"hash":"1290024718678208244","title":"Developmental transcriptional regulation","description":"This cluster is dominated by GO terms for transcription by RNA polymerase II and regulation of that transcription, alongside a broad array of organ development terms (eye/cerebellum/pituitary/liver/lung/muscle). The common theme points to proteins that coordinate transcriptional programs during development across multiple tissues.","confidence":"High","size":10,"edges":41,"triangles":90,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":6},{"id":"GO:0000122","count":5},{"id":"GO:0035470","count":4},{"id":"GO:0097421","count":4},{"id":"GO:0021983","count":4}]},{"hash":"1472150879287092175","title":"Tissue Development and Differentiation","description":"The top GO terms point to developmental and morphogenetic processes across multiple tissues (amygdala, pancreas, vagina, chondroblasts, eye) and differentiation timing, with several entries explicitly about morphogenesis and neuron differentiation. While other terms touch metabolism or immune regulation, the prevailing theme is tissue development and cellular differentiation. This label is specific yet broad enough to cover the shared function. ","confidence":"Medium","size":10,"edges":18,"triangles":11,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021764","count":9},{"id":"GO:0071638","count":9},{"id":"GO:0060164","count":9},{"id":"GO:0090108","count":9},{"id":"GO:0060068","count":9}]},{"hash":"1115808173045794382","title":"miRNA Biogenesis and Transcription Regulation","description":"This cluster is dominated by RNA-related processes: pre-miRNA processing, miRNA catabolic process, and DNA-templated transcription with related regulation (transcription antitermination and termination). Together these points suggest proteins involved in RNA biogenesis and transcription control, with CRD-mediated mRNA stabilization and low-level methylation terms supporting RNA stability and modification. A few terms reference stress-induced pathways and development, but the central theme remains RNA processing and transcription regulation.","confidence":"High","size":10,"edges":31,"triangles":51,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1902219","count":9},{"id":"GO:0010587","count":9},{"id":"GO:0006351","count":9},{"id":"GO:0031564","count":9},{"id":"GO:0070934","count":9}]},{"hash":"882515812369150393","title":"Ectodermal tissue differentiation: skin, lens, glia","description":"The terms cluster around development and differentiation of ectoderm-derived tissues: keratinocytes and skin barrier, lens fiber development, and neural glial lineages (astrocytes and Schwann cells), with an additional microtubule polarity term; a single immune-related term is present but does not define the cluster. ","confidence":"Medium","size":10,"edges":13,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045616","count":7},{"id":"GO:0001867","count":7},{"id":"GO:0072201","count":7},{"id":"GO:0010625","count":7},{"id":"GO:0070307","count":7}]},{"hash":"2118309744491919484","title":"Nucleotide salvage and stress-response metabolism","description":"Proteins in this cluster are enriched for nucleotide salvage pathways (AMP salvage, purine ribonucleoside salvage, guanosine and uridine catabolic processes) and related metabolic adjustments, plus a cellular response to glucose starvation. The presence of urate and methionine/methylthioadenosine salvage hints at broader nucleotide turnover and amino acid salvage under stress. An isolated GO term related to T cell differentiation likely reflects annotation noise rather than a shared immune function; overall, the theme centers on nucleotide recycling and energy-stress metabolism.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":3},{"id":"GO:0006218","count":2},{"id":"GO:0044209","count":2},{"id":"GO:0046638","count":2},{"id":"GO:0034418","count":2}]},{"hash":"871677254183069940","title":"Endocrine development and tissue remodeling","description":"The cluster\u2019s top GO terms point to development of endocrine/reproductive tissues (adrenal gland development, decidualization, thyroid hormone response) and substantial extracellular remodeling (basement membrane disassembly, collagen and bradykinin catabolism, lung morphogenesis tube branching). This suggests a coherent theme of endocrine organ development coupled with tissue remodeling processes. ","confidence":"Medium","size":10,"edges":11,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0030325","count":3},{"id":"GO:1902600","count":2},{"id":"GO:0097067","count":2},{"id":"GO:0046697","count":2},{"id":"GO:0010813","count":2}]},{"hash":"1355991860750626959","title":"Endothelial Innate Immune Signaling","description":"These terms converge on inflammatory and innate immune signaling in endothelial/vascular contexts: ERK1/2 and PI3K cascades indicate growth and inflammatory signaling; LPS-mediated signaling, defense response to virus, and chronic inflammatory response point to innate immune activation; endothelial cell activation and regulation of smooth muscle proliferation reflect vascular inflammatory remodeling. Osteoblast differentiation is less coherent but may reflect signaling cross-talk during tissue remodeling. Overall, the cluster represents endothelial-associated inflammatory signaling pathways.","confidence":"Medium","size":10,"edges":12,"triangles":3,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":5},{"id":"GO:0014068","count":4},{"id":"GO:0031663","count":4},{"id":"GO:0001649","count":4},{"id":"GO:0042346","count":3}]},{"hash":"1612772563699099170","title":"Mitochondrial respiration and protein import","description":"The top GO terms cluster around mitochondrial energy production: electron transport chain steps (NADH to ubiquinone, ubiquinol to cytochrome c), proton translocation, and assembly of respiratory chain components; plus many terms about importing and inserting proteins into mitochondrial membranes and matrix. A chloroplast stroma import term appears but does not override the primary mitochondria-focused theme. Overall, the cluster represents mitochondrial respiration with associated protein import/biogenesis. ","confidence":"High","size":10,"edges":32,"triangles":52,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":3},{"id":"GO:0006122","count":2},{"id":"GO:0009060","count":2},{"id":"GO:0006120","count":2},{"id":"GO:0034553","count":2}]},{"hash":"2125560664711460492","title":"Mitochondrial quality control and signaling","description":"This cluster is driven by terms on mitochondrial protein import, ROS regulation, and mitophagy (autophagy of mitochondrion), pointing to mitochondrial turnover and signaling. Additional terms touch on cilium assembly regulation, monoatomic anion transport, and developmental/neuronal processes, suggesting broader cellular signaling contexts but with a core focus on mitochondrial maintenance.","confidence":"Medium","size":10,"edges":6,"triangles":2,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":4},{"id":"GO:2000378","count":3},{"id":"GO:1903959","count":3},{"id":"GO:0030855","count":3},{"id":"GO:0007612","count":3}]},{"hash":"568959780362070891","title":"Translation and Ribosome Biogenesis","description":"The dominant GO terms cluster around protein synthesis: translation, cytoplasmic translation, translation initiation complex formation, and ribosome biogenesis (including ribosomal large subunit biogenesis) as well as tRNA modification. This suggests the proteins mainly participate in assembling and operating the ribosome and in mRNA translation, with a few outliers relating to broader cellular processes.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0000747","count":2},{"id":"GO:0006400","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0042254","count":2}]},{"hash":"180862985211157437","title":"Unknown","description":"The terms mix neural development signals (brain development, neuron development, axon injury response) with a variety of unrelated catabolic processes (histidine, cytosine, urea, atrazine, ochratoxin A) and actin regulation, with no clear, unified functional theme tying all proteins together. This makes a cohesive, interpretable cluster label unlikely.","confidence":"","size":10,"edges":16,"triangles":9,"max_degree":7,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0019557","count":3},{"id":"GO:1900817","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0006209","count":3},{"id":"GO:0005975","count":3}]},{"hash":"965457017775167481","title":"Protein Folding & Quality Control","description":"This cluster is dominated by GO terms related to protein maturation and folding, notably ER protein folding, chaperone-assisted refolding, and nuclear quality control by the ubiquitin-proteasome system, plus protein targeting to membranes and organelles. Together these terms point to a cohesive protein homeostasis module involving folding, maturation, targeting, and quality control, with a few ancillary terms (e.g., oligomerization, DNA replication) that are less central.","confidence":"High","size":10,"edges":21,"triangles":15,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0097428","count":2},{"id":"GO:0070389","count":2},{"id":"GO:0046825","count":2},{"id":"GO:0034975","count":2},{"id":"GO:0031204","count":2}]},{"hash":"1191835949564044074","title":"Mitochondrial membrane dynamics in neurons","description":"The terms cluster around mitochondrial membrane organization and dynamics (inner membrane, fusion, cardiolipin metabolism, inheritance). A subset also involves neuronal signaling (dopaminergic synaptic transmission, PKC signaling), indicating a cluster around mitochondria\u2019s role in neural function.","confidence":"Medium","size":10,"edges":21,"triangles":22,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007588","count":5},{"id":"GO:0070528","count":5},{"id":"GO:1901585","count":5},{"id":"GO:0032226","count":5},{"id":"GO:0022617","count":5}]},{"hash":"1751561940750175855","title":"Chromatin organization and histone methylation","description":"Strong enrichment for chromatin assembly, heterochromatin organization, and histone methylation, indicating a cluster of chromatin structure regulation and epigenetic modification. Minor terms related to other processes are likely noise.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0080182","count":9},{"id":"GO:0070828","count":9},{"id":"GO:0006334","count":9},{"id":"GO:0016584","count":9},{"id":"GO:0098532","count":9}]},{"hash":"116646218533361471","title":"NAD and CoA Biosynthesis with Phosphorylation","description":"This cluster is enriched for coenzyme A and NAD+ biosynthesis terms, along with phosphorylation and nucleotide phosphorylation terms, indicating a core focus on cofactor metabolism and related phosphate processes. Some transcription-related terms appear but are less coherent with the main metabolic signal, so the label centers on cofactor biosynthesis and phosphorylation. ","confidence":"Medium","size":10,"edges":11,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015937","count":3},{"id":"GO:0016310","count":3},{"id":"GO:0009435","count":2},{"id":"GO:0046940","count":2},{"id":"GO:0046939","count":2}]},{"hash":"1023876815571617940","title":"Developmental signaling in vertebrate organs","description":"This cluster centers on organ development terms such as heart development, thymus development, and cartilage condensation, alongside related signaling pathways (collagen-activated receptor, neurotrophin TRK). The mix suggests a broad theme of vertebrate organogenesis and its regulatory signaling, rather than a single, narrow function.","confidence":"Medium","size":10,"edges":15,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":7},{"id":"GO:0001502","count":6},{"id":"GO:0010572","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0046827","count":4}]},{"hash":"1103726435778511869","title":"Ubiquitin-regulated protein degradation","description":"The top GO terms center on ubiquitination (K29-linked ubiquitination, autoubiquitination) and protein catabolic regulation, suggesting a theme of ubiquitin-mediated control of protein stability and turnover. Related signaling terms (TGF-beta receptor signaling, glucocorticoid signaling) are often modulated by ubiquitination, reinforcing a cohesive function around protein fate regulation.","confidence":"High","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0030512","count":7},{"id":"GO:1901165","count":6},{"id":"GO:0060360","count":6},{"id":"GO:0019089","count":6},{"id":"GO:0010768","count":6}]},{"hash":"351087755717378449","title":"Neuronal and Immunological Synapse Signaling","description":"The top GO terms cluster around synapse-related processes: immunological synapse formation, T cell receptor signaling, receptor localization to synapse, and protein localization to synapse, as well as neuronal features like neurotransmitter-gated ion channel clustering and gamma-aminobutyric acid secretion. This suggests a shared role in organizing signaling at synapses across neuronal and immune contexts. Additional terms such as phosphorylation support signal transduction at these sites, while GDP biosynthetic process and epithelial polarity are more peripheral, slightly reducing cohesion.","confidence":"Medium","size":10,"edges":18,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":4},{"id":"GO:0035418","count":4},{"id":"GO:0001771","count":4},{"id":"GO:0097120","count":4},{"id":"GO:0050852","count":4}]},{"hash":"1889702536562273899","title":"GPCR Signaling in Retina and Beyond","description":"The top GO terms cluster around eye/retina\u2013related processes (phototransduction, retina development, opsin-mediated signaling) and GPCR pathways (adenosine receptor signaling), with additional systemic processes potentially linked through GPCR signaling (vasopressin-regulated blood pressure, smooth muscle contraction, circadian rhythm, platelet activation, IL-10 production). This points to a cohesive theme of GPCR-mediated signaling spanning ocular light sensing and broader physiological regulation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001992","count":10},{"id":"GO:0045986","count":10},{"id":"GO:0022410","count":10},{"id":"GO:0060041","count":10},{"id":"GO:0007603","count":10}]},{"hash":"675136060285638287","title":"Retina Phototransduction and Opsin Signaling","description":"The top GO terms converge on eye/retina functions and light sensing: retina development, phototransduction in visible light, and regulation of opsin-mediated signaling, with circadian sleep/wake cycle linked to light input. Other terms about smooth muscle, platelets, and IL-10 are less central and may reflect broader signaling roles of shared proteins. Overall, the cluster appears defined by photoreception and related circadian signaling in the retina.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001992","count":10},{"id":"GO:0045986","count":10},{"id":"GO:0022410","count":10},{"id":"GO:0060041","count":10},{"id":"GO:0007603","count":10}]},{"hash":"1931910992142059726","title":"Neural development and glycan biosynthesis","description":"The top GO terms point to neural development (neural stem cell maintenance; cerebral cortex neuron migration), suggesting a neural focus. At the same time, several terms involve glycan remodeling (glycosylation, fucosylation, Lewis antigen biosynthesis), indicating potential regulation by glycans. Immune-related terms (leukocyte migration; regulatory T cell differentiation) hint at broader cell interaction roles but are less central. Overall, the cluster seems centered on neural development with glycan-mediated regulation, with some noise from immune terms. Confidence: Medium","confidence":"","size":10,"edges":10,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":3},{"id":"GO:0036071","count":2},{"id":"GO:0097150","count":2},{"id":"GO:0042355","count":2},{"id":"GO:0002522","count":2}]},{"hash":"1084504618805558108","title":"Chromatin Remodeling and Telomere Regulation","description":"This cluster combines DNA-templated transcription, nucleosome assembly, and chromatin remodeling with telomere-related functions (positive regulation of shelterin complex assembly, telomeric D-loop disassembly, rDNA heterochromatin formation), suggesting a nuclear chromatin regulation module linked to telomere maintenance. A chlorophyll biosynthesis regulation term appears incidental.","confidence":"High","size":10,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0009301","count":4},{"id":"GO:1904792","count":4},{"id":"GO:0000183","count":4},{"id":"GO:0006334","count":4}]},{"hash":"598822234608398709","title":"RNA Splicing and Silencing","description":"The top GO terms center on mRNA splicing and spliceosome-related processes (recognition, regulation, alternative splicing, small-subunit processome assembly) and mRNA stabilization, complemented by ncRNA- and miRNA-mediated gene silencing. This points to a cohesive cluster of proteins involved in post-transcriptional RNA processing and RNA silencing pathways, with a few outliers likely reflecting broader annotations. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006376","count":5},{"id":"GO:0048026","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0000380","count":3},{"id":"GO:0001825","count":3}]},{"hash":"22923392339502897","title":"Embryonic and organ development","description":"The GO terms cover diverse developmental roles across multiple tissues (palate, muscle, kidney ureter, spinal cord, retina, uterus) and include transcriptional regulation and ceramide biosynthesis, suggesting proteins that coordinate embryonic and organ development rather than a single pathway.","confidence":"High","size":10,"edges":7,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0060021","count":7},{"id":"GO:0046513","count":5},{"id":"GO:0014807","count":4},{"id":"GO:0035847","count":4}]},{"hash":"2173541561272547991","title":"Forebrain neural development and radial glial migration","description":"The GO terms point to forebrain development, neural tube patterning, and radial glial differentiation/migration, suggesting these proteins function together in early brain development and cortical organization, with some related trafficking/localization processes.","confidence":"High","size":10,"edges":5,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021799","count":10},{"id":"GO:0071389","count":10},{"id":"GO:0021861","count":10},{"id":"GO:1903125","count":10},{"id":"GO:0043552","count":10}]},{"hash":"1257907627228397993","title":"Developmental adhesion and morphogenesis proteins","description":"This cluster is enriched for terms related to development and morphogenesis, notably nerve maturation, paranodal/juxtaparanode axon organization, and skeletal ossification, as well as cell\u2013cell adhesion. The shared theme is adhesion molecules driving tissue patterning and branching across neural and skeletal contexts.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0021682","count":6},{"id":"GO:0007156","count":6},{"id":"GO:0048661","count":6},{"id":"GO:0060445","count":6},{"id":"GO:0030913","count":6}]},{"hash":"313207635992741097","title":"B cell signaling and innate immune response","description":"The top GO terms cluster around adaptive B cell functions (B cell receptor signaling, affinity maturation) and innate defense mechanisms (innate immune response, complement activation, phagocytosis recognition, type I interferon signaling, defense against bacteria). This points to a cohesive module where B cell\u2013mediated immunity interacts with innate defense pathways, supported by some PI3K-related signaling and antimicrobial responses.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0050853","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0050829","count":2}]},{"hash":"1517154692132326900","title":"Neuronal development and dendrite morphogenesis","description":"The cluster is enriched for nervous system development, dendrite development, and cortical neuron migration, indicating a focus on neuronal differentiation and morphology. Additional terms like constitutive secretory pathway and regulation of exocyst localization suggest membrane trafficking roles that support neurite outgrowth and membrane delivery during neuron maturation. Taken together, these GO terms point to a cohesive theme of neuron development and dendrite formation, with trafficking processes facilitating that development.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050885","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0016358","count":3},{"id":"GO:0045054","count":2},{"id":"GO:0014041","count":2}]},{"hash":"680263090981943004","title":"Metabolic Biosynthesis and Carbohydrate Metabolism","description":"The top GO terms cluster around biosynthetic processes (biotin biosynthesis, antibiotic biosynthesis, glycerol-3-phosphate biosynthesis) and various carbohydrate-related catabolic and metabolic pathways (L-fucose, glycerol, D-xylose, rhamnose), with a general growth-related term and a tRNA methylation note. This suggests a broad, metabolism-centric theme focusing on both biosynthesis and carbohydrate utilization rather than a single specific pathway.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009102","count":4},{"id":"GO:0030488","count":3},{"id":"GO:0016049","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0042355","count":2}]},{"hash":"1042577819920252887","title":"Mitochondrial lipid synthesis and energy metabolism","description":"The top GO terms cluster around mitochondrial function and lipid homeostasis: ATP synthesis coupled electron transport, cardiolipin and phospholipid remodeling, and biosynthesis/remodeling of lipids such as triglycerides, ether lipids, CDP-diacylglycerol, and phosphatidylcholine. This suggests a coherent theme of mitochondrial lipid metabolism supporting energy production and membrane composition. Immune-related terms (IL-2 production, T cell death regulation) appear secondary, possibly reflecting broader roles of mitochondria in signaling. Overall, a mitochondria-centered lipid metabolism cluster best fits the data.","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042775","count":7},{"id":"GO:0019432","count":7},{"id":"GO:0008611","count":7},{"id":"GO:0070236","count":7},{"id":"GO:0016024","count":7}]},{"hash":"95105115166101874","title":"Vesicle trafficking and Rac/ERK signaling","description":"The cluster shows enrichment for ER-Golgi transport, endosome-to-melanosome transport, and protein targeting to vacuole, plus regulators of Rac signaling and ERK cascade, along with ubiquitination. This points to a cohesive function in intracellular vesicle trafficking with concurrent modulation of signaling pathways that control cytoskeletal dynamics, adhesion, and proliferation. The combination of trafficking and signaling terms suggests a specific role in coordinating vesicle movement with signal transduction rather than a single isolated process.","confidence":"Medium","size":10,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0043552","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0070374","count":2}]},{"hash":"1133907829886477460","title":"Unknown","description":"The terms span apoptosis and immune signaling, but also unrelated processes like heart development and sensory perception, and with no edges linking proteins there isn\u2019t a clear single function tying the cluster together. ","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097191","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0090051","count":2},{"id":"GO:0007605","count":2}]},{"hash":"2188972791398014984","title":"Rab GTPase\u2013mediated vesicle trafficking and geranylgeranylation","description":"These proteins cluster around Rab GTPase signaling and activation, together with protein geranylgeranylation and transport to membranes. Geranylgeranylation is the lipid modification required for Rab membrane attachment and function, aligning with the protein transport and membrane targeting terms. The fish-specific terms (swim bladder inflation, iridophore differentiation) may reflect broader developmental roles or annotation breadth, but the core signal is Rab-driven trafficking and prenylation. ","confidence":"High","size":10,"edges":18,"triangles":11,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0050771","count":4},{"id":"GO:2000541","count":4},{"id":"GO:0032482","count":4},{"id":"GO:0090315","count":4}]},{"hash":"1006609141175242013","title":"Adaptive Immune Activation & NF-kB Signaling","description":"This cluster centers on adaptive immunity and canonical NF-kappaB signaling, with frequent terms for adaptive immune response, T cell costimulation, and regulation of T cell proliferation, plus interferon production and protein ubiquitination that modulate immune signaling; vitamin D response and cell\u2013cell adhesion further support immune interactions. A couple of outlier terms (SA node action potential regulation, viral entry regulation) are likely annotation breadth rather than core functions.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":4},{"id":"GO:0046598","count":4},{"id":"GO:0098907","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0033280","count":4}]},{"hash":"1969432019095623921","title":"Organogenesis signaling in heart and nervous system","description":"GO terms cluster around organ development (heart, angiogenesis, nervous system, lung mesenchyme) and signaling pathways (ERK/MAPK), indicating a cohesive theme of organogenesis and development with MAPK signaling.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060484","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0001525","count":5}]},{"hash":"1663189273118825539","title":"Antigen processing and T cell activation","description":"The proteins show strong enrichment for adaptive immune functions, notably antigen processing and presentation (GO:0002457) and T cell activation via T cell receptor interaction with antigen/MHC (GO:0002291). Additional terms indicate inflammatory and phagocytic responses and pathogen interactions, suggesting a cohesive immune recognition and activation theme rather than a metabolic or structural one.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902042","count":4},{"id":"GO:0046716","count":3},{"id":"GO:0022614","count":2},{"id":"GO:2000352","count":2},{"id":"GO:0002438","count":2}]},{"hash":"1637110646910780137","title":"Glutamatergic signaling and neural development","description":"This cluster is enriched for ionotropic glutamate receptor signaling and several neural-development related terms (neural tube closure, axon midline choice point recognition, regulation of synapse structure/activity). Although a few terms pertain to stress responses or amyloid formation, the strongest and most frequent themes center on neuronal communication and development, justifying a label focused on glutamatergic signaling and neural development.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0035235","count":3},{"id":"GO:0009414","count":2},{"id":"GO:1990000","count":2},{"id":"GO:0048669","count":2},{"id":"GO:0060674","count":2}]},{"hash":"1675109810907459869","title":"Neural development with axon guidance and migration","description":"The top GO terms cluster around nervous system development and connectivity: neuron differentiation (including midbrain dopaminergic and cerebellar Purkinje cell precursor signaling), axonogenesis, motor neuron axon guidance, and lateral motor column neuron migration. Additional terms on cell-matrix adhesion and Notch pathway regulation support processes that shape neural network formation. A few outliers (e.g., uterine epithelium development) are present but do not override the dominant neural development theme. Confidence: High","confidence":"","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"wound healing","top_go_terms":[{"id":"GO:0007160","count":6},{"id":"GO:0070527","count":6},{"id":"GO:0097477","count":6},{"id":"GO:0048936","count":5},{"id":"GO:0008045","count":5}]},{"hash":"1387993890437233127","title":"Vertebrate Embryogenesis and Organogenesis","description":"The top GO terms reflect developmental processes across tissues and organs\u2014palate development, left/right patterning, placental/trophoblast differentiation, mesoderm formation, heart cushion EMT, cartilage morphogenesis, and endocrine organ development\u2014pointing to a shared theme of vertebrate embryonic development and organ formation.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":8},{"id":"GO:0060972","count":7},{"id":"GO:0060707","count":7},{"id":"GO:0060806","count":7},{"id":"GO:0035270","count":7}]},{"hash":"1685772415027393164","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by GO terms related to ribosome production and function (ribosome biogenesis, ribosomal subunit biogenesis, cytoplasmic translation, tRNA modification, ribosomal large subunit export from nucleus) and linked to cell cycle processes (cell division, cell cycle), suggesting a cohesive role in the protein synthesis machinery aligned with proliferation. Minor terms about stress response regulation do not outweigh the core theme of ribosome assembly and translation.","confidence":"High","size":10,"edges":14,"triangles":0,"max_degree":6,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0042274","count":3},{"id":"GO:1901001","count":3},{"id":"GO:1903833","count":3},{"id":"GO:0002181","count":3}]},{"hash":"1660198793588247315","title":"Developmental Signaling in Heart and Vasculature","description":"The top terms cluster around signaling and developmental processes pertinent to heart and vascular biology: regulation of ERK1/ERK2 cascade, PDGF receptor signaling, and cell migration in heart development, as well as negative regulation of smooth muscle cell proliferation, pointing to cardiovascular development and signaling dynamics. There are also mentions of hypoxia response and mast cell activation that can intersect with developmental and vascular contexts, and a couple of outlier metabolic terms (beta-ketoadipate pathway, chlorophyll catabolic process) likely reflecting annotation noise across species. Overall, the theme is signaling-driven development in cardiovascular lineages rather than a single cohesive metabolic pathway. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042952","count":4},{"id":"GO:0098869","count":3},{"id":"GO:0015996","count":3},{"id":"GO:0010642","count":2},{"id":"GO:0021762","count":2}]},{"hash":"81058812657772603","title":"Muscle contraction regulation and sarcomere organization","description":"Most GO terms describe regulation of muscle contraction, sarcomere organization, and filament sliding across skeletal, smooth, and cardiac muscle contexts, including fiber-type switching and tissue morphogenesis, indicating a cohesive muscle-contractile module.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0030049","count":2},{"id":"GO:0001980","count":2},{"id":"GO:0006942","count":2},{"id":"GO:0055010","count":2},{"id":"GO:0045932","count":2}]},{"hash":"1371145042260094904","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097222","count":2},{"id":"GO:0007344","count":2},{"id":"GO:0071076","count":2},{"id":"GO:0071038","count":2},{"id":"GO:0071035","count":2}]},{"hash":"675234898007558594","title":"Diverse small-molecule catabolism","description":"The top GO terms point to catabolic and detoxification processes across a range of small molecules (antibiotics, stilbene, uracil, prostaglandins, glucuronosides, xenobiotics) and oxidative/reductive adjustments. This suggests a common theme of breakdown and processing of diverse chemical compounds, rather than a single specific pathway. Confidence: Medium.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":5},{"id":"GO:0046272","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0019391","count":4},{"id":"GO:0055114","count":4}]},{"hash":"1398825584188681837","title":"Unknown","description":"The top terms include innate immune signaling (MyD88-dependent TLR4), muscle development, transcription regulation, dendritic spine maintenance, and lipid-related regulation, which do not point to a single cohesive biological theme. This diversity makes it hard to assign a meaningful, specific label to the cluster.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035660","count":7},{"id":"GO:0007527","count":7},{"id":"GO:0006355","count":7},{"id":"GO:1903001","count":1},{"id":"GO:0000070","count":1}]},{"hash":"1873223800586442126","title":"Ribosome and Translation Machinery","description":"This cluster is dominated by GO terms related to protein synthesis and ribosome function: cytoplasmic and general translation, mitochondrial translational termination, and ribosome biogenesis, plus translational fidelity. These together point to roles in the protein synthesis machinery and its accuracy, with a few peripheral terms (antibiotic response, RNA processing) likely reflecting related stress or RNA-handling context.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0046677","count":3},{"id":"GO:0070126","count":3},{"id":"GO:0002181","count":2},{"id":"GO:0042254","count":1}]},{"hash":"378587327061047824","title":"Bacterial cell wall biosynthesis and metabolism","description":"The cluster is enriched for peptidoglycan biosynthetic process and cell wall organization, pointing to bacterial envelope synthesis, alongside core metabolic processes such as the TCA cycle, 2-oxoglutarate metabolism, malonyl-CoA and long-chain fatty acid biosynthesis, and glutathione metabolism. These together suggest proteins that connect central metabolism with cell wall production, consistent with bacterial physiology. Obsolete lysine-related GO terms hint at amino acid metabolism feeding into these pathways, but the dominant signal remains cell wall biosynthesis plus metabolism.","confidence":"High","size":9,"edges":16,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0019878","count":3},{"id":"GO:0006099","count":3},{"id":"GO:0033512","count":3},{"id":"GO:2001295","count":3},{"id":"GO:0042759","count":3}]},{"hash":"1462325654552404707","title":"Neural development and synaptic plasticity with glial-immune signaling","description":"The cluster combines brain development (substantia nigra development, axonogenesis), memory and synaptic plasticity terms, and glial/immune activity (astrocyte activation, NF-kappaB signaling, complement activation), along with a hypoxia response. This points to a neural module where neuronal development and plasticity are modulated by astrocyte and immune signaling, potentially under stress conditions.","confidence":"Medium","size":9,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008360","count":7},{"id":"GO:0071456","count":7},{"id":"GO:0007613","count":7},{"id":"GO:0007409","count":7},{"id":"GO:0048143","count":7}]},{"hash":"511153547450474079","title":"Embryonic development and organ morphogenesis","description":"The top GO terms cluster around embryonic development across multiple organs and tissues: palate formation, heart cushion EMT, placenta/embryonic placenta development, cartilage morphogenesis, endocrine system development, left-right pattern formation, pancreatic beta cell development, and skeletal muscle tissue development. The inclusion of negative regulation of transcription by RNA polymerase II suggests developmental gene regulation. Together these terms indicate a cohesive theme of embryogenesis and organ morphogenesis rather than a single molecular function.","confidence":"High","size":9,"edges":9,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0060021","count":7},{"id":"GO:0003198","count":5},{"id":"GO:0060707","count":5},{"id":"GO:0060806","count":5}]},{"hash":"1366061588418252081","title":"Proteolysis and Endocrine Regulation","description":"The top GO terms emphasize proteolysis and protein autoprocessing, digestion, and hormone-mediated signaling with renin-angiotensin pathway involvement (including blood volume regulation and aldosterone production). This suggests a cluster tied to proteolytic processing and endocrine/hormonal control of physiology. Some terms like response to lipopolysaccharide and xylan catabolic process may be noise or broad associations, but the recurring themes point toward proteolysis and hormonal regulation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":3},{"id":"GO:0045493","count":2},{"id":"GO:0002016","count":2},{"id":"GO:0016540","count":2},{"id":"GO:0006508","count":2}]},{"hash":"334543705895096440","title":"Developmental signaling and organ morphogenesis","description":"The top GO terms point to developmental processes and tissue morphogenesis (lens proliferation, angiogenesis, trachea gland development, endocardial differentiation, TGF-beta response), suggesting a theme of developmental signaling and organ formation. A couple of terms about DNA repair are present but do not dominate the cluster\u2019s core function.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001111","count":2},{"id":"GO:2000819","count":2},{"id":"GO:0090579","count":2},{"id":"GO:0032392","count":2},{"id":"GO:1903672","count":2}]},{"hash":"2191710601084748393","title":"Chromatin Regulation and Nucleosome Assembly","description":"The cluster\u2019s GO terms cluster around chromatin-related processes: histone modifications (demethylation, deacetylation, methylation), nucleosome assembly, and negative regulation of transcription by RNA polymerase II, plus positive regulation of chromatin binding. These collectively point to a core theme of chromatin state control and transcriptional regulation, with some auxiliary associations to signaling and detoxification that appear less central to the dominant pattern.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0034720","count":3},{"id":"GO:0035563","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0016575","count":3}]},{"hash":"1594917838914338249","title":"Reproduction: Sperm Capacitation and Placenta Development","description":"The top GO terms include clear reproductive biology signals (sperm capacitation and placenta development), suggesting the cluster is enriched for reproductive processes; other terms may be contextual (chemotaxis, metabolism), but the dominant theme is reproduction.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":2},{"id":"GO:0001890","count":2},{"id":"GO:0006935","count":2},{"id":"GO:0033160","count":2},{"id":"GO:0032092","count":2}]},{"hash":"2103565597640751622","title":"Growth, Metabolism, and Redox Regulation","description":"Has strong signals for redox homeostasis and multiple metabolic pathways, with additional links to cell growth, differentiation, and signaling. The mix of glycerol metabolism, transsulfuration, molybdopterin cofactor biosynthesis, and redox balance suggests metabolism and redox control as a core theme, while epithelial/spinal cord development and mitotic M phase reflect growth and differentiation context. The cluster thus appears to capture proteins involved in coordinating cellular growth with metabolic and redox states, hence Growth, Metabolism, and Redox Regulation.","confidence":"Medium","size":9,"edges":29,"triangles":48,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":7},{"id":"GO:0030855","count":5},{"id":"GO:0006777","count":5},{"id":"GO:0035335","count":5},{"id":"GO:0000087","count":5}]},{"hash":"1396041617424589974","title":"Innate immune signaling and inflammation","description":"This cluster is dominated by GO terms related to antiviral defense, LPS- and GPCR-mediated signaling, and regulation of key inflammatory mediators (NF-\u03baB, TNF, TGF-\u03b2). The combination of defense response to virus, lipopolysaccharide signaling, and regulatory roles in TNF/TGF-\u03b2 production plus NF-\u03baB pathways points to a cohesive innate immune signaling program with inflammatory control.","confidence":"High","size":9,"edges":9,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042346","count":2},{"id":"GO:1902230","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0031663","count":2}]},{"hash":"574203478019630228","title":"Ubiquitin-mediated proteolysis and cell cycle control","description":"The cluster centers on ubiquitin-related processes (ISG15 conjugation; ubiquitin-dependent proteolysis via the N-end rule pathway; nucleus-associated proteasomal degradation) and chromatin regulation (histone demethylation/methylation) along with cell-cycle control terms (G2/M transition; spindle assembly checkpoint). This suggests a cohesive theme where ubiquitin/UBL-mediated protein turnover modulates chromatin state and mitotic progression, with some peripheral terms related to neuronal and flagellar components likely reflecting broader structural roles in cytoskeleton and development.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032020","count":9},{"id":"GO:0070076","count":9},{"id":"GO:1901044","count":9},{"id":"GO:0010976","count":9},{"id":"GO:0051569","count":9}]},{"hash":"625663203638803456","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010125","count":2},{"id":"GO:0030389","count":1},{"id":"GO:0035335","count":1},{"id":"GO:0015937","count":1},{"id":"GO:0097171","count":1}]},{"hash":"931623318061313945","title":"Steroid and retinoid lipid metabolism","description":"The top GO terms are dominated by retinoid metabolism (retinal and retinol), bile acid biosynthesis/catabolism, and C21-steroid hormone biosynthesis, all pointing to lipid- and steroid-related metabolic functions. While a few terms resemble general stress responses, the dominant theme centers on processing lipid-derived molecules including vitamins A and bile acids, and steroid hormones, suggesting a cluster of enzymes/regulators in steroid/retinoid/lipid metabolism.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0042574","count":9},{"id":"GO:0042572","count":9},{"id":"GO:0030573","count":8},{"id":"GO:0018931","count":8},{"id":"GO:0009414","count":8}]},{"hash":"114404193489428043","title":"Nervous system development and function","description":"The top GO terms converge on neural processes \u2014 regulation of cell shape, calcium homeostasis, myelination, astrocyte migration, neuromuscular balance, and sensory perception \u2014 suggesting a cohesive theme of nervous system development and neural signaling. A few terms (keratan sulfate proteoglycan catabolic, chitin catabolic, male courtship behavior) appear peripheral but do not override the dominant neural-focused signals.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":4,"top_function":"lysosome organization","top_go_terms":[{"id":"GO:0008360","count":3},{"id":"GO:0008654","count":3},{"id":"GO:0006874","count":3},{"id":"GO:0050885","count":3},{"id":"GO:0042340","count":3}]},{"hash":"1752186052297406230","title":"Ubiquitin- and autophagy-mediated proteostasis","description":"The top GO terms cluster around protein modification and degradation (sumoylation, autoubiquitination, ERAD) and quality-control pathways (aggresome assembly, mitophagy, vesicle formation). This suggests proteins in this cluster participate in ubiquitin- and autophagy-driven proteostasis, including turnover and trafficking of damaged proteins and organelles. Some negative-regulation terms may reflect regulatory interplay with metabolism and secretion, but the dominant theme is proteostasis control via ubiquitin signaling and autophagy.","confidence":"Medium","size":9,"edges":33,"triangles":64,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":7},{"id":"GO:0051865","count":6},{"id":"GO:0033132","count":6},{"id":"GO:0010637","count":6},{"id":"GO:0070842","count":6}]},{"hash":"1737076356698822966","title":"Developmental morphogenesis and ECM remodeling","description":"The top GO terms point to hormone-responsive development and extensive extracellular matrix remodeling, including thyroid hormone stimulus, basement membrane disassembly, collagen catabolic processes, and branching morphogenesis in the lung. Wnt signaling regulation and decidualization further reflect developmental signaling and tissue remodeling. Taken together, these terms suggest a cluster of proteins involved in morphogenesis and ECM dynamics across tissues, with emphasis on branching and basement membrane remodeling during development. ","confidence":"High","size":9,"edges":34,"triangles":71,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0097067","count":9},{"id":"GO:0034769","count":9},{"id":"GO:0035593","count":9},{"id":"GO:0060448","count":9},{"id":"GO:0045453","count":9}]},{"hash":"1661198520490106397","title":"Calcium-dependent signaling and NFAT regulation","description":"The cluster emphasizes calcium-dependent signaling, highlighted by positive regulation of the calcineurin-NFAT pathway and calcium release from the sarcoplasmic reticulum, which ties to broader processes like phosphorylation, cell cycle, apoptosis, and development. While terms touch on mitosis, hypoxia, ROS, and morphogenesis, the unifying thread is calcium-mediated signal transduction and downstream transcriptional and cellular responses.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050731","count":3},{"id":"GO:0070886","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0097050","count":2},{"id":"GO:0060056","count":2}]},{"hash":"1873610037847710553","title":"Developmental Immune Signaling","description":"The cluster combines immune-related terms (negative regulation of NK cell chemotaxis; complement activation via the lectin pathway; phagocytosis recognition; cellular response to fungal origin; inflammatory mediators) with tissue morphogenesis terms (cartilage condensation; lymph vessel morphogenesis; metanephric kidney development). This pattern suggests proteins involved in coordinating immune cues with developmental/tissue remodeling processes, rather than a single isolated function. ","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:2000502","count":7},{"id":"GO:0071226","count":7},{"id":"GO:0001502","count":6},{"id":"GO:0036303","count":5},{"id":"GO:0090238","count":5}]},{"hash":"2268357244170163301","title":"Plant cell wall polysaccharide biosynthesis","description":"This cluster is dominated by plant-specific biosynthesis terms: plant-type secondary cell wall biogenesis, glucuronoxylan and homogalacturonan biosynthesis, and mucilage biosynthesis, plus protein O-linked glycosylation via mannose, pointing to proteins involved in constructing and modifying cell wall polysaccharides and related glycosylation. Some sugar metabolism terms appear that can accompany polysaccharide production, while a distant term may reflect annotation noise. Overall, the core theme is plant cell wall biosynthesis and carbohydrate assembly.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043085","count":2},{"id":"GO:2000327","count":2},{"id":"GO:0009834","count":1},{"id":"GO:0010417","count":1},{"id":"GO:0006012","count":1}]},{"hash":"931655747614112863","title":"Gene Expression and Cell Fate Regulation","description":"The terms cluster around regulation of gene expression at transcriptional/post-transcriptional levels (nuclear export, mRNA stability, polyadenylation regulation, cap-independent translation) and broader cell fate decisions (Notch signaling and its negative regulation, cell cycle, apoptosis), suggesting a cohesive theme of how expression and signaling regulate cellular outcomes, despite some terms being disparate (e.g., plant-specific and viral-related). ","confidence":"Medium","size":9,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051168","count":1},{"id":"GO:0007219","count":1},{"id":"GO:0045746","count":1},{"id":"GO:1903679","count":1},{"id":"GO:1900363","count":1}]},{"hash":"1331431696279783697","title":"Neural development and synaptic connectivity","description":"Dominant terms cluster around neural development and synapse formation, including substantia nigra development, myelination, sensory perception of sound, and synapse assembly, with supporting processes like lamellipodium and adhesion-related events. Immune-related terms are present but far less represented, so the core theme appropriately reflects neuronal wiring and CNS maturation.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045056","count":2},{"id":"GO:0070830","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0007416","count":2},{"id":"GO:0030032","count":2}]},{"hash":"820656907230701625","title":"Unknown","description":"The terms span metabolism (serine catabolism, nucleotide biosynthesis, redox, H2S production, Mg2+ transport), immune signaling (IL-4 response, lymphocyte proliferation), development (retina development), and stress responses (glucose starvation), with no clear single function unifying all proteins. A cohesive, specific label is not supported by the GO terms, so an Unknown label is most appropriate.","confidence":"","size":9,"edges":33,"triangles":66,"max_degree":8,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0006565","count":8},{"id":"GO:0006177","count":8},{"id":"GO:0046651","count":8},{"id":"GO:0070814","count":8},{"id":"GO:0071353","count":8}]},{"hash":"1876853659296454860","title":"Synapse Assembly and Dendritic Spine Morphogenesis","description":"The top GO terms cluster around localization to synapses, receptor clustering, dendritic spine morphogenesis, and Rho signaling, all indicative of neuronal synaptic organization and spine remodeling. While a few terms (immunology or development) are less related, the dominant signal points to synapse structure and cytoskeletal dynamics.","confidence":"High","size":9,"edges":9,"triangles":0,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035418","count":9},{"id":"GO:0043113","count":9},{"id":"GO:0060997","count":9},{"id":"GO:0008285","count":9},{"id":"GO:0007266","count":9}]},{"hash":"242126532494653861","title":"Developmental and Innate Immune Signaling","description":"The top GO terms span neural development (axon extension, neuron maturation), vascular development (lymph vessel morphogenesis), extracellular matrix remodeling (collagen fibril organization), innate immune pathways (TLR signaling, dsRNA response, defense against Gram-negative bacteria, lipopeptide detection), plus chromatin localization. This mix suggests a broad theme of signaling involved in development and immune responses, rather than a single cohesive function. Confidence: Medium","confidence":"","size":9,"edges":23,"triangles":22,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048846","count":7},{"id":"GO:0014041","count":6},{"id":"GO:0036303","count":6},{"id":"GO:0034123","count":6},{"id":"GO:0009729","count":6}]},{"hash":"1310471515399387403","title":"Glutamatergic Synaptic Transmission Regulation","description":"The cluster\u2019s top GO terms point to neural communication: neurotransmitter secretion, glutamatergic synaptic transmission, and regulation of synaptic plasticity, along with related neural development and glial apoptotic regulation terms. These collectively suggest a coherent theme of neuronal synaptic signaling and its regulation, rather than unrelated metabolic processes.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015966","count":4},{"id":"GO:0060963","count":3},{"id":"GO:0007269","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0090153","count":3}]},{"hash":"707922453897742020","title":"Calcium-Regulated Cardiac Contraction","description":"This cluster's top GO terms cluster around cardiac muscle function and calcium signaling: regulation of calcium release, voltage-gated calcium channel activity, and cardiac muscle contraction, along with heart development. A few terms indicate DNA repair and neural barrier processes, but the dominant theme ties to calcium-dependent regulation of cardiac muscle activity.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990414","count":4},{"id":"GO:0010881","count":3},{"id":"GO:0007205","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0060048","count":2}]},{"hash":"1486550558402369598","title":"DNA replication and chromosome maintenance","description":"Despite some translation-related terms, the strongest signals are DNA replication, mitotic sister chromatid cohesion, centromeric cohesion maintenance, and DNA damage response (SOS). This points to a core function in genome integrity, replication, and chromosome maintenance, with other terms likely annotation noise or multifunctionality.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070294","count":2},{"id":"GO:0006450","count":1},{"id":"GO:0006399","count":1},{"id":"GO:1900829","count":1},{"id":"GO:1900832","count":1}]},{"hash":"2184707246413001150","title":"Membrane Ion Transport and Vesicle Loading","description":"This cluster is best described by membrane transport activity, evidenced by multiple transmembrane ion transport terms (sodium, potassium, nitrate, nitrite, phosphate) and a related vesicle-loading process for neurotransmitters. The other terms (blood coagulation, fucose metabolism) are less central and do not override the transport theme, so the core label fits well.","confidence":"High","size":8,"edges":8,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":4},{"id":"GO:0035725","count":4},{"id":"GO:0098700","count":4},{"id":"GO:0015739","count":4},{"id":"GO:0015707","count":4}]},{"hash":"160512566794561143","title":"DNA replication initiation and CENP-A chromatin assembly","description":"The cluster is driven by terms related to DNA replication initiation and pre-replicative complex assembly, as well as CENP-A containing chromatin assembly, indicating a nuclear replication/centromere maintenance theme. Ribosome biogenesis and proteasomal regulation appear as ancillary processes but do not override the core replication/chromatin signal.","confidence":"Medium","size":8,"edges":25,"triangles":40,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0006267","count":3},{"id":"GO:0006270","count":3},{"id":"GO:0034599","count":2}]},{"hash":"2026600109014258828","title":"Nucleolar rDNA transcription and chromatin regulation","description":"This cluster centers on rDNA heterochromatin formation, nucleolar localization of proteins to rDNA repeats, and transcription by RNA Polymerase I, with regulatory connections to chromatin state and telomere maintenance. The recurring GO terms indicate a cohesive module of nucleolar rDNA transcriptional control and chromatin remodeling, justifying a label focused on nucleolar rDNA regulation. ","confidence":"High","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090035","count":8},{"id":"GO:0032204","count":8},{"id":"GO:0061188","count":8},{"id":"GO:0010870","count":8},{"id":"GO:0061186","count":8}]},{"hash":"1040770686719799536","title":"Calcium Homeostasis and Ion Transport","description":"The top GO terms cluster around calcium handling (intracellular calcium homeostasis, ER calcium concentration, release of sequestered calcium by Golgi) and monovalent ion movement (potassium and sodium import/export, regulation of sodium transport), indicating a cohesive theme of calcium signaling and ion flux across membranes, with a couple of less central terms appearing as outliers.","confidence":"High","size":8,"edges":11,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1990573","count":3},{"id":"GO:0032470","count":3},{"id":"GO:0046272","count":3},{"id":"GO:0061454","count":3},{"id":"GO:0060003","count":3}]},{"hash":"1088772121565153238","title":"Embryonic morphogenesis and neural differentiation","description":"The top GO terms cluster around embryonic development across multiple organs (eye, limb, digestive tract, lung morphogenesis) and neural development (dopaminergic neuron differentiation, hypothalamus migration), with related transcriptional regulation by RNA polymerase II. This points to a cohesive theme of embryonic organogenesis and neurodevelopment.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071542","count":3},{"id":"GO:0060441","count":3},{"id":"GO:0006366","count":3},{"id":"GO:0021855","count":2},{"id":"GO:0035115","count":2}]},{"hash":"939431248123782841","title":"Immune signaling and ubiquitination regulation","description":"The terms cluster around immune signaling pathways (NF-kappaB, IL-17 signaling, T cell proliferation, chemokine production) and ubiquitin-related regulation (K63-linked ubiquitination, ERAD), with supporting notes on vitamin D response and antiviral aspects, suggesting a theme of immune modulation via signaling and ubiquitination mechanisms.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":3},{"id":"GO:0050999","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0070534","count":3},{"id":"GO:1903883","count":2}]},{"hash":"1099394967474165138","title":"Vacuolar Ion Transport and Trafficking","description":"The cluster is enriched for vacuole-related processes (vacuole organization, vacuolar acidification, protein targeting to vacuole) together with ion transport (sodium ion transport, proton transmembrane transport). This suggests a cohesive role in vacuolar ion homeostasis and trafficking, potentially linking proton gradients to transport and vacuole biogenesis, with some plastid biosynthesis terms likely reflecting broader organelle-associated functions in plants.","confidence":"High","size":8,"edges":6,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006814","count":5},{"id":"GO:0006623","count":5},{"id":"GO:0006878","count":5},{"id":"GO:0007033","count":5},{"id":"GO:0042777","count":5}]},{"hash":"680052805653173964","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":25,"triangles":41,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0009089","count":5},{"id":"GO:0035606","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0051402","count":5},{"id":"GO:0006096","count":5}]},{"hash":"1921067952832796376","title":"DNA Repair and Radiation Response","description":"The top GO terms are dominated by DNA repair processes (double-strand break repair via homologous recombination, interstrand cross-link repair, general DNA repair) and cellular responses to ionizing radiation, pointing to a cohesive cluster focused on genome integrity and damage response. A few terms (translation, dexamethasone response, osteoclast/monocyte regulation) appear peripheral, but they do not override the predominant DNA damage\u2013response theme.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070445","count":2},{"id":"GO:0010569","count":2},{"id":"GO:0036297","count":2},{"id":"GO:0071479","count":2},{"id":"GO:0000724","count":2}]},{"hash":"808450964957818271","title":"Translation and Post-Translational Regulation","description":"The top terms center on protein synthesis (translation) and regulation of post-translational modifications (sumoylation, autoubiquitination). Other terms hint at broader regulation of gene expression, signaling, and development, suggesting the cluster reflects mechanisms controlling protein expression and modification rather than a single pathway.","confidence":"Medium","size":8,"edges":9,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0045648","count":5},{"id":"GO:0010637","count":5},{"id":"GO:0016925","count":5},{"id":"GO:1902283","count":5}]},{"hash":"1340095315060101632","title":"Mitophagy and innate immune signaling","description":"The cluster centers on autophagy-related processes, especially mitophagy (autophagy of mitochondrion) and nucleophagy, together with post-translational modifications (ISG15 conjugation, sumoylation) and innate immune signaling (MyD88-dependent TLR pathway) and defense against fungi. While brain-development terms appear, the strongest, recurring themes are autophagy-related pathways and immune regulation, supporting this label as representative of the cluster\u2019s function.","confidence":"High","size":8,"edges":16,"triangles":12,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000422","count":6},{"id":"GO:0021764","count":5},{"id":"GO:0061504","count":5},{"id":"GO:0032020","count":5},{"id":"GO:0009229","count":5}]},{"hash":"130686369865845760","title":"Membrane receptor signaling and cytoskeletal remodeling","description":"The cluster shows GO terms spanning membrane receptor pathways (T cell receptor signaling, EGFR signaling), downstream ERK cascade, and cell adhesion/spreading, together with processes tied to cytoskeletal dynamics (ruffle assembly) and endosomal trafficking of neurotransmitter receptors, as well as tight junction assembly and engulfment of apoptotic cells. This combination suggests a functional module of membrane-initiated signaling that coordinates cytoskeletal remodeling and cell\u2013cell contacts.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0034260","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0043552","count":3},{"id":"GO:0043652","count":3},{"id":"GO:0098887","count":3}]},{"hash":"491849893174651111","title":"Spliceosome-mediated mRNA processing","description":"The cluster is dominated by GO terms tied to splicing and general mRNA processing (alternative and regulated splicing via spliceosome, splice site recognition, small-subunit processome assembly, mRNA export and stabilization), indicating a core function in pre-mRNA splicing and subsequent mRNA handling.","confidence":"High","size":8,"edges":10,"triangles":5,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000380","count":4},{"id":"GO:0001825","count":4},{"id":"GO:0075525","count":4},{"id":"GO:0035278","count":4},{"id":"GO:0048026","count":4}]},{"hash":"676948795477053308","title":"Cardiac Muscle Stress and Calcium Signaling","description":"This cluster points to stress-responsive signaling in heart and muscle: AV node action potential, cardiac hypertrophy in response to stress, and calcium release from the sarcoplasmic reticulum. It also includes thermogenic and hypoxic stress terms and some pain-related signaling, suggesting a broader stress-response theme with calcium dynamics.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071502","count":6},{"id":"GO:0002024","count":6},{"id":"GO:0019233","count":6},{"id":"GO:0097050","count":5},{"id":"GO:2000340","count":5}]},{"hash":"123183854741748942","title":"Dopaminergic signaling and drug response","description":"The top GO terms cluster around brain-related processes: dopaminergic synaptic transmission, cocaine and morphine responses, visual learning, and ERK signaling, plus brain-specific signaling like prostaglandin response and brain renin-angiotensin system. This pattern points to neuronal signaling and behavioral pharmacology, especially dopamine-mediated pathways and drug responses, as the cohesive theme of the cluster.","confidence":"High","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":8},{"id":"GO:0006468","count":8},{"id":"GO:0001963","count":8},{"id":"GO:0048148","count":8},{"id":"GO:0071380","count":8}]},{"hash":"965295890182342767","title":"MAPK-Driven Development and Sensory Signaling","description":"This cluster combines GO terms spanning developmental processes (heart, placenta, thymus development) with neural/sensory functions (visual perception and learning) and signaling events (ERK/MAPK cascade, prostaglandin response) as well as immune-related chemotaxis. The common thread appears to be signaling pathways, especially ERK/MAPK, that coordinate development and modulate sensory/behavioral responses, with supplementary immune signaling. Therefore, a MAPK-centered developmental-sensory signaling label seems most representative.","confidence":"Medium","size":8,"edges":16,"triangles":12,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0048148","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0001890","count":6},{"id":"GO:0048538","count":6}]},{"hash":"1704238257268707002","title":"Plant cell wall polysaccharide biosynthesis","description":"Top GO terms indicate plant-specific processes: secondary cell wall biogenesis, glucuronoxylan and homogalacturonan (pectin) biosynthesis, mucilage production, and glycosylation of proteins (O-linked, via mannose and GalNAc). Together these point to a cluster of proteins involved in cell wall polysaccharide assembly and related glycan modifications in plants. The presence of a muscle regeneration term appears unrelated and likely noise.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009834","count":2},{"id":"GO:0010417","count":2},{"id":"GO:0006012","count":2},{"id":"GO:0043403","count":2},{"id":"GO:0010192","count":2}]},{"hash":"1306546969292555911","title":"T cell activation and NF-kappaB signaling","description":"This cluster is dominated by GO terms related to adaptive immunity and signaling: positive regulation of canonical NF-kappaB, regulation of T cell proliferation and cell death, dendritic cell differentiation, and plasma cell differentiation, plus a viral response. While a few terms (sensory perception of sound, LDL clearance, Lewis a epitope biosynthesis) are unrelated outliers, the core theme points to immune activation and NF-kappaB\u2013mediated regulation.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0034383","count":2},{"id":"GO:0070241","count":2},{"id":"GO:2000562","count":2}]},{"hash":"285485359087659778","title":"NF-kB\u2013driven immune signaling and autophagy","description":"This cluster centers on immune-related signaling pathways, notably NF-kappaB activation (positive regulation of canonical NF-kappaB signaling) and LPS-mediated signaling, along with T cell homeostasis and autophagy regulation, and includes elements influencing apoptosis and PI3K/AKT signaling. The presence of tight junction assembly hints suggests a barrier/epithelial-immune interface context as well. Overall, the proteins appear to coordinate immune signaling with cell survival and autophagic processes, supporting this label.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043066","count":4},{"id":"GO:0043029","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0070830","count":3},{"id":"GO:0051092","count":3}]},{"hash":"918165867413824194","title":"Neuronal Opioid Signaling at Synapses","description":"This cluster is enriched for GO terms involving opioid receptor signaling, morphine response, and localization of receptors/proteins to synapses, plus retrograde nitric oxide\u2013mediated signaling across synapses. The common thread is opioid-driven neuronal communication and synaptic localization, suggesting a coherent functional theme, with a few terms (e.g., centrosome localization, unrelated pathways) that are less central.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0070433","count":7},{"id":"GO:0071625","count":7},{"id":"GO:0098924","count":6},{"id":"GO:0071315","count":6},{"id":"GO:1904781","count":6}]},{"hash":"1780533036274717751","title":"Unknown","description":"The top GO terms cover a mix of stress-related and developmental processes across various tissues (pancreatic apoptosis, mammary involution, hypoxia response, ROS generation, calcium signaling, pituitary morphogenesis, opsin signaling, and cardiac hypertrophy). There isn\u2019t a single cohesive function that unites these terms, making it hard to assign a specific, concise label to this cluster. ","confidence":"","size":8,"edges":11,"triangles":5,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097050","count":7},{"id":"GO:0060056","count":7},{"id":"GO:0042554","count":7},{"id":"GO:0008360","count":7},{"id":"GO:0071456","count":7}]},{"hash":"2197437965437534710","title":"Amino acid catabolism and pyruvate fermentation","description":"The GO terms show diverse amino acid degradation (branched-chain, aromatic, taurine, mandelate, oxalate) and pyruvate-centered catabolism with ethanol fermentation, indicating a cohesive cluster of amino acid and central carbon catabolic processes.","confidence":"High","size":8,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0033611","count":3},{"id":"GO:0090180","count":3},{"id":"GO:0009097","count":3},{"id":"GO:0000949","count":3},{"id":"GO:0019655","count":3}]},{"hash":"1710484438994873182","title":"Membrane Transporters for Small Molecules","description":"The top GO terms strongly point to transport across membranes for small molecules and ions (myo-inositol, pantothenate, biotin, glucose, and sodium export). A few terms touch on development (lens development, motor neuron migration) which may reflect tissue context, but do not override the overall transporter-centric signal. Therefore, this cluster is best described as membrane transporters handling nutrient and ion movement.","confidence":"Medium","size":8,"edges":11,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":3},{"id":"GO:0015798","count":1},{"id":"GO:0015887","count":1},{"id":"GO:0071436","count":1},{"id":"GO:0015878","count":1}]},{"hash":"1031102263726686485","title":"Clathrin-mediated endocytosis and endosome trafficking","description":"This cluster is dominated by GO terms related to clathrin-dependent endocytosis, regulation of receptor-mediated endocytosis, clathrin coat assembly, and endosome/MVB sorting, indicating a core theme of vesicle formation and trafficking via clathrin pathways, with some association to apoptotic processes and APP-related amyloid-beta formation. The terms collectively point to a cohesive function in vesicle-mediated uptake and endosomal transport rather than disparate roles. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072583","count":3},{"id":"GO:0048260","count":3},{"id":"GO:0006915","count":3},{"id":"GO:1905445","count":3},{"id":"GO:1902004","count":3}]},{"hash":"889512700710035945","title":"Broad Transmembrane Transporters (Sugars & Xenobiotics)","description":"This cluster is dominated by GO terms for transmembrane transport across a range of substrates, including sugars (glucose, galactose, xylose), vitamins, and xenobiotics, plus related transport and metabolic response terms. The diversity of substrates points to a general transporter family rather than a single-substrate transporter, making a label centered on broad transmembrane transport both appropriate and informative.","confidence":"High","size":8,"edges":6,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":8},{"id":"GO:0006855","count":8},{"id":"GO:0042891","count":7},{"id":"GO:0043252","count":6},{"id":"GO:0015753","count":6}]},{"hash":"391799898364103841","title":"Neurovascular development","description":"The cluster combines neural development terms (CNS development, embryonic retina morphogenesis, forebrain cell proliferation) with angiogenesis, suggesting a shared theme of neural tissue growth linked with vascular formation. Some items like TNF response and apoptosis hint at developmental regulation, while a couple terms are obsolete or less relevant, but the overarching pattern supports neurovascular development. ","confidence":"Medium","size":8,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0071356","count":2},{"id":"GO:0007417","count":2},{"id":"GO:0000187","count":2},{"id":"GO:0070584","count":2}]},{"hash":"640453154303041319","title":"Endomembrane trafficking and MVB sorting","description":"The top GO terms cluster around vesicle formation and transport within the endomembrane system: multivesicular body assembly and sorting, ER-to-Golgi and endosome transport, and the Cvt pathway directing cytoplasm-to-vacuole delivery. Although cell cycle terms appear, the dominant theme is endosomal/vesicular trafficking with MVB sorting and related autophagy regulation, plus targeting to the plasma membrane. This combination supports a label focused on endomembrane trafficking and MVB sorting.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0036258","count":6},{"id":"GO:0006888","count":6},{"id":"GO:0045022","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0071985","count":6}]},{"hash":"1780626365636832855","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0050999","count":2},{"id":"GO:0044179","count":2},{"id":"GO:1900116","count":2},{"id":"GO:0009405","count":2},{"id":"GO:0036353","count":1}]},{"hash":"24149469259548493","title":"Histone acetylation and developmental transcription","description":"The top GO terms cluster around histone acetylation (H4 and H3) and regulation of transcription, coupled with developmental processes like sensory organ precursor fate determination and imaginal disc morphogenesis. This suggests a theme of epigenetic regulation of gene expression during development, particularly in insects. The presence of obsolete acetylation terms doesn\u2019t alter the core connection to histone modification and transcriptional control in development.","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043983","count":1},{"id":"GO:0043981","count":1},{"id":"GO:0016360","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0046529","count":1}]},{"hash":"216846700652361814","title":"Hepatic Lipid and Steroid Metabolism","description":"The GO terms point to liver-centric metabolism and development: triglyceride metabolism, bile acid biosynthesis, and steroid-related pathways (androgen and aldosterone), along with hepatocyte differentiation and retinoic acid turnover. Additional terms reference digestive tract development and response to food, which align with the liver's role in nutrient processing and bile-mediated digestion. Together these terms support a theme of hepatic lipid and steroid metabolism and related digestive functions.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032094","count":6},{"id":"GO:0071615","count":5},{"id":"GO:0070365","count":5},{"id":"GO:0006641","count":5},{"id":"GO:0006699","count":5}]},{"hash":"1092363371243725561","title":"Embryonic and Placental Development Regulators","description":"The GO terms cluster around embryogenesis and placental formation (mesoderm development, left-right patterning, trophoblast giant cell differentiation, placental development) with transcriptional regulation (RNA Pol II and DNA-templated transcription) and growth signals, suggesting proteins that coordinate gene expression during early development and placentation.","confidence":"High","size":8,"edges":11,"triangles":0,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0043031","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0007576","count":3},{"id":"GO:0007498","count":3}]},{"hash":"936764867070639941","title":"Unknown","description":"The GO terms span plant pigment biosynthesis, neural development, hormone signaling, cell junctions, miRNA regulation, and metabolism, with no clear common function tying all terms together. Therefore there is no coherent theme to assign a specific label.","confidence":"","size":8,"edges":11,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0009718","count":5},{"id":"GO:0035847","count":3},{"id":"GO:1904948","count":3},{"id":"GO:0097067","count":3},{"id":"GO:0021937","count":3}]},{"hash":"923644159866231735","title":"Neuronal signaling and autophagy regulation","description":"The GO terms include neural signaling (tachykinin receptor signaling pathway) and brain development, alongside autophagy/mitophagy-related processes and oxidative stress/metabolic regulation (respiratory burst, protein oxidation, carbohydrate and amino-acid metabolism). This suggests a theme where neuronal signaling is linked with cellular quality control and metabolic adjustments, rather than a single simple pathway. The combination is somewhat scattered, but the core motif centers on neural communication with autophagy/mitophagy regulation.","confidence":"Low","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045730","count":2},{"id":"GO:0007217","count":2},{"id":"GO:1904808","count":2},{"id":"GO:0032461","count":2},{"id":"GO:1901525","count":1}]},{"hash":"1359516577281054315","title":"Postsynaptic Adhesion and Synapse Assembly","description":"The top GO terms cluster around cell\u2013cell adhesion (cadherin- and non-cadherin\u2013mediated) and postsynaptic organization, with emphasis on neuroligin clustering and synapse assembly. This suggests the proteins act together as adhesion molecules that drive synapse formation/maintenance, with related developmental roles such as R8 cell development in Drosophila. Confidence reflects this coherent neural adhesion/synapse assembly theme.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":4},{"id":"GO:0007338","count":3},{"id":"GO:0007156","count":3},{"id":"GO:0097118","count":3},{"id":"GO:0045463","count":3}]},{"hash":"888301067291824675","title":"Immune modulation and cell\u2013cell adhesion","description":"The cluster shows a convergence on immune signaling and intercellular communication: negative regulation of macrophage activation and T cell proliferation, positive regulation of IL-10 production, T cell costimulation, and NK cell\u2013mediated cytotoxicity, alongside adhesion and synapse-related terms (homophilic adhesion, regulation of synapse assembly, specialized heart-related adhesion). While there are a few outliers (symbiont entry, spermatid development), the dominant pattern supports a function in immune regulation and cell\u2013cell signaling.","confidence":"Medium","size":8,"edges":25,"triangles":39,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":4},{"id":"GO:0051963","count":4},{"id":"GO:0086072","count":4},{"id":"GO:0046718","count":4},{"id":"GO:0043031","count":4}]},{"hash":"1963150183466273403","title":"Triglyceride Catabolism and Lipid Remodeling","description":"The proteins cluster around triglyceride turnover and lipid remodeling, including triglyceride catabolic processes, triglyceride mobilization, and phospholipid (phosphatidylcholine and phosphatidylethanolamine) catabolism, with additional signals related to LDL particle response and regulatory effects on PKA activity. This combination indicates a functional group focused on lipid breakdown and lipid remodeling, consistent with lipolysis and lipoprotein handling pathways.","confidence":"High","size":8,"edges":22,"triangles":29,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0036153","count":4},{"id":"GO:0006642","count":4},{"id":"GO:0010898","count":4},{"id":"GO:0034638","count":4},{"id":"GO:0046338","count":4}]},{"hash":"1988056579780447914","title":"Immune Regulation and Apoptotic Signaling","description":"This cluster concentrates on immune system processes and regulation of cell death, with terms like positive regulation of extrinsic apoptotic signaling, activation-induced T cell death, B cell proliferation regulation, and immunoglobulin production. Additional terms on hematopoietic/lymphoid development and miRNA transcription regulation support a broader immune regulatory role, while a few items (circadian temperature homeostasis, prostaglandin metabolism, membrane proteolysis) are more peripheral but can relate to inflammatory signaling. Overall, the label captures the core theme of immune signaling and apoptotic regulation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2001241","count":8},{"id":"GO:0006924","count":8},{"id":"GO:0006693","count":6},{"id":"GO:0045556","count":6},{"id":"GO:0060086","count":6}]},{"hash":"826986446998227452","title":"Endocytosis and receptor trafficking cluster","description":"The top GO terms point strongly to endocytic pathways\u2014clathrin-dependent endocytosis, ubiquitin-dependent endocytosis, and GPCR internalization\u2014suggesting a core role in receptor and signaling protein internalization. Additional terms related to signaling regulation (GTPase activity, phosphorylation) support trafficking and signaling cross-talk, with some peripheral terms touching on B cell homeostasis and apoptotic signaling. Overall, this cluster appears to group proteins involved in endocytosis and receptor trafficking.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072583","count":3},{"id":"GO:0008625","count":3},{"id":"GO:0001782","count":3},{"id":"GO:0070086","count":3},{"id":"GO:0018107","count":3}]},{"hash":"408771498310347343","title":"NK cell activation and autophagy regulation","description":"This cluster\u2019s top GO terms center on immune cytotoxicity (interferon response, granzyme-mediated apoptotic signaling, NK cell degranulation) alongside cellular degradation pathways (lysosomal protein catabolic process, autophagosome maturation, proteasomal regulation). Together these suggest a theme of NK cell\u2013driven cytotoxicity coupled to autophagy and protein turnover, with some peripheral inflammatory signals like coagulation and lamellipodium regulation. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030195","count":2},{"id":"GO:0010593","count":2},{"id":"GO:0008626","count":1},{"id":"GO:1905146","count":1},{"id":"GO:0097352","count":1}]},{"hash":"33942912007925088","title":"Antiviral defense and immune receptor diversification","description":"The GO terms show strong signals for antiviral responses (cellular response to virus, response to virus, negative regulation of defense response to virus by host, negative regulation of viral genome replication) and immune receptor diversification (somatic diversification of immune receptors via somatic mutation), along with RNAi-related processing (siRNA processing). While some developmental terms appear, the dominant theme across the cluster is antiviral defense and modulation of immune receptors, justifying this label.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030422","count":2},{"id":"GO:0098586","count":2},{"id":"GO:0060216","count":2},{"id":"GO:0021618","count":2},{"id":"GO:0039579","count":2}]},{"hash":"1023260528447698524","title":"Mitochondrial Translation and tRNA Charging","description":"This cluster is dominated by GO terms tied to protein synthesis and mitochondrial-specific tRNA aminoacylation, including mitochondrial translation (GO:0006412) and various mitochondrial tRNA charging activities (threonyl-, glycyl-, alanyl-, and other aminoacylations). The presence of mitochondrial DNA metabolic process further supports a focus on the mitochondrial gene expression apparatus. While there is a mention of cytoplasmic translation and an obsolete mitochondrion morphogenesis term, the core signal points to mitochondrial translation machinery. ","confidence":"High","size":7,"edges":7,"triangles":2,"max_degree":4,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0070584","count":4},{"id":"GO:0032042","count":3},{"id":"GO:0070159","count":3},{"id":"GO:0016260","count":3}]},{"hash":"596208269809273287","title":"Multi-lineage differentiation","description":"This cluster is enriched for GO terms spanning differentiation across multiple tissues and lineages (skeletal muscle, heart valve, oculomotor nerve, melanocytes, renal fibroblasts), including myotube and myoblast fusion, indicating a broad developmental differentiation program rather than a single pathway. The presence of both muscle-specific and other lineage differentiation terms suggests a general theme of cell differentiation across tissues.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0014908","count":7},{"id":"GO:2000793","count":7},{"id":"GO:0061103","count":7},{"id":"GO:0021557","count":7},{"id":"GO:0030318","count":7}]},{"hash":"2032072228409650574","title":"Ribosome biogenesis and rRNA maturation","description":"The top GO terms are dominated by maturation and assembly steps related to the large ribosomal subunit (LSU) rRNA and preribosome assembly, indicating the cluster primarily participates in ribosome biogenesis. Other terms appear peripheral and do not define the core function of this cluster. ","confidence":"High","size":7,"edges":6,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000463","count":2},{"id":"GO:0000466","count":2},{"id":"GO:1902626","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0090076","count":1}]},{"hash":"1923211376750120603","title":"Cortical neural development and radial glial migration","description":"This cluster is strongly enriched for terms tied to brain development, especially cortical radial migration, forebrain radial glial differentiation, and neural tube patterning, pointing to proteins involved in neural development and radial glial\u2013guided neuronal migration. While a few terms touch on cellular trafficking, the dominant theme is cortical development and patterning. ","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021799","count":5},{"id":"GO:0071389","count":5},{"id":"GO:0021861","count":5},{"id":"GO:1903125","count":5},{"id":"GO:0043552","count":5}]},{"hash":"1946609431009546282","title":"Brain development and neural progenitor differentiation","description":"The cluster is enriched for brain- and neural-development GO terms, including hippocampus development, forebrain radial glial differentiation, neural tube patterning, and cerebral cortex radially oriented cell migration, indicating a shared role in neural development and cortical formation. Other terms related to neuronal apoptosis and engulfment may reflect developmental remodeling, but the strongest signal is neural patterning and progenitor differentiation.","confidence":"High","size":7,"edges":12,"triangles":7,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043525","count":5},{"id":"GO:0021766","count":5},{"id":"GO:0021799","count":4},{"id":"GO:0071389","count":4},{"id":"GO:0021861","count":4}]},{"hash":"2136615512355638723","title":"Synaptic signaling and cytoskeletal remodeling","description":"The top terms emphasize ephrin receptor signaling, dendritic spine morphogenesis, and actin filament binding, which together point to synapse development and cytoskeletal dynamics. Wnt signaling also fits this neuronal/cytoskeletal theme, while the immune-related terms appear less central to the core pattern. Overall, the cluster seems best characterized by neuronal signaling and cytoskeletal remodeling, with some incidental immune signaling.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0048013","count":4},{"id":"GO:0050798","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0060044","count":3}]},{"hash":"833596350241498050","title":"Spliceosome-Mediated mRNA Processing","description":"The top GO terms cluster around RNA processing\u2014cis and alternative splicing via the spliceosome, and mRNA export from the nucleus\u2014indicating a core function in spliceosome activity and mRNA maturation. A few other terms suggest secondary roles or unrelated processes, but the dominant signal is RNA processing.","confidence":"High","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0016558","count":2},{"id":"GO:0030433","count":2}]},{"hash":"1026190240444008318","title":"RNA processing and translation control","description":"These proteins appear to participate in RNA processing and regulation of translation: splicing (spliceosome assembly and mRNA processing), ribosome recruitment/translation initiation, and mRNA stability/miRNA-mediated repression. The common theme is post-transcriptional control of gene expression.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0006378","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0000380","count":2},{"id":"GO:0001825","count":2}]},{"hash":"982403850726185718","title":"Developmental morphogenesis and neural connectivity","description":"This cluster centers on embryonic development and neural connectivity. Terms span embryonic body morphogenesis, heart development, and vaginal development, alongside collagen fibril organization and homophilic cell\u2011cell adhesion, indicating extracellular matrix remodeling and cell adhesion during tissue formation. Neural-specific processes appear: synapse organization, trans-synaptic signaling, chemorepulsion in olfactory bulb interneuron migration, and myelination, all pointing to neural circuit formation. Smoothened signaling ties Hedgehog pathways to developmental patterning. Taken together, these proteins likely coordinate developmental morphogenesis and neural connectivity across tissues.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060068","count":3},{"id":"GO:0007156","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0007224","count":3},{"id":"GO:0099557","count":3}]},{"hash":"2289571864265658709","title":"Drosophila developmental morphogenesis","description":"The GO terms cluster around developmental processes and morphogenesis, including gastrulation, eye development, and EMT, with regulatory signaling via TGF-beta/SMAD pathways and transcriptional regulation. Several terms point to Drosophila-specific developmental events (germarium germ-line cyst encapsulation, egg chamber stalk formation), suggesting a cohesive theme of developmental regulation and tissue morphogenesis in this organism.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0046621","count":3},{"id":"GO:0001702","count":3},{"id":"GO:0030708","count":3},{"id":"GO:0030713","count":3}]},{"hash":"1774776302162772942","title":"Telomere and heterochromatin formation","description":"The enriched GO terms point to chromatin silencing and heterochromatin maintenance at telomeres and rDNA, including subtelomeric and silent mating-type locus heterochromatin formation, plus related regulation of chromosome-associated processes. Additional terms like DNA-templated transcription and regulation of the cell cycle suggest coordination between chromatin state and transcription/cell-cycle events. Some terms (e.g., apoptotic signaling, lymphangiogenesis) appear ancillary, but the core pattern is chromatin/heterochromatin maintenance at telomeric and related regions.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030466","count":3},{"id":"GO:0033128","count":3},{"id":"GO:0072332","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0001946","count":2}]},{"hash":"867571674518926495","title":"DNA replication, repair, and recombination","description":"The top GO terms cluster around DNA-centric processes: replication, primer synthesis, repair, and recombination, plus plasmid maintenance and helicase activity regulation. This points to a cohesive module of DNA maintenance and genome rearrangement, with a few outlier terms likely due to annotation noise (e.g., immune differentiation). Overall, the proteins seem to function together in DNA replication/repair and related recombination and plasmid-associated activities.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":1},{"id":"GO:0006281","count":1},{"id":"GO:0051096","count":1},{"id":"GO:0006276","count":1},{"id":"GO:0006269","count":1}]},{"hash":"762900820935953186","title":"mRNA Splicing and Processing","description":"The top GO terms cluster around spliceosome-mediated mRNA processing (alternative splicing, splice site recognition, spliceosome assembly) and other post-transcriptional regulation steps (mRNA export, stabilization, miRNA-mediated silencing). Although a term related to small-subunit processome assembly appears, the dominant theme is RNA maturation and splicing control, justifying this label.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000380","count":3},{"id":"GO:0001825","count":3},{"id":"GO:0075525","count":3},{"id":"GO:0035278","count":3},{"id":"GO:0048026","count":3}]},{"hash":"287928285571322135","title":"Hypoxia-responsive translational initiation and protein trafficking","description":"This cluster centers on regulation of translation initiation and preinitiation complex formation, coupled with mRNA transport and ER-to-Golgi vesicle transport, pointing to coordinated control of protein synthesis and processing. The presence of hypoxia response and proliferation/kinase-related terms suggests signaling that links translation control to growth and stress responses, under hypoxic conditions. Confidence: Medium","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0008284","count":2},{"id":"GO:0051028","count":2}]},{"hash":"2096590731040371105","title":"Muscle and Neural Signaling","description":"The top GO terms cluster around muscle development (skeletal muscle fiber development; cardiac hypertrophy regulation) and neural communication/development (excitatory postsynaptic potential; dendrite morphogenesis; calcium ion detection), with a few broader metabolic or stress-response terms. This suggests a theme of coordinated muscle and neural signaling and development, despite some non-specific terms.","confidence":"Medium","size":7,"edges":7,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006730","count":2},{"id":"GO:1903244","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0050774","count":2},{"id":"GO:0048741","count":2}]},{"hash":"836011881136445656","title":"Actin Cytoskeleton Remodeling","description":"The top GO terms are dominated by actin dynamics\u2014polymerization/depolymerization, Arp2/3-mediated nucleation, and filament bundle assembly\u2014suggesting a cohesive theme of actin cytoskeleton remodeling. Some terms reflect developmental morphogenesis or other biology, but the core signal points to cytoskeletal rearrangements regulating cell shape and movement.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006284","count":2},{"id":"GO:0010801","count":2},{"id":"GO:0007396","count":2},{"id":"GO:0048148","count":2},{"id":"GO:2000601","count":2}]},{"hash":"1667822840238918568","title":"Ribosome biogenesis and tRNA charging","description":"This cluster centers on translation machinery: ribosome assembly/biogenesis and tRNA aminoacylation (glutamyl, glutaminyl, prolyl), plus tRNA modification, consistent with GO terms for translation and ribosomal subunit biogenesis. A few neural development terms appear incidental, not defining the core function.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:1903955","count":2},{"id":"GO:0006400","count":1},{"id":"GO:0007420","count":1},{"id":"GO:0006425","count":1}]},{"hash":"1936365538443150894","title":"Unknown","description":"The GO terms in this cluster are heterogeneous, covering cellular stress responses (fatty acid, ROS, hypoxia), apoptosis signaling, immune and drug response, development (placenta), and even plant-specific signaling, with no single clear, shared function dominating the set. This lack of a unifying theme makes a precise label impractical.","confidence":"","size":7,"edges":10,"triangles":0,"max_degree":5,"top_function":"protein folding","top_go_terms":[{"id":"GO:0071398","count":3},{"id":"GO:0072332","count":3},{"id":"GO:0071353","count":3},{"id":"GO:0034614","count":3},{"id":"GO:0010105","count":3}]},{"hash":"810427966037317598","title":"DNA replication and telomere maintenance","description":"The cluster is dominated by GO terms for DNA replication, DNA repair, telomere capping, telomere maintenance, and protein localization to telomeres, pointing to a core theme of genome integrity and telomere biology. Some mitochondrial tRNA aminoacylation terms appear, suggesting additional RNA-processing or dual-localization roles, but the central signal centers on replication and telomere maintenance.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006281","count":4},{"id":"GO:0002101","count":4},{"id":"GO:0070154","count":4},{"id":"GO:0016233","count":4}]},{"hash":"1812236893734536108","title":"Neural migration and synapse assembly","description":"The prominent GO terms point to neuronal development and wiring: tangential migration to the olfactory bulb, interneuron migration guidance, and postnatal chemorepulsion, alongside cell adhesion and ECM organization (homophilic adhesion, collagen fibril organization, receptor clustering) and synaptic maturation (neurotransmitter secretion, positive regulation of synapse assembly). Together these indicate a coherent module of proteins guiding neuronal migration and establishing synapses. Confidence: High","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0007269","count":2},{"id":"GO:0071672","count":2},{"id":"GO:0021836","count":2}]},{"hash":"552356206921859568","title":"Lung branching morphogenesis and ECM remodeling","description":"The cluster is dominated by GO terms related to lung development and airway branching (epithelial tube branching in lung morphogenesis; dichotomous subdivision of terminal units involved in lung branching) and extracellular matrix remodeling (basement membrane disassembly; collagen catabolic process), suggesting proteins specialized for remodeling the ECM during lung morphogenesis. Other hormonal or tissue remodeling terms appear less central but do not override this core theme.","confidence":"High","size":7,"edges":12,"triangles":8,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0097067","count":7},{"id":"GO:0034769","count":7},{"id":"GO:0035593","count":7},{"id":"GO:0060448","count":7},{"id":"GO:0045453","count":7}]},{"hash":"1557204221143658048","title":"Drosophila morphogenesis and growth regulation","description":"The GO terms cluster around developmental growth control and tissue morphogenesis in Drosophila, including negative regulation of organ growth, imaginal disc\u2013derived wing hair orientation, tracheal tube size regulation, and glial blood-brain barrier establishment. Additional terms point to adhesion and signaling processes (focal adhesion assembly, TGF-beta response) and neuronal excitability, indicating a cohesive theme of development, patterning, and tissue organization rather than a single pathway.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0046621","count":6},{"id":"GO:0060857","count":5},{"id":"GO:0048041","count":5},{"id":"GO:0035321","count":5},{"id":"GO:0098902","count":5}]},{"hash":"1239220142586205541","title":"Neural development and axon guidance","description":"Most of the terms point to neuronal differentiation, nerve maturation, olfactory nerve formation, and axon guidance signaling, as well as presynaptic membrane organization, which together suggest a role in neuronal connectivity and synapse formation. Immune-related terms (neutrophil clearance; antibody-dependent cellular cytotoxicity) are present but appear less representative of the core cluster theme, and a few terms like calcium transport and sarcomere organization may reflect broader cellular roles or annotation noise. Overall, the dominant theme is neural development and axon guidance.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0097350","count":3},{"id":"GO:0070588","count":2},{"id":"GO:0021859","count":2},{"id":"GO:0001788","count":2},{"id":"GO:0021682","count":2}]},{"hash":"207506669201817287","title":"Developmental and Hormonal Responses","description":"These proteins show GO terms tied to broad developmental processes (multicellular organism development, camera-type eye development, root hair cell development, regulation of ovarian follicle development) together with hormone-related responses (response to prolactin, response to steroid hormone). Some terms also reflect developmental regulation of cells and immune-related processes. The combination points to a general theme of development influenced by hormonal signals rather than a single specific pathway, hence a broad developmental/hormonal cluster.","confidence":"Low","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":1},{"id":"GO:1990637","count":1},{"id":"GO:0045471","count":1},{"id":"GO:0033087","count":1},{"id":"GO:2000354","count":1}]},{"hash":"484067200168642850","title":"Circadian and sensory dopaminergic neuronal signaling","description":"The top terms indicate circadian regulation of sleep/wake, startle response, inner ear receptor development, and dopaminergic synaptic transmission, with calcium and potassium ion transport underpinning neuronal activity, suggesting a cluster of circadian-influenced sensory neuron signaling with dopaminergic modulation.","confidence":"Medium","size":7,"edges":11,"triangles":7,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045188","count":6},{"id":"GO:0001964","count":6},{"id":"GO:0098703","count":6},{"id":"GO:0071805","count":6},{"id":"GO:0043200","count":4}]},{"hash":"1398176704924824781","title":"Immune tolerance and endosomal trafficking","description":"The cluster centers on immune regulation, with terms like positive regulation of tolerance induction to self antigen and positive regulation of B cell tolerance induction. It also includes related inflammatory responses (mast cell cytokine production, response to wounding) and cellular processes tied to receptor turnover and endosomal transport. A couple of terms (vagina development, tricuspid valve morphogenesis) are developmental outliers, likely noise or pleiotropic annotations, but the dominant signal points to immune tolerance regulation coupled with intracellular trafficking. ","confidence":"Medium","size":7,"edges":12,"triangles":6,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0002651","count":6},{"id":"GO:0060068","count":6},{"id":"GO:0032801","count":6},{"id":"GO:0009611","count":6},{"id":"GO:0032762","count":6}]},{"hash":"712991122183841230","title":"SNARE-Mediated Vesicle Trafficking in Neurons","description":"The terms cluster around vesicle transport and fusion processes (SNARE complex assembly, intra-Golgi and endosome transport, vesicle fusion with vacuole, protein localization to plasma membrane) and neuronal signaling (positive regulation of spontaneous neurotransmitter secretion, long-term synaptic potentiation). Together they point to SNARE-mediated vesicle trafficking and neurotransmitter release in neurons.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035493","count":2},{"id":"GO:1904050","count":2},{"id":"GO:0006891","count":2},{"id":"GO:2000010","count":2},{"id":"GO:0045022","count":2}]},{"hash":"1153406762464456638","title":"Developmental transcription and nucleotide metabolism","description":"This cluster is centered on DNA-templated transcription and nucleotide-related processes (AMP salvage, nucleotide phosphorylation, ADP biosynthesis) and includes vesicle-mediated transport, with brain and liver development terms suggesting roles in developmental gene expression and cellular metabolism. The mixture points to a cohesive theme around transcriptional activity during development coupled with nucleotide metabolism and trafficking.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0016192","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0001889","count":1},{"id":"GO:0046940","count":1}]},{"hash":"319016707197243878","title":"Cell adhesion and ECM signaling","description":"This cluster centers on cell adhesion and extracellular matrix interactions, with GO terms like integrin-mediated signaling, heterotypic cell-cell adhesion, cellular extravasation, and hyaluronan metabolism, pointing to adhesion/ECM engagement. Some unrelated terms appear (chlorophyll biosynthesis, stamen formation, etc.), likely noise, but the adhesion/ECM theme dominates.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":5},{"id":"GO:0015995","count":5},{"id":"GO:0048455","count":5},{"id":"GO:0043248","count":5},{"id":"GO:0006511","count":5}]},{"hash":"163653654499778687","title":"Calcium signaling and cellular regulation","description":"The top non-obsolete term points to calcium signaling (release of sequestered calcium into cytosol), suggesting a calcium-dependent signaling theme. Other terms reflect broad regulatory processes (pinocytosis, chemokine production, foam cell differentiation, multicellular processes, heart muscle communication, and growth), indicating a mix of signaling and general cellular regulation rather than a single cohesive pathway. Therefore, the label emphasizes calcium signaling as a representative function within a broader regulatory context.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001275","count":3},{"id":"GO:0010745","count":2},{"id":"GO:2000340","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0051209","count":2}]},{"hash":"736623865152502746","title":"Notch-regulated cardiac and vascular development","description":"The top GO terms converge on Notch signaling and cardiovascular development, including regulation and suppression of Notch activity, Notch involvement in secondary heart field cardioblast proliferation, cardiac right atrium morphogenesis, and venous endothelial cell differentiation. This suggests a cohesive theme of Notch-driven heart and blood vessel formation, with a few peripheral terms such as spinal cord development and vitamin D response.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071901","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0003270","count":3},{"id":"GO:0003213","count":3},{"id":"GO:0033280","count":3}]},{"hash":"1415634290357544249","title":"Developmental Signaling and Vesicle Trafficking","description":"The cluster combines terms tied to tissue development (angiogenesis, skin development, myoblast fusion) with signaling and vesicle dynamics (synaptic vesicle exocytosis, calcium response, PI-mediated signaling, protein autoprocessing), suggesting a role in coordinating development via vesicle trafficking and calcium signaling.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0007269","count":4},{"id":"GO:0043065","count":4},{"id":"GO:0030948","count":4},{"id":"GO:2000300","count":4}]},{"hash":"1856839809595098305","title":"Ubiquitin-dependent cell-cycle proteolysis","description":"The cluster centers on ubiquitin-mediated proteolysis and cell-cycle control, highlighted by SCF-dependent proteasomal degradation, K11-linked ubiquitination, and APC/C-dependent catabolic processes, along with spindle assembly checkpoint regulation. These pathways govern chromosomal events, chromatin organization, and DNA repair during division, and can influence stress responses and apoptosis. Some terms (sarcomere organization, synaptic plasticity) are less directly linked but do not negate the core theme of proteostasis-linked cell-cycle regulation.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":2},{"id":"GO:0051260","count":2},{"id":"GO:1902426","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0031915","count":2}]},{"hash":"1746826067575088432","title":"Dendritic spine signaling and synaptic regulation","description":"The top GO terms are dominated by neuronal and synaptic processes: excitatory postsynaptic potential, regulation of dendritic spine morphogenesis, ERK/JNK signaling cascades, and cellular response to dopamine, all pointing to modulation of synaptic signaling and spine dynamics. A few terms touch on non-neuronal processes, but the majority suggest a cohesive theme around neurons and synaptic regulation, especially spine remodeling and downstream kinase signaling. Overall, this cluster appears to represent neuronal signaling with a focus on dendritic spines and synaptic plasticity.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":7},{"id":"GO:0060079","count":7},{"id":"GO:0097498","count":7},{"id":"GO:0061001","count":7},{"id":"GO:0046330","count":7}]},{"hash":"424111631461184838","title":"Steroid hormone and lipid metabolism","description":"The cluster shows enrichment in GO terms related to steroid hormone biosynthesis and metabolism (glucocorticoid biosynthetic process, androgen and C21-steroid hormone metabolic processes) and lipid-related pathways (methyl-branched fatty acid biosynthesis, propylene catabolic process). While there are outliers related to retinal/metabolic pigment processes, the dominant pattern ties to steroidogenesis and lipid metabolism, suggesting proteins involved in hormone-related lipid pathways.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030324","count":2},{"id":"GO:0042574","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0008209","count":2},{"id":"GO:0042208","count":2}]},{"hash":"795060688859517170","title":"Microtubule Assembly and Proteostasis","description":"GO terms cluster around tubulin complex assembly and microtubule organization, plus protein folding and chaperone-mediated quality control, suggesting a unified theme of microtubule assembly with proteostasis; a few other terms appear less central to this core function.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007021","count":2},{"id":"GO:0043622","count":1},{"id":"GO:0071629","count":1},{"id":"GO:0006457","count":1},{"id":"GO:0051131","count":1}]},{"hash":"1624107643208442934","title":"Neuronal development and signaling","description":"This cluster is dominated by GO terms linked to neural development and neurotransmission, such as brain development, neurotransmitter secretion, and neuropeptide\u2013related signaling. Additional terms point to cytoskeletal regulation (Rho signaling) and centrosome-related processes (centriole elongation), which support neuronal growth and function, while other terms (ribosomal transcription, insulin secretion) may reflect broader cellular readiness and metabolic coordination in neural cells. Overall, the shared theme is neuronal development and signaling rather than a single tightly focused process.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060963","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0009395","count":2},{"id":"GO:0061511","count":2},{"id":"GO:0035773","count":2}]},{"hash":"450791910912894360","title":"Neural development and cell-cell adhesion","description":"This cluster's top GO terms strongly point to neural development, including brain and inner ear development, neuronal stem cell maintenance, and locomotory behavior. The presence of cadherin-mediated and homophilic cell-cell adhesion terms suggests these proteins may function in neural tissue architecture and connectivity. A few immune (marginal zone B cell differentiation) and lipid signaling terms appear, but the neural-development and adhesion terms are dominant, supporting a neural development and cell adhesion theme.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0048839","count":3},{"id":"GO:0007626","count":3},{"id":"GO:0097150","count":2},{"id":"GO:0002315","count":2}]},{"hash":"208646391364234449","title":"Organogenesis and Tissue Development","description":"Dominant GO terms point to development of multiple tissues and organs (palate, spinal cord, retina, muscle, ureteric bud, uterus), with transcription regulation terms providing context; the unifying theme is embryonic organogenesis across tissues.","confidence":"High","size":7,"edges":9,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":7},{"id":"GO:0000122","count":5},{"id":"GO:0006366","count":5},{"id":"GO:0014807","count":4},{"id":"GO:0035847","count":4}]},{"hash":"515277581733502860","title":"Developmental Signaling and Morphogenesis","description":"These proteins show a coherent theme around development and tissue morphogenesis, with GO terms for Wnt signaling, liver development, oocyte localization, somitogenesis regulation, and morphogenesis of structures like the aorta. The mix with transcription regulation and splicing suggests involvement in gene-expression programs underlying developmental processes. Despite no observed interactions in this cluster, the shared developmental functions provide a sensible, specific label.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":3},{"id":"GO:0030720","count":3},{"id":"GO:0016055","count":3},{"id":"GO:0045944","count":3},{"id":"GO:0000398","count":2}]},{"hash":"950388032524695648","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0000209","count":4},{"id":"GO:0060386","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0008285","count":3}]},{"hash":"1401510857538407437","title":"Carbohydrate catabolism and nucleotide salvage","description":"Most terms cluster around sugar metabolism and energy salvage (glycolysis through fructose-6-phosphate, tagatose-6-phosphate\u2013driven lactose catabolism, and carbohydrate phosphorylation) plus nucleotide salvage (adenosine and AMP) and cofactor biosynthesis (thiamine diphosphate). This points to a coherent theme of carbohydrate catabolism with nucleotide energy recycling, though one outlier term on phosphatidylcholine regulation is less central.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:2001246","count":2},{"id":"GO:0061615","count":1},{"id":"GO:0016310","count":1},{"id":"GO:0044209","count":1},{"id":"GO:0019512","count":1}]},{"hash":"2249827363639781318","title":"p53-Driven DNA Damage Response and Translation Regulation","description":"The terms cluster around ribosome biogenesis and translation (ribosomal subunit biogenesis, translation, cytosolic ribosome assembly, regulation of translation) and stress/damage signaling (cellular response to UV, cellular response to gamma radiation) tied to p53-mediated pathways (DNA damage response, transcription of p21, apoptotic signaling). This suggests a coherent module where DNA damage stress interfaces with control of protein synthesis and ribosome biogenesis, directed by p53. ","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042273","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0006977","count":1},{"id":"GO:1902164","count":1},{"id":"GO:0034644","count":1}]},{"hash":"1283163937589906410","title":"Caloric restriction\u2013related chromatin regulation and adipogenesis","description":"The cluster shows a strong pattern of epigenetic regulation (peptidyl-lysine deacetylation, histone deacetylation, rDNA heterochromatin formation) together with metabolic stress responses (cellular response to caloric restriction, behavioral response to starvation) and adipose tissue development, suggesting that caloric signals modulate gene expression via chromatin changes to drive adipogenesis. Some terms related to signaling and immune response are present but do not outweigh the central theme.","confidence":"High","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2000480","count":4},{"id":"GO:0048012","count":4},{"id":"GO:2000655","count":4},{"id":"GO:0034983","count":4},{"id":"GO:1990678","count":4}]},{"hash":"63085419770146598","title":"Chromosome maintenance and meiotic cell cycle","description":"This cluster\u2019s strongest signals are DNA repair and chromosome segregation: positive regulation of double-strand break repair via nonhomologous end joining, protein localization to kinetochore, and meiotic cell cycle. Additional terms like cell-cell adhesion and neuron differentiation are more divergent and may reflect broader roles or annotation noise, but the core theme centers on chromosome maintenance and meiosis. ","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:2001034","count":6},{"id":"GO:0098609","count":6},{"id":"GO:0051321","count":6},{"id":"GO:0034501","count":6},{"id":"GO:1903244","count":6}]},{"hash":"1723574152669529165","title":"Vertebrate Embryonic Development and Organogenesis","description":"The top GO terms point to broad developmental processes across multiple organs in vertebrates\u2014gastrulation (primitive streak formation), segmentation (somitogenesis), and neural development (peripheral nervous system and spinal cord), along with organ formation in the heart, muscle, retina, and kidney (ureteric bud). The presence of a transcriptional regulation term likely reflects gene control during these developmental programs. Together, these terms define a cohesive theme of embryonic development and organogenesis.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0090009","count":5},{"id":"GO:0048935","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0014807","count":3}]},{"hash":"229807333277758977","title":"Mitotic Cell Cycle and Mitochondrial Import","description":"This cluster is dominated by cell cycle and mitosis-related terms (cell division, establishment of mitotic spindle orientation, and cell cycle) indicating a mitotic/functionally related group. The presence of mitochondrial intermembrane space protein import and pore complex assembly suggests coordination with organelle transport machinery, while telomere localization and protein stabilization terms point to chromosome maintenance aspects that tie into cell division. Overall, a unified theme around mitosis and associated protein localization/transport processes fits best, with some ancillary signals.","confidence":"Medium","size":6,"edges":12,"triangles":10,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0000132","count":3},{"id":"GO:0060416","count":2},{"id":"GO:0007049","count":2},{"id":"GO:1904851","count":2}]},{"hash":"402619039582664889","title":"Developmental differentiation across tissues","description":"The GO terms center on differentiation and development across different tissues (muscle, heart valve, nerve, melanocytes, renal fibroblasts) and include processes like myoblast fusion, skeletal muscle differentiation, and myelination, suggesting a unifying theme of tissue-specific differentiation programs during development.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0014908","count":6},{"id":"GO:2000793","count":6},{"id":"GO:0061103","count":6},{"id":"GO:0021557","count":6},{"id":"GO:0030318","count":6}]},{"hash":"692705273523231915","title":"Plant cell wall glycan biosynthesis and protein glycosylation","description":"The top GO terms cluster around plant-specific carbohydrate biosynthesis, including plant-type secondary cell wall biogenesis, glucuronoxylan and homogalacturonan biosynthesis, and mucilage production, as well as protein O-linked glycosylation via mannose. Additional terms involve general carbohydrate metabolism (galactose, glycogen) and RNA modification, but the strongest signal is plant cell wall and glycan biosynthesis, suggesting proteins in this cluster function in assembling or modifying cell wall glycans and related glycosylation pathways.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000455","count":1},{"id":"GO:0031119","count":1},{"id":"GO:0009834","count":1},{"id":"GO:0010417","count":1},{"id":"GO:0006012","count":1}]},{"hash":"109021899922754660","title":"DNA replication and chromatin assembly under oxidative stress","description":"The dominant GO terms point to genome maintenance: DNA replication, CENP-A chromatin assembly, and cellular response to oxidative stress, with supporting signals of proteasomal protein turnover. While mitochondrial import and SNARE disassembly are present, they may reflect broader stress-related protein handling and trafficking rather than core function. Overall, the cluster seems centered on preserving genome integrity under stress and coordinating protein quality control.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0034599","count":3},{"id":"GO:1901800","count":3},{"id":"GO:1903007","count":3},{"id":"GO:0061641","count":3}]},{"hash":"1400056422779997072","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":10,"triangles":7,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0070935","count":2},{"id":"GO:0033129","count":2},{"id":"GO:0018279","count":1},{"id":"GO:0002651","count":1}]},{"hash":"973679665482483777","title":"TORC1 signaling and ER-Golgi trafficking","description":"The top GO terms center on TORC1 signaling and growth-related processes (multicellular organism growth, spinal cord development, cell population proliferation) and on intracellular transport within the secretory pathway (ER-Golgi and Golgi-lysosome trafficking, mRNA transport, and related phospho-regulatory steps). This suggests a cluster tied to growth regulation coupled with secretory pathway trafficking, rather than a narrow single-function group. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038202","count":3},{"id":"GO:0035264","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0045945","count":2},{"id":"GO:0008283","count":2}]},{"hash":"504788104076040010","title":"Large subunit ribosome biogenesis","description":"The top GO terms cluster around maturation and assembly of the large ribosomal subunit and preribosome biogenesis, indicating a core ribosome biogenesis role. A couple of terms related to NF-kappaB regulation appear, which may reflect multifunctionality or annotation noise rather than defining the cluster\u2019s primary function; unrelated terms (cocaine response, dorsal opening) seem incidental. Therefore, the most representative label is Large subunit ribosome biogenesis.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0000463","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0042255","count":1}]},{"hash":"1028357503843488881","title":"Spliceosome-driven RNA processing","description":"Most terms center on RNA processing and splicing (spliceosome-mediated mRNA splicing and regulation of mRNA binding) with an additional signal for mitochondrial mRNA polyadenylation, suggesting a spliceosome/RNA metabolism cluster. Some outlier terms touch neuronal development and host-virus RNA interactions, but the dominant theme is RNA maturation.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0048024","count":5},{"id":"GO:0000398","count":5},{"id":"GO:0097222","count":4},{"id":"GO:0044830","count":4},{"id":"GO:0010323","count":4}]},{"hash":"241366216096608205","title":"Innate Immune Signaling and Lymphangiogenesis","description":"Based on the GO terms, the proteins appear coordinated around innate immune recognition and signaling (complement activation via the lectin pathway; stimulatory C-type lectin receptor signaling; phagocytosis recognition). The inclusion of lymph vessel morphogenesis points to a link between immune signaling and lymphatic development/remodeling. While a few terms reference broader development (e.g., cartilage condensation, metanephric development), the strongest shared theme is innate immune signaling coupled with lymphatic-related processes, supporting a medium-confidence interpretation of this cluster\u2019s function.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036303","count":2},{"id":"GO:0090238","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0090403","count":2},{"id":"GO:0006910","count":2}]},{"hash":"983889249507898715","title":"Mitochondrial metabolism, dynamics, and quality control","description":"This cluster centers on mitochondrial processes: mitophagy, mitochondrial membrane fission, iron import, and ATP transport, plus responses to fatty acids, oxidative stress, and amino acid starvation, all of which point to mitochondria-focused energy metabolism, dynamics, and quality control.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000422","count":1},{"id":"GO:0048250","count":1},{"id":"GO:1990845","count":1},{"id":"GO:0090149","count":1},{"id":"GO:0070542","count":1}]},{"hash":"1560027726320541593","title":"Cellular stress and inflammatory signaling","description":"The top GO terms point to a cluster enriched for stress- and inflammation-related processes, including translation, responses to stressors like cycloheximide and antibiotics, lipopolysaccharide signaling, NF-kappaB signaling, autophagy, anti-apoptotic regulation, and PI3K/AKT signaling, with a downstream link to angiogenesis. This suggests a cohesive theme around cellular stress responses and inflammatory/survival signaling, rather than a single isolated function.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0035948","count":2},{"id":"GO:0046898","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0043066","count":1}]},{"hash":"416946765520667113","title":"Neuronal calcium signaling and vesicle trafficking","description":"The GO terms converge on ion transport (potassium, sodium, copper), calcium regulation (ER Ca2+ concentration, release from Golgi), and membrane trafficking (Golgi vesicle budding, endocytosis), with supporting neuronal features such as neurofilament cytoskeleton organization and inner ear receptor cell development. This suggests a cohesive theme around calcium signaling coupled with vesicle trafficking in neuronal contexts.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046272","count":2},{"id":"GO:1990573","count":2},{"id":"GO:0032470","count":2},{"id":"GO:0060052","count":2},{"id":"GO:0048194","count":2}]},{"hash":"1489002932753095900","title":"Neuronal development and synapse formation","description":"This cluster is dominated by GO terms related to neurons and synapses, including pyramidal neuron differentiation, nerve maturation, semaphorin-plexin signaling for axon guidance, and presynaptic membrane organization, which together point to neural development and synaptic assembly. Some terms (metabolic, spliceosome, immune) appear but are likely noise or multifunctionality, while the neuron-related terms provide the core theme.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009236","count":1},{"id":"GO:0006779","count":1},{"id":"GO:0006580","count":1},{"id":"GO:0000388","count":1},{"id":"GO:0010226","count":1}]},{"hash":"851674439986002292","title":"Mitochondrial respiration and translation regulation","description":"Top GO terms point to mitochondrial energy production: respiratory electron transport chain, complex IV assembly, and negative regulation of mitochondrial translation. Although few proteins are annotated with these terms, they all relate to mitochondrial function, particularly oxidative phosphorylation and coordination with mitochondrial translation, suggesting the cluster captures mitochondrial respiratory processes.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022904","count":1},{"id":"GO:0033617","count":1},{"id":"GO:0070130","count":1}]},{"hash":"1504943410173668163","title":"Neural development and ER-stress\u2013induced apoptosis","description":"This cluster centers on nervous system development and cell differentiation, with strong signals for neuronal and glial apoptotic processes and intrinsic ER-stress\u2013mediated apoptotic pathways. The presence of calcium release from ER/SR and cytokine regulation hints at interconnected signaling between neural development, apoptosis, and inflammatory responses. Overall, the proteins appear to function together in neural development with controlled apoptosis under ER stress.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0035234","count":2},{"id":"GO:0051402","count":2},{"id":"GO:0070059","count":2},{"id":"GO:0030154","count":2}]},{"hash":"1006580109523627983","title":"Microtubule Dynamics and Spindle Assembly","description":"The cluster is dominated by GO terms related to microtubule behavior and mitotic spindle processes\u2014meiotic spindle orientation, mitotic metaphase chromosome recapture, plus-end microtubule depolymerization, centrosome separation, and regulation of microtubule-based processes\u2014along with related processes like actomyosin ring assembly and plus-end-directed vesicle transport along microtubules. A neuron projection maintenance term suggests broader microtubule roles in neurons, but the core theme remains microtubule dynamics governing spindle organization and intracellular transport.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051296","count":6},{"id":"GO:1990942","count":6},{"id":"GO:0070462","count":6},{"id":"GO:0007100","count":6},{"id":"GO:0032886","count":6}]},{"hash":"1878595371119876057","title":"Fungal Cell Wall Biosynthesis and Stress Response","description":"The strongest signals are fungal-type beta-glucan biosynthesis and related cell morphogenesis, unfolded protein response, and heat-stress signals, plus membrane targeting, which together point to a theme of coordinating fungal cell wall construction with protein quality control under stress; other terms like DNA replication and iron-sulfur cluster assembly are present but less central to this core function.","confidence":"Medium","size":6,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0000902","count":6},{"id":"GO:0070880","count":5},{"id":"GO:0031204","count":5},{"id":"GO:1902037","count":5}]},{"hash":"1704340395301830965","title":"Chromatin modification and transcription regulation","description":"The top GO terms center on histone methylation (H3-K79, H3-K4), DNA-templated transcription, and deubiquitination/ubiquitin processing, suggesting a nuclear role in chromatin regulation and gene expression control. While a few peripheral terms touch on skin development and defense responses, the dominant signals point to chromatin modification and transcriptional regulation as the cluster\u2019s core theme. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034729","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0051568","count":4},{"id":"GO:0050830","count":3},{"id":"GO:0043588","count":3}]},{"hash":"6959464111003015","title":"Transcription Regulation and Chromatin Modification","description":"This cluster shows enrichment for DNA-templated transcription and chromatin-related processes (including histone H3-K36 demethylation and other histone/hydroxylation modifications), along with regulatory roles in signaling and development (Notch signaling, vasculogenesis, and myoblast differentiation). The common theme is modulation of gene expression and chromatin state during developmental processes, rather than a single catalytic pathway. ","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030961","count":2},{"id":"GO:0045746","count":2},{"id":"GO:0070544","count":2},{"id":"GO:2001214","count":2},{"id":"GO:0036138","count":2}]},{"hash":"2095674413172109559","title":"Developmental signaling and differentiation","description":"The proteins in this cluster are linked to developmental processes (asymmetric cell division, fat cell and chondrocyte development) and a variety of signaling pathways (opsin, tachykinin receptor, leukotriene), with a phosphorylation event suggesting active signal transduction; together these terms point to roles in developmental signaling and cell fate decisions.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0010070","count":1},{"id":"GO:0045444","count":1},{"id":"GO:0060394","count":1},{"id":"GO:0018107","count":1},{"id":"GO:0022400","count":1}]},{"hash":"673173355406473668","title":"Developmental signaling and cell adhesion","description":"This cluster centers on developmental processes (heart and hippocampus development) and key signaling pathways (EGFR, GPCR acetylcholine signaling), with several adhesion-related terms (tight junction assembly, substrate-induced cell spreading). While apoptosis-related terms appear, the dominant theme is broad developmental signaling coupled with cell adhesion. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0043552","count":2},{"id":"GO:0043652","count":2},{"id":"GO:0034260","count":2},{"id":"GO:0007213","count":2}]},{"hash":"159792926646019897","title":"Unknown","description":"The top GO terms span chlorophyll biosynthesis, stamen formation, proteasome assembly, ubiquitin-dependent protein degradation, and RNA polymerase I\u2013related transcription and nucleotide-excision repair, which are diverse and not tied to a single clear function. With no edges connecting the proteins and little overlap among the terms, there isn\u2019t a coherent theme to label a specific cluster function.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015995","count":2},{"id":"GO:0048455","count":2},{"id":"GO:0043248","count":2},{"id":"GO:0006511","count":2},{"id":"GO:0006361","count":1}]},{"hash":"1203053583385983705","title":"Calcium-regulated signaling and platelet activation","description":"This cluster is dominated by GO terms centered on calcium signaling (positive regulation of calcium-mediated signaling; calcium release into the cytosol) and platelet activation, with concurrent mentions of PI3K/AKT signaling regulation and receptor internalization, suggesting a cohesive theme of calcium-dependent signaling linked to platelet/immune responses. Some terms (e.g., collagen biosynthesis regulation, cell-cycle\u2013related processes) are peripheral but can connect to signaling networks or platelet\u2013ECM interactions, reinforcing a calcium- and signaling-focused cluster.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050850","count":2},{"id":"GO:0031623","count":2},{"id":"GO:0032760","count":2},{"id":"GO:0008360","count":2},{"id":"GO:0030168","count":2}]},{"hash":"12610268103132935","title":"SA node and atrial conduction signaling","description":"The strongest GO signals are about SA node communication and regulation of SA node and atrial cardiac muscle cell action potentials, pointing to a cluster centered on cardiac electrical conduction. Some listed terms are related to other, more general processes, but the key theme is heart rhythm regulation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0086070","count":2},{"id":"GO:0098910","count":2},{"id":"GO:0098907","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0032088","count":2}]},{"hash":"1175438062496336273","title":"Developmental signaling and tissue homeostasis","description":"Top GO terms span development (kidney and nervous system development), cell cycle processes (cell division, mitotic cell cycle), and multiple signaling pathways (Hedgehog via smoothened, Roundabout, and T cell receptor signaling), plus membrane trafficking (endosome transport) and tissue homeostasis. This indicates proteins involved in coordinating growth, development, and signaling, rather than a single pathway, hence a label centering on developmental signaling with tissue homeostasis as a common theme.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0048227","count":2},{"id":"GO:0007224","count":2}]},{"hash":"1551235871315108219","title":"Ubiquitin-regulated adaptive immune signaling","description":"The proteins cluster around adaptive immune processes (adaptive immune response, B cell receptor signaling, TNF signaling) and ubiquitination pathways (K11-linked ubiquitination, ubiquitin-dependent protein catabolic processes), suggesting a shared role in modulating immune signaling via ubiquitination and proteolysis.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0070979","count":2},{"id":"GO:0051301","count":2}]},{"hash":"2105725428703417401","title":"Immune tolerance regulation and endosomal trafficking","description":"Top GO terms center on immune tolerance regulation (self antigen and B cell tolerance) and receptor trafficking (receptor catabolic process and endosome transport), suggesting a cohesive theme of immune tolerance with vesicular trafficking; a couple of developmental terms appear incidental.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0002651","count":6},{"id":"GO:0060068","count":6},{"id":"GO:0032801","count":6},{"id":"GO:0009611","count":6},{"id":"GO:0032762","count":6}]},{"hash":"1222313382951725823","title":"Ubiquitin-Dependent Protein Degradation and Signaling","description":"The top terms point to ubiquitination (autoubiquitination and K63-linked ubiquitination) and ubiquitin-dependent protein catabolic processes, indicating a core role in tagging and degrading proteins. Additional terms referencing NF-kappaB signaling and T cell receptor pathways suggest involvement in ubiquitin-mediated signaling and immune-related processes, making a label centered on ubiquitin-dependent degradation and signaling most representative.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0042787","count":2}]},{"hash":"2211225047364521723","title":"Immune signaling via BCR, STAT, MAPK","description":"Top GO terms indicate a focus on immune signal transduction, including B cell receptor signaling, STAT tyrosine phosphorylation, and regulation of ERK/MAPK cascades, along with innate immune response to muramyl dipeptide. Although a few terms touch on development or proliferation, the core is immune signaling and its regulation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042503","count":2},{"id":"GO:0042517","count":2},{"id":"GO:0031914","count":2},{"id":"GO:0060324","count":2},{"id":"GO:0010765","count":2}]},{"hash":"1687888906488068685","title":"Autophagy\u2013mitosis coordination","description":"This cluster shows a convergence of autophagy-related terms (macroautophagy, regulation of autophagy of mitochondrion, inclusion body assembly) with mitosis-related terms (mitotic spindle disassembly/assembly, sister chromatid biorientation, spindle regulation) and chromatin-related localization. The co-occurrence suggests proteins involved in balancing autophagic processes with spindle dynamics and chromosome organization during cell division, though some terms are more general (transcription/chromatin localization). Overall, a theme of coordinating autophagy with mitotic/chromosomal events best explains the set.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032511","count":2},{"id":"GO:0051228","count":2},{"id":"GO:1903146","count":2},{"id":"GO:0071169","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1975031309498196580","title":"Unknown","description":"The GO terms span DNA repair, immune tolerance regulation, development in multiple organs, endosome transport, and various stimulus responses, with no single shared function evident across the proteins. This makes a coherent label unreliable, so Unknown is chosen.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":6},{"id":"GO:0002651","count":5},{"id":"GO:0060068","count":5},{"id":"GO:0032801","count":5},{"id":"GO:0009611","count":5}]},{"hash":"419821678283193794","title":"Sperm-egg recognition and fertilization","description":"The top GO terms are strongly centered on gamete interaction: heterotypic cell-cell adhesion, sperm-egg recognition, fusion of sperm to egg plasma membrane during single fertilization, and single fertilization. This points to a cohesive role in gamete adhesion and fusion during fertilization. A few other terms (e.g., integrin regulation, opsin signaling, hypoxia response) are likely ancillary or reflective of broader cellular contexts given the small protein set.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034113","count":3},{"id":"GO:0035036","count":2},{"id":"GO:0007342","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0045113","count":1}]},{"hash":"1035752887221579061","title":"Developmental Regulation and Stress-Responsive Transcription","description":"These proteins point to a theme of transcriptional control linked to development and cellular stress. GO terms include DNA-templated transcription, mRNA export regulation in response to heat, and methylation processes, alongside development-related terms (retina development, skeletal morphogenesis) and stress/apoptosis signals (hypoxia response, glial cell apoptotic process, apoptotic regulation). The lack of interaction edges suggests a broad or indirect connection, best captured by a developmental and stress-responsive transcriptional regulation label. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051301","count":2},{"id":"GO:2001235","count":1},{"id":"GO:2000728","count":1}]},{"hash":"126836040303350200","title":"Neural development and spine morphogenesis","description":"The top terms include neural-related processes (dendritic spine morphogenesis and brain development) suggesting a neural-development theme. However, other terms span ubiquitin-mediated catabolism, apoptosis, hypoxia, hormone response, and keratinocyte differentiation, indicating a mixed set with no strongly cohesive function. Therefore, a neural-development label with moderate confidence.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006511","count":2},{"id":"GO:0060997","count":2},{"id":"GO:0006915","count":1},{"id":"GO:0060548","count":1},{"id":"GO:0007420","count":1}]},{"hash":"1185230141314545513","title":"Apoptosis and DNA Damage Response","description":"The GO terms cluster around both apoptotic signaling (mitochondrial and extrinsic pathways) and DNA damage responses (DNA repair, radiation response, and checkpoint signaling), with some meiotic checkpoint terms. This suggests a core function in coordinating cell fate decisions after DNA damage, through both intrinsic/extrinsic apoptosis and repair/checkpoint pathways. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051901","count":1},{"id":"GO:0090200","count":1},{"id":"GO:0097191","count":1},{"id":"GO:0000469","count":1},{"id":"GO:0006281","count":1}]},{"hash":"844728435073864800","title":"Complement activation and inflammatory response","description":"The term set is dominated by complement pathways (classical and alternative) and inflammatory-related terms, along with immunoglobulin-mediated immune response and apoptotic cell clearance. Minor terms touch on keratinocyte regulation, but the predominant signal is innate immune activation via the complement system leading to inflammation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":2},{"id":"GO:0006957","count":2},{"id":"GO:0010884","count":1},{"id":"GO:0045616","count":1},{"id":"GO:0016064","count":1}]},{"hash":"422995208580881670","title":"Neural development and GPCR signaling","description":"The top GO terms are dominated by neural development and signaling processes, notably cerebral cortex radially oriented cell migration, forebrain radial glial differentiation, tachykinin receptor signaling, and GPCR-related pathways. While a couple terms touch on metabolism or ovarian development, the overarching theme points to neural development and neuronal signaling.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030730","count":3},{"id":"GO:0030707","count":3},{"id":"GO:0033633","count":3},{"id":"GO:2000340","count":3},{"id":"GO:0050432","count":3}]},{"hash":"1235429014085651367","title":"Immune Signaling and Cell Survival Regulation","description":"This cluster centers on GO terms related to immune signaling (lipopolysaccharide-mediated signaling, NF-kappaB regulation), cell survival pathways (PI3K/AKT signaling, anti-apoptotic regulation, autophagy), and related processes like angiogenesis. While the interactions are sparse (no edges) and a couple terms are tangential (tight junction assembly), the common theme is regulation of inflammatory signaling and cell fate/survival pathways.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051897","count":2},{"id":"GO:0016573","count":2},{"id":"GO:0043066","count":1},{"id":"GO:0045766","count":1},{"id":"GO:0010508","count":1}]},{"hash":"2167607648771827475","title":"SUMOylation-Driven Stress Response and Development","description":"The top GO terms center on SUMO biology (positive regulation of protein sumoylation and autosumoylation), paired with transcription regulation and apoptosis-related processes (intrinsic apoptotic signaling in response to DNA damage and apoptotic chromosome condensation). The presence of development terms (urinary bladder development and brain development) suggests SUMOylation roles in developmental contexts. Overall, the cluster seems to reflect SUMO-mediated control of transcription and stress-induced apoptosis during development, though the diverse set of terms means the function is not entirely cohesive. ","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060157","count":3},{"id":"GO:2000721","count":2},{"id":"GO:1904333","count":2},{"id":"GO:1900239","count":2},{"id":"GO:0030263","count":2}]},{"hash":"85798090169634679","title":"Clathrin-mediated endocytosis and endosome transport","description":"This cluster is dominated by GO terms tied to clathrin-dependent endocytosis, receptor-mediated endocytosis regulation, and clathrin coat assembly, plus endosome-to-vacuole transport via multivesicular bodies. Although some terms touch on apoptosis, the core theme across the terms points to endocytic trafficking and maturation through the clathrin pathway, with possible links to amyloid-beta processing via endocytosis. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072583","count":2},{"id":"GO:0048260","count":2},{"id":"GO:0006915","count":2},{"id":"GO:1905445","count":2},{"id":"GO:1902004","count":2}]},{"hash":"2157165986919853427","title":"Glial apoptosis and brain development","description":"The top GO terms cluster around glial cell apoptotic processes and brain development, with additional signals tied to neural inflammatory pathways (cytokine production and dsRNA response). Even though there are no edges, the shared functions point to a neural development/apoptosis theme with inflammatory signaling involvement. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034349","count":1},{"id":"GO:0043525","count":1},{"id":"GO:0032755","count":1},{"id":"GO:0014808","count":1},{"id":"GO:0071560","count":1}]},{"hash":"663778285795531941","title":"Cadherin-Mediated Cell-Cell Adhesion","description":"The cluster is dominated by GO terms related to cell adhesion and junctions, especially cadherin-mediated adhesion, along with homophilic/heterophilic adhesion and junction organization. This points to proteins functioning in cadherin-based cell\u2013cell contacts, with the other terms reflecting context-specific roles in development or neural/immune tissues.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":5},{"id":"GO:0007156","count":4},{"id":"GO:0072006","count":4},{"id":"GO:0097150","count":3},{"id":"GO:0002315","count":3}]},{"hash":"1800792218155550235","title":"Heart and Vessel Morphogenesis with ECM Adhesion","description":"This cluster is driven by terms tied to development of heart and vessel structures (cardiac ventricle, aorta, and aortic valve morphogenesis) and by cell-ECM and cell-cell adhesion processes (cell-matrix adhesion; heterophilic cell-cell adhesion), with reinforcing ECM remodeling signals (hyaluronan biosynthetic regulation). Thyroid hormone generation may reflect broader developmental regulation but does not override the primary cardiovascular morphogenesis theme.","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0007160","count":5},{"id":"GO:0007157","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0006590","count":4},{"id":"GO:1900127","count":4}]},{"hash":"1843055557089463766","title":"Mitotic Cell Cycle Regulators","description":"This cluster\u2019s top GO terms center on mitosis and cell division (mitotic cell cycle, cell division, and positive regulation of mitotic metaphase/anaphase transition), suggesting a shared function in controlling progression through mitosis. The presence of ubiquitin-related processes (K11-linked ubiquitination) aligns with regulation of the cell cycle via proteolysis. Some terms appear obsolete or ancillary (e.g., histone methylation regulation, snoRNP/snoRNA assembly), indicating annotation noise, but the dominant theme remains cell-cycle\u2013related.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2001162","count":6},{"id":"GO:0050689","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0051301","count":6},{"id":"GO:1903071","count":6}]},{"hash":"1845109320518096149","title":"Innate Immune Activation and Leukocyte Migration","description":"This cluster is dominated by terms tied to innate immunity and cytokine production (notably IL-6 and TNF), indicating an inflammatory response. Additional terms on hyaluronan metabolism, ubiquitin-dependent protein turnover, and integrin signaling with extravasation/adhesion imply leukocyte trafficking and adhesion processes during inflammation. Confidence: High","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032755","count":2},{"id":"GO:0002374","count":2},{"id":"GO:0032760","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0030212","count":1}]},{"hash":"848259521385895587","title":"Unknown","description":"The terms are too diverse to yield a single cohesive function: categories include protein transport/ER retention, innate and adaptive immune signaling, EGFR ligand maturation, unfolded protein response, and various developmental/differentiation processes. With no dominant shared function among the proteins, Unknown is most appropriate.","confidence":"","size":6,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":1},{"id":"GO:0006621","count":1},{"id":"GO:0010204","count":1},{"id":"GO:0002369","count":1},{"id":"GO:0070231","count":1}]},{"hash":"712543151752178422","title":"Hepatic lipid and bile acid metabolism","description":"Based on the GO terms, the cluster centers on metabolic processes typical of the liver: triglyceride metabolism and bile acid biosynthesis, with supporting signals of hepatocyte differentiation and digestive tract development. Additional terms for retinoic acid and steroid hormone biosynthesis (prostaglandin, aldosterone, androgen) suggest coordinated lipid and endocrine metabolite handling by hepatic tissue. This combination points to a cohesive liver-associated metabolic cluster rather than a random mix.","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0071615","count":1},{"id":"GO:0070365","count":1},{"id":"GO:0006641","count":1},{"id":"GO:0006699","count":1}]},{"hash":"1725654936233920016","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000472","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0060348","count":1},{"id":"GO:0050908","count":1},{"id":"GO:1903546","count":1}]},{"hash":"1130700997859765033","title":"Methylation and RNA Modification","description":"The top GO terms are dominated by methylation-related processes across both RNA and proteins (guanine-N7 RNA methylation, tRNA wobble modification, and various peptide methylations), suggesting a cohesive theme around methyltransferase activity; other terms appear incidental noise but do not override the methylation signal.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":2},{"id":"GO:0036265","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0009236","count":1},{"id":"GO:0006596","count":1}]},{"hash":"340281910826057437","title":"Methylation Enzymes and Modification Processes","description":"The top GO terms cluster around methylation across DNA, RNA, and proteins, including DNA methylation, RNA cap methylation, tRNA/rRNA methylation, and protein methylation, plus DNA restriction-modification. Although some terms are obsolete or broad, the common thread is enzymatic transfer of methyl groups and associated modifications, suggesting these proteins function as methyltransferases or modification factors. A couple incidental terms like salt stress and proton transport appear, but the dominant signal is methylation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090124","count":1},{"id":"GO:0009307","count":1},{"id":"GO:0009452","count":1},{"id":"GO:0006479","count":1},{"id":"GO:0032775","count":1}]},{"hash":"839195152663131854","title":"Mitochondrial lipid biosynthesis and remodeling","description":"This cluster is dominated by GO terms for lipid biosynthesis and remodeling (triglyceride, ether lipid, cardiolipin, and phosphatidylcholine remodeling, and CDP-diacylglycerol biosynthesis) alongside mitochondrial ATP synthesis. While immune signaling terms (IL-2 production, T cell death regulation) and cerebellum morphogenesis appear, the strongest and most coherent theme ties to lipid metabolism affecting mitochondrial membranes and energy production. ","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042775","count":6},{"id":"GO:0019432","count":6},{"id":"GO:0008611","count":6},{"id":"GO:0070236","count":6},{"id":"GO:0016024","count":6}]},{"hash":"881794662819916268","title":"Ubiquitin-Driven Protein Homeostasis and Nuclear Regulation","description":"This cluster is dominated by ubiquitination-related terms (deubiquitination, autoubiquitination) and ERAD-associated quality control, with additional links to nuclear functions (nuclear pore localization and PML body organization) and gene expression (transcription/translation). The common thread is ubiquitin signaling coordinating protein quality control and nuclear regulation.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":4},{"id":"GO:1904378","count":3},{"id":"GO:0090204","count":3},{"id":"GO:0017085","count":3},{"id":"GO:0030578","count":3}]},{"hash":"1888422534632176909","title":"Immune tolerance and mast cell signaling","description":"The cluster centers on immune-regulatory processes: positive regulation of tolerance induction to self antigen and positive regulation of B cell tolerance induction, along with mast cell cytokine production, pointing to immune tolerance and signaling roles. Receptor catabolic process and regulation of endosome transport suggest links to antigen processing/trafficking within immune cells, while some developmental terms appear as outliers. Overall, the theme is immune tolerance and mast cell\u2013related signaling with endosomal trafficking involvement. ","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0002651","count":5},{"id":"GO:0060068","count":5},{"id":"GO:0032801","count":5},{"id":"GO:0009611","count":5},{"id":"GO:0032762","count":5}]},{"hash":"1944112775327480806","title":"Ribosome Biogenesis and Translation Initiation","description":"The top GO terms cluster around ribosome assembly and initiation of translation (formation of translation preinitiation complex, translation reinitiation, ribosome biogenesis, ribosomal large subunit biogenesis), indicating a shared function in building ribosomes and starting protein synthesis; secondary terms relate to stress and apoptotic processes but don't override the main theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0000447","count":3},{"id":"GO:0042273","count":3}]},{"hash":"1472926129923044980","title":"Neural development and synapse assembly","description":"The top GO terms are dominated by neural-related processes: brain development, inner ear development, and positive regulation of synapse assembly, suggesting a core theme of neural development and synaptogenesis. Immune-related terms are present (defense response to Gram-positive bacterium, immunoglobulin production, chemokine production), but they are fewer and less central to the cluster, making neural development the more representative function. Given the mixed signals and zero edges, the label captures the dominant theme but with some uncertainty.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0048839","count":2},{"id":"GO:0032755","count":1}]},{"hash":"524480031940365088","title":"Skeletal muscle calcium signaling and Ca2+ homeostasis","description":"The GO terms point to calcium handling in muscle cells (ER/Golgi Ca2+ concentration, Ca2+ release into cytosol, Golgi Ca2+ homeostasis) and muscle-specific processes (relaxation, fast/slow fiber transitions, NFAT signaling modulation), suggesting a cohesive theme around Ca2+-dependent signaling and calcium storage/release in skeletal muscle, with a few additional ion-related terms that may reflect broader calcium regulation networks.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048240","count":2},{"id":"GO:0090076","count":1},{"id":"GO:1990573","count":1},{"id":"GO:0032470","count":1},{"id":"GO:0070885","count":1}]},{"hash":"475569459775457695","title":"Muscle cell differentiation and myoblast fusion","description":"Based on the top GO terms, the cluster is strongly enriched for skeletal muscle differentiation and myoblast fusion (e.g., skeletal muscle cell differentiation, myotube differentiation, positive regulation of myoblast fusion), indicating a core function in muscle development and fusion processes. While a few terms touch on other differentiation programs or transcription regulation, the dominant signal points to muscle lineage specification.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048712","count":5},{"id":"GO:2001038","count":5},{"id":"GO:0014908","count":4},{"id":"GO:2000793","count":4},{"id":"GO:0061103","count":4}]},{"hash":"959518293061881183","title":"Transmembrane Transport of Ions and Metabolites","description":"This cluster is centered on membrane transport processes: various ions (sodium, potassium, phosphate, nitrate) and small metabolites (sialic acid, arabinose, fucose, vitamins) being transported across membranes, plus neurotransmitter loading into synaptic vesicles. The collection suggests a set of transporter proteins with diverse substrates, rather than a single substrate-specific function, consistent with sparse interactions and multiple transport-related GO terms.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":4},{"id":"GO:0098700","count":4},{"id":"GO:0015739","count":4},{"id":"GO:0035435","count":4},{"id":"GO:0071805","count":4}]},{"hash":"482045137680340891","title":"Lineage Differentiation Regulation","description":"The Top Terms show strong signals for positive regulation of differentiation in hematopoietic lineages (megakaryocytes and erythrocytes) and neural development, plus chromatin binding regulation and folate metabolism, pointing to a theme of controlling cell fate with epigenetic/nucleotide synthesis support across lineages. Immune/oxidative terms are present but less central. Confidence reflects a coherent, but not exclusive, link to differentiation regulation across lineages.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045654","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0010976","count":3},{"id":"GO:0051572","count":3},{"id":"GO:0045648","count":3}]},{"hash":"2060231153126291679","title":"Ubiquitin-Linked Immune and Wnt Regulation","description":"The top GO terms point to ubiquitination processes (autoubiquitination, protein ubiquitination, polyubiquitination) and regulatory roles in signaling pathways, notably canonical Wnt signaling, along with immune-related processes (adaptive immune response, RIG-I signaling). This pattern suggests proteins that modulate signaling through ubiquitin-dependent regulation, linking immune signaling to Wnt pathway activity. Some terms (endosomal fusion, apoptosis) appear tangentially, but the core theme remains ubiquitin-mediated control of signaling.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0016567","count":2},{"id":"GO:0039536","count":2},{"id":"GO:0002250","count":2}]},{"hash":"2172737790193691730","title":"Cardiac lipid metabolism and heart development","description":"The top GO terms converge on lipid and energy metabolism (fatty acid beta-oxidation with acyl-CoA oxidase/dehydrogenase, steroid biosynthesis, glycogen biosynthesis) plus cardiac-specific processes (cardiac muscle cell differentiation, heart development). While a few terms are less related, the shared pattern points to metabolic activity in heart tissue, implying this cluster represents cardiac lipid/energy metabolism and development. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006574","count":4},{"id":"GO:0033540","count":3},{"id":"GO:0006694","count":3},{"id":"GO:0055007","count":3}]},{"hash":"46250634538889435","title":"Meiotic DNA Repair and Recombination","description":"The cluster is dominated by GO terms related to DNA double-strand break repair and recombination, including repair via single-strand annealing, break-induced replication, recombinase assembly, telomere maintenance via recombination, and meiotic joint molecule formation. This suggests proteins involved in meiotic DNA repair pathways and homologous recombination. While one term like DNA amplification appears, the overall pattern centers on meiotic DSB repair and recombination processes.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006277","count":2},{"id":"GO:0010947","count":2},{"id":"GO:2000819","count":2},{"id":"GO:0000733","count":2},{"id":"GO:0000727","count":2}]},{"hash":"129788189099719515","title":"Nuclear gene expression and mitotic regulation","description":"This cluster features GO terms tied to transcription (DNA-templated transcription) and RNA processing (mRNA splicing, mRNA export regulation), chromatin modification (histone H3-K9 methylation), and protein turnover (ubiquitination), alongside cell cycle and mitosis processes (mitotic cell cycle, cell division, mitotic spindle assembly) and apoptotic signaling. The combined emphasis on gene expression control and cell division suggests a cohesive theme of nuclear regulation of transcription/RNA processing with mitotic progression.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0051567","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0000209","count":2}]},{"hash":"852457320429099363","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008630","count":3},{"id":"GO:0016446","count":3},{"id":"GO:0071076","count":2},{"id":"GO:0045471","count":2},{"id":"GO:0006954","count":2}]},{"hash":"2254383681368631708","title":"Ubiquitin-mediated proteolysis and cell cycle regulation","description":"This cluster centers on protein turnover via ubiquitin and ubiquitin-like modifiers (ISG15 conjugation, N-end rule pathway, proteasomal degradation) and on cell cycle control (G2/M transition, spindle assembly checkpoint). Chromatin regulation terms (histone methylation/demethylation) suggest coordinated control of gene expression with proteostasis. A couple of terms about sperm axoneme and neuron projection development are peripheral, but the dominant theme ties ubiquitin-mediated proteolysis to mitosis and chromatin state.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032020","count":5},{"id":"GO:0070076","count":5},{"id":"GO:1901044","count":5},{"id":"GO:0010976","count":5},{"id":"GO:0051569","count":5}]},{"hash":"85958896049553259","title":"Mitotic progression and proteasomal degradation","description":"The dominant GO terms point to mitotic cell-cycle control (G2/M transition, chromosome segregation, exit from mitosis) and ubiquitin-proteasome\u2013mediated protein turnover (SCF-dependent proteasomal degradation, nucleus-associated proteasomal catabolic process). Some outliers (viral process, nucleotide-excision repair, ISG15 conjugation) exist, but the core signal centers on mitosis and targeted protein degradation, justifying this label.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0000086","count":5},{"id":"GO:0031146","count":5},{"id":"GO:0007059","count":5},{"id":"GO:0016032","count":5},{"id":"GO:0010458","count":5}]},{"hash":"617599899762831381","title":"Molybdenum cofactor biosynthesis","description":"The top GO terms are dominated by molybdenum cofactor biosynthetic processes (GO:0018315, GO:0006777, GO:0032324), each with multiple proteins, indicating a core MoCo biosynthesis function for this cluster. A few terms touch on neuronal receptor clustering and synaptic signaling, which could reflect secondary roles, annotation noise, or multifunctionality. There are no edges among the proteins, suggesting dispersed annotation rather than a single interaction network. Confidence: Medium","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018315","count":3},{"id":"GO:0006777","count":3},{"id":"GO:0032324","count":3},{"id":"GO:0097112","count":3},{"id":"GO:0072579","count":3}]},{"hash":"2185701637625732410","title":"Mitophagy and ubiquitin-mediated degradation","description":"The top terms are centered on mitochondrial autophagy (mitophagy), ubiquitin-dependent protein catabolism and polyubiquitination, and SUMOylation, suggesting a core theme of mitochondrial turnover and ubiquitin/SUMO-regulated protein degradation. Some unrelated terms appear, but the dominant signal supports a focus on mitophagy and proteolytic control.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000422","count":3},{"id":"GO:0000209","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0021764","count":2},{"id":"GO:1902617","count":2}]},{"hash":"979134640688258340","title":"Cocaine-Triggered Dopaminergic Synaptic Plasticity","description":"The top GO terms center on dopaminergic synaptic transmission, cocaine response, and long-term synaptic potentiation, suggesting a module involved in dopamine signaling and activity-dependent synaptic strengthening tied to cocaine exposure. Also, excitatory postsynaptic potential and phosphorylation-related terms imply signaling cascades that modulate synaptic efficacy. A few unrelated terms (e.g., vagina development) may reflect annotation noise but do not override the dominant dopaminergic-cocaine plasticity theme.","confidence":"Medium","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006915","count":5},{"id":"GO:0001963","count":5},{"id":"GO:0048148","count":5},{"id":"GO:0042220","count":5},{"id":"GO:0060291","count":5}]},{"hash":"124825240543951746","title":"Innate immune recognition and inflammation","description":"Dominant GO terms are related to phagocytosis recognition, lectin pathway\u2013mediated complement activation, and C-type lectin receptor signaling, which together define innate immune recognition and inflammatory signaling. While a few developmental terms appear, the strongest and most coherent signal across the cluster points to innate immunity and inflammation. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006910","count":3},{"id":"GO:0036303","count":2},{"id":"GO:0090238","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0090403","count":2}]},{"hash":"514894475144565366","title":"Mitotic progression and K11-linked ubiquitination","description":"The top GO terms are dominated by cell division and metaphase/anaphase transition, together with a specific signal for K11-linked ubiquitination, pointing to mitotic control via ubiquitin pathways. Other terms like protein isomerization, ciliary motility, and morphine response are less representative, suggesting ancillary roles. Overall, the clear theme is mitotic progression governed by K11 ubiquitination.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0007091","count":2},{"id":"GO:1902600","count":1},{"id":"GO:0000413","count":1}]},{"hash":"1960922522803126391","title":"Ubiquitin-regulated neuronal apoptosis","description":"The cluster is dominated by GO terms describing ubiquitination (K29- and K63-linked, autoubiquitination) and regulation of apoptotic processes, especially in neurons. This points to a functional theme of ubiquitin-mediated control of neuronal apoptosis, with both positive and negative regulation represented; a few terms about histone modification or non-neuronal processes appear as outliers.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035519","count":4},{"id":"GO:0051865","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0070534","count":4},{"id":"GO:0043524","count":4}]},{"hash":"2083944988192148888","title":"Purine salvage and metabolism","description":"The top GO terms cluster around purine nucleotide turnover\u2014AMP salvage, XMP salvage, and adenine salvage, plus urate biosynthesis and regulation of purine metabolism\u2014indicating a cohesive functional theme in purine salvage/metabolism. Other terms appear broader or indirect, but the dominant signal is purine nucleotide turnover.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032869","count":5},{"id":"GO:0016310","count":3},{"id":"GO:0044209","count":3},{"id":"GO:0021954","count":3},{"id":"GO:0046651","count":3}]},{"hash":"410613544263534624","title":"APC/C-Driven Mitosis and K11 Ubiquitination","description":"The cluster\u2019s strongest signals are mitotic processes: mitotic cell cycle, cell division, and anaphase-promoting complex-dependent catabolic process, complemented by K11-linked ubiquitination, a hallmark of APC/C-regulated proteolysis during mitosis. While a few terms related to development or viral mRNA export appear, the core theme corresponds to cell cycle control and ubiquitin-mediated protein turnover, suggesting proteins here function in APC/C-driven mitotic regulation.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046784","count":3},{"id":"GO:0002467","count":3},{"id":"GO:0003283","count":3},{"id":"GO:2001162","count":2},{"id":"GO:0070979","count":2}]},{"hash":"2134964198531305164","title":"Neural development and radial glial migration","description":"The top GO terms indicate cortical development, radial glial differentiation, and neural tube patterning, aligning with neural development and radial-glia\u2013driven neuronal migration; localization terms to endosomes and the leading edge suggest trafficking supporting migrating neurons, with some regulatory terms reflecting signaling context.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021799","count":5},{"id":"GO:0071389","count":5},{"id":"GO:0021861","count":5},{"id":"GO:1903125","count":5},{"id":"GO:0043552","count":5}]},{"hash":"902077317565592552","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0007275","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0036353","count":2}]},{"hash":"2127374397829583062","title":"Transmembrane and Vesicular Transport of Metabolites","description":"Top GO terms indicate a broad set of membrane transport activities, including sugar, organic anion, xenobiotic, and other metabolite transmembrane transport, as well as neurotransmitter loading into synaptic vesicles. This suggests the proteins function mainly in transporting diverse substrates across membranes and into vesicles, rather than a single substrate-specific role. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043252","count":2},{"id":"GO:0015753","count":2},{"id":"GO:0044381","count":2},{"id":"GO:0042908","count":2},{"id":"GO:0015757","count":2}]},{"hash":"221508078807799566","title":"Craniofacial bone and cartilage development","description":"The cluster is enriched for osteoblast differentiation, bone mineralization, chondrocyte differentiation, neural crest cell migration, and embryonic cranial skeleton morphogenesis, all central to craniofacial skeletogenesis. The presence of SMAD signaling further supports BMP/TGF-beta\u2013driven bone/cartilage formation; despite one term on apoptotic signaling, the dominant theme ties to craniofacial skeletal development, making this label representative.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045669","count":3},{"id":"GO:0030501","count":3},{"id":"GO:0002062","count":3},{"id":"GO:0045648","count":3},{"id":"GO:0097191","count":3}]},{"hash":"914664629876446241","title":"RTK signaling and actin remodeling","description":"The GO terms point to receptor tyrosine kinase\u2013mediated signaling (EGFR, TGF-beta pathways) coupled with cytoskeletal dynamics (Arp2/3 nucleation, GTPase regulation) and processes like dendrite morphogenesis and cell adhesion, indicating a theme of growth-factor signaling driving actin remodeling and shape changes.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":3},{"id":"GO:0050731","count":3},{"id":"GO:2000601","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0048813","count":3}]},{"hash":"1188141683960069632","title":"Chromatin modification and stress-induced apoptosis","description":"Top terms point strongly to chromatin modification (acetylation/methylation) as the core function, with histone acetylation at H4-K5/H4-K8 and histone methylation at H3-K27/H3-K79. Additional terms relate to stress responses (heat, hypoxia) and apoptotic signaling, suggesting a cluster of epigenetic regulators that link chromatin modification to stress-induced apoptosis.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043982","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0043981","count":3},{"id":"GO:0061087","count":3},{"id":"GO:2001235","count":2}]},{"hash":"1924369403198606483","title":"Vascular development via cell adhesion and signaling","description":"These proteins cluster around adhesion and vascular development themes: strong signals for cell-matrix and cell-cell adhesion, positive regulation of sprouting angiogenesis, and aorta development, suggesting roles in vascular morphogenesis and tissue remodeling. Additional terms for complement activation, extrinsic apoptosis, and Wnt regulation hint at broader developmental and immune context but do not override the core adhesion/angiogenesis signal.","confidence":"Medium","size":5,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":4},{"id":"GO:0001867","count":3},{"id":"GO:0006590","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0090050","count":3}]},{"hash":"846511805986306142","title":"Unknown","description":"The GO terms are highly diverse, including immune-related processes (T cell cytotoxicity, neutrophil degranulation, apoptotic signaling) and multiple metabolic and extracellular matrix activities (purine metabolism, urate/ allantoin metabolism, retinol metabolism, ECM organization). With no clear cohesive function or linking pathway and no edges connecting proteins, there isn\u2019t a single interpretable theme to name the cluster beyond Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001235","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0001913","count":1},{"id":"GO:0019628","count":1},{"id":"GO:0043312","count":1}]},{"hash":"2147315404030822555","title":"Organogenesis and vascular morphogenesis","description":"The top GO terms cluster around developmental processes with a strong emphasis on vascular formation and organ differentiation (branching in blood vessel morphogenesis, endocardial differentiation, skeletal system development, multicellular organism development). Hypoxia response and heparin response align with stress and remodeling in developing tissues, while a couple of terms (memory, synaptic plasticity) may reflect broader pleiotropy. Overall, the dominant theme is development and vascular morphogenesis, supporting this label.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071456","count":3},{"id":"GO:0071504","count":2},{"id":"GO:0001569","count":2},{"id":"GO:0072221","count":2},{"id":"GO:0007275","count":2}]},{"hash":"1714823878934617199","title":"Embryonic organogenesis and neural development","description":"The top GO terms cluster around neural crest migration, brain and inner ear development, and various organ morphogenesis processes (pancreas, digestive tract, ureteric bud), plus tissue organization. This points to a developmental program spanning embryogenesis and organ formation, with cell-cell junctions supporting tissue assembly, making the label a reasonable summary of the cluster.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001755","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0048557","count":3},{"id":"GO:0090190","count":3},{"id":"GO:0031018","count":3}]},{"hash":"1789167859007193196","title":"Ubiquitin-Dependent Signaling and Proteolysis","description":"The top GO terms are centered on ubiquitination processes (autoubiquitination, K63-linked ubiquitination, ubiquitin-dependent protein catabolic process) and regulation of signaling pathways (Wnt, JNK). This points to a cohesive function where ubiquitin tagging modulates signaling and protein turnover, influencing downstream processes such as apoptosis and cell migration.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":4},{"id":"GO:0090263","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0042787","count":3}]},{"hash":"925708775077983624","title":"Embryonic patterning and organogenesis","description":"The proteins are associated with developmental patterning and differentiation across several embryonic lineages, including left/right patterning, placenta/trophoblast development, endocardial cushion EMT, cartilage morphogenesis, and pancreatic cell development, suggesting a cohesive role in embryogenesis and tissue specification.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060536","count":4}]},{"hash":"1326357418702890261","title":"Flavonoid and lignin biosynthesis","description":"The terms predominantly point to biosynthesis of flavonoids (anthocyanins, kaempferol, quercetin, cyanidin glycosides) and related phenylpropanoid products like lignin, indicating a cluster centered on plant secondary metabolite production via the flavonoid/phenylpropanoid pathway. A single term about axon paranode localization seems unrelated noise in this context. ","confidence":"High","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009718","count":4},{"id":"GO:0016999","count":3},{"id":"GO:0033485","count":3},{"id":"GO:0002175","count":3},{"id":"GO:0033330","count":3}]},{"hash":"9212121068313911","title":"Neutrophil and platelet immune signaling","description":"The top GO terms center on innate immune activation and signaling (neutrophil chemotaxis, response to LPS, Fc-epsilon receptor signaling, platelet degranulation) along with calcium- and NF-kB/NFAT\u2013related pathways, suggesting a shared theme of immune cell activation and calcium-dependent signaling in neutrophils and platelets. An axonogenesis term appears among the list but does not define the core theme; overall, the cluster reflects immune signaling and calcium flux rather than a neuronal growth program.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030593","count":3},{"id":"GO:0007409","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0032496","count":3}]},{"hash":"1040703972252127115","title":"Embryonic craniofacial and cardiac morphogenesis","description":"The top GO terms point to developmental processes such as roof-of-mouth (palate) development, mesoderm formation, left-right patterning, and cartilage morphogenesis, along with EMT in endocardial cushion formation and broader endocrine development. This pattern suggests a cohesive theme of embryonic tissue patterning and organ morphogenesis, particularly craniofacial and cardiac tissues, rather than mature cellular functions. ","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0007498","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0000055","count":3}]},{"hash":"2297019591110342625","title":"Neural development and cell adhesion","description":"This cluster centers on brain development, neuronal stem cell maintenance, and regulation of oligodendrocyte progenitor proliferation, with multiple terms emphasizing cell\u2013cell adhesion and cadherin-mediated junctions. The convergence on neural development and adhesion molecules (cadherin-mediated adhesion, cell-cell junction organization, intermicrovillar adhesion) supports a coherent neural-associated function, though a few terms (B cell differentiation, LDL signaling) may reflect broader annotation or noise.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097150","count":5},{"id":"GO:0002315","count":5},{"id":"GO:0070445","count":5},{"id":"GO:0045216","count":5},{"id":"GO:0055096","count":5}]},{"hash":"496593473549040984","title":"Innate antiviral defense","description":"The top terms strongly point to an antiviral innate immune function (defense response to virus and innate immune response), suggesting these proteins participate in innate antiviral defense. The other GO terms are diverse and likely reflect multifunctionality or annotation noise, but the dominant antiviral/innate immunity signal supports this label.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0000413","count":2},{"id":"GO:0048496","count":2},{"id":"GO:0060296","count":2}]},{"hash":"1706930794927524735","title":"Neuronal Synaptic Signaling and Sensory Development","description":"The top GO terms center on nervous system signaling and sensory functions\u2014membrane depolarization, inhibitory postsynaptic potential, and synaptic transmission, plus inner ear receptor cell development and amino-acid\u2013related responses\u2014indicating a cluster of proteins involved in neuronal communication and sensory system development. Some terms (e.g., insecticide response, circadian regulation) are ancillary but still tie to neural activity and physiological control, supporting a label focused on neuronal signaling and sensory processes.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043200","count":2},{"id":"GO:0032226","count":2},{"id":"GO:0017085","count":2},{"id":"GO:0045188","count":2},{"id":"GO:0060119","count":2}]},{"hash":"691646540473507498","title":"Endocrine gland development and hormone secretion","description":"The terms center on endocrine development and hormone production: adenohypophysis development, prolactin and growth hormone secretion, and endocrine pancreas development, indicating a theme of glandular development and hormone secretion. While neural terms appear, the strongest signal is endocrine in nature, making this 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:0048929","count":1},{"id":"GO:1990535","count":1},{"id":"GO:0006839","count":1},{"id":"GO:0071651","count":1},{"id":"GO:0045860","count":1}]},{"hash":"1842560158580701213","title":"Purine Nucleotide Salvage","description":"The cluster is dominated by GO terms for AMP salvage, adenine salvage, XMP salvage, and xanthine/purine metabolism, indicating a shared role in purine nucleotide salvage and metabolism. Some terms like CNS neuron development, lymphocyte proliferation, and lactation are present but appear less central, possibly reflecting broader multifunctionality or annotation noise. Overall, the main theme is purine salvage pathways.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0044209","count":3},{"id":"GO:0021954","count":2},{"id":"GO:0046651","count":2},{"id":"GO:0007595","count":2},{"id":"GO:0045982","count":2}]},{"hash":"2081300925926478015","title":"Neuronal membrane trafficking and ion homeostasis","description":"The GO terms cluster around vesicle trafficking (Golgi vesicle budding; endocytosis), cytoskeletal support in neurons (neurofilament cytoskeleton organization), and membrane ion balance (potassium/sodium transport, calcium homeostasis), plus a sensory-development note (inner ear receptor cell development). Although a plant-specific stilbene catabolic term is present, the overall theme points to neuronal membrane dynamics and ionic regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046272","count":2},{"id":"GO:1990573","count":2},{"id":"GO:0060052","count":2},{"id":"GO:0048194","count":2},{"id":"GO:0006897","count":2}]},{"hash":"1083467082343478793","title":"Chromatin organization and telomere maintenance","description":"This cluster is dominated by GO terms related to chromatin structure and telomere regulation, including nucleosome assembly, rDNA heterochromatin formation, and shelterin/telomere\u2013associated processes, suggesting a shared function in chromatin organization and telomere maintenance. Some terms (e.g., viral process, megakaryocyte development, muscle cell homeostasis) appear peripheral and do not define a single cohesive function for the cluster.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016032","count":2},{"id":"GO:0090043","count":1},{"id":"GO:0009301","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0035855","count":1}]},{"hash":"1024736631980652005","title":"Ubiquitin-Mediated Signaling and Immune Regulation","description":"The top GO terms cluster around ubiquitination and its regulatory roles: protein autoubiquitination, K6- and H2A-linked ubiquitination, and regulation of I-kappaB phosphorylation, which ties to NF-kB signaling. Immune-related processes appear (V(D)J recombination) alongside epigenetic/chromatin-related terms (dosage compensation by X inactivation, chromatin-associated ubiquitination), and there\u2019s also regulation of apoptotic processes and viral material transport. Despite no physical interaction edges, the common thread is ubiquitin-dependent regulation of signaling, gene expression, and immune-related processes. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033151","count":2},{"id":"GO:1903762","count":2},{"id":"GO:0051865","count":2},{"id":"GO:1901253","count":2},{"id":"GO:0090073","count":2}]},{"hash":"1371868570485468483","title":"Vertebrate Developmental Transcription Regulators","description":"This cluster centers on vertebrate developmental processes (brain, spinal cord, muscle, gonad, uterine epithelium) and transcriptional regulation by RNA polymerase II, suggesting the proteins act as transcriptional regulators driving development. The absence of edges indicates limited direct connectivity in this dataset, so the label reflects a broad functional theme rather than a specific interaction module.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0006357","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0008584","count":3}]},{"hash":"1138766845846346111","title":"Ubiquitin-mediated innate immune signaling","description":"The GO terms indicate a core of ubiquitin-related processes (protein ubiquitination, ubiquitin-dependent proteolysis) together with innate immune functions (innate immune response, defense against virus) and regulation of signaling pathways (TLR signaling) and cell fate (apoptosis, necroptosis). This points to a cluster whose proteins modulate immune signaling through ubiquitin-mediated regulation, influencing antiviral defense and cell survival.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0051607","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0000122","count":2}]},{"hash":"2079628206129135171","title":"Cell cycle and growth signaling","description":"The top GO terms cluster around mitotic cell cycle and cell division, plus growth-related signaling such as cellular response to insulin stimulus and various signaling pathways (e.g., T cell receptor signaling) and regulatory processes like ubiquitination and cell\u2013cell adhesion. Together these terms point to a core theme of cellular proliferation controlled by signaling networks that integrate growth cues and intercellular interactions. While immune and adhesion terms broaden the scope, the central motif remains growth and division regulation via signaling pathways.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0032869","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0035264","count":2}]},{"hash":"2159553633404183251","title":"Bacterial cell wall and envelope biosynthesis","description":"The prominent GO terms point to synthesis of cell wall and envelope components (peptidoglycan, lipid A) and related carbohydrate metabolism (glycogen, UDP-glucose, starch), along with cell wall organization and regulation of cell shape. This suggests a cohesive theme around building the bacterial cell envelope and associated carbohydrate pathways, with ribosome biogenesis reflecting general cellular biosynthesis. Overall, the cluster is best described by a cell wall/envelope biosynthesis focus with supporting metabolic processes.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0008360","count":1},{"id":"GO:0006011","count":1}]},{"hash":"1596860881077023417","title":"Muscle sarcomere assembly and calcium response","description":"The cluster centers on muscle contractile machinery and calcium signaling, highlighted by terms for skeletal muscle thin filament assembly, sarcomere organization, skeletal muscle fiber adaptation, and response to calcium ion. Some GO terms appear unrelated or obsolete (ascospore wall assembly, retina homeostasis, histone acetylation/exchange), suggesting annotation noise, but the core muscle-related terms support the label.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051592","count":4},{"id":"GO:0043983","count":4},{"id":"GO:0071963","count":4},{"id":"GO:0030240","count":4},{"id":"GO:0030476","count":4}]},{"hash":"153905466106239639","title":"RNA processing and mRNA metabolism","description":"This cluster is dominated by GO terms tied to RNA metabolism and processing: P-body assembly, spliceosomal snRNP assembly, mRNA splicing via the spliceosome, and deadenylation-dependent decapping of nuclear-transcribed mRNA, as well as histone mRNA metabolism and import into the nucleus. Transcription termination and cell-cycle related terms (G0-to-G1, hair cycle) are present but secondary. Overall, the proteins likely participate in RNA maturation, processing, and decay, with some related transport and regulation roles.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0033962","count":4},{"id":"GO:0006369","count":4},{"id":"GO:0009414","count":4},{"id":"GO:0042633","count":4},{"id":"GO:0051170","count":4}]},{"hash":"2256903813496144675","title":"Protein localization and transport under stress","description":"These proteins cluster around processes that govern where proteins go and how they\u2019re transported (telomere localization, nuclear pore assembly, mitochondrial intermembrane space import), with concurrent stress-response and quality-control signals (cadmium response, misfolded protein detection, protein stabilization) and cell division cues. The common thread is protein localization/trafficking coupled with proteostasis under stress, rather than a single pathway. ","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:1904851","count":4},{"id":"GO:0046686","count":4},{"id":"GO:0046931","count":4},{"id":"GO:0045041","count":4}]},{"hash":"1814259269221372463","title":"Ubiquitin-Dependent Protein Degradation","description":"The dominant term is GO:0042787 ubiquitin-dependent protein catabolic process, with three proteins, suggesting the cluster centers on ubiquitin-mediated proteolysis. The other terms are diverse (plant tropisms, immune signaling), likely representing noise or multifunctional proteins, but the shared function across the cluster appears to be ubiquitin-driven protein degradation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0009638","count":2},{"id":"GO:2001200","count":2},{"id":"GO:0070294","count":2},{"id":"GO:0009958","count":2}]},{"hash":"946806649300897773","title":"Chromosome maintenance and cell division","description":"This cluster shows GO terms centered on DNA replication, DNA-templated transcription, CENP-A\u2013containing chromatin assembly, and cell division, with supporting references to microtubule dynamics and centromere-associated chromatin. Although a couple of terms relate to vesicle transport and peroxisomal import, the dominant signal points to chromosome maintenance during the cell cycle. Confidence: Medium","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0061641","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0051301","count":2}]},{"hash":"1734934872985849811","title":"Ubiquitination and ERAD proteostasis","description":"Most top GO terms center on ubiquitin conjugation and degradation pathways (autoubiquitination, monoubiquitination, polyubiquitination, ERAD-dependent degradation), with a minor note on chaperone-mediated assembly, suggesting the cluster groups proteins involved in ubiquitin-mediated protein quality control.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0090035","count":1},{"id":"GO:0008626","count":1},{"id":"GO:0006513","count":1}]},{"hash":"1552253073405350776","title":"Stem cell epigenetic regulation and ubiquitin proteolysis","description":"This cluster centers on stem cell maintenance and regulation of gene expression via epigenetic mechanisms (e.g., transcriptional regulation, histone-related terms) and proteostasis through ubiquitin-dependent protein turnover. The presence of terms related to stem cell maintenance, hematopoiesis, transcriptional control, and ubiquitin-mediated catabolism suggests a cohesive theme around stem cell fate decisions governed by epigenetic regulation and protein degradation pathways.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902459","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0080182","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0043524","count":2}]},{"hash":"1751471635610973378","title":"Rho-MAPK Muscle Signaling","description":"The GO terms center on signaling responses to muscle activity, notably Rho-mediated signal transduction and JUN phosphorylation within the MAPK pathway, with angiogenesis as a related process. Some terms are obsolete or ribosome-related and likely represent annotation noise, but the core pattern points to muscle-activity\u2013driven signaling rather than a structural function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014850","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0007266","count":2},{"id":"GO:0000187","count":2},{"id":"GO:0007258","count":2}]},{"hash":"1049130130001688443","title":"Muscle calcium signaling and fiber-type regulation","description":"The top GO terms cluster around calcium handling and signaling in muscle cells (ER/Golgi Ca2+ concentration, Ca2+ release, cytosolic Ca2+ regulation) and the Calcineurin-NFAT pathway affecting muscle fiber type switching, with related ion transport; this points to a cohesive theme of calcium-dependent control of muscle function and fiber composition.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090076","count":3},{"id":"GO:1990573","count":3},{"id":"GO:0032470","count":3},{"id":"GO:0070885","count":3},{"id":"GO:0046272","count":3}]},{"hash":"1818385433040549009","title":"Apoptosis Regulation","description":"The top GO terms are dominated by negative regulation of apoptotic DNA fragmentation, various apoptotic processes, and negative regulation of TNF production, suggesting the proteins cluster around inhibiting or modulating cell death. A few terms relate to lipid storage and temperature homeostasis, but the core theme remains apoptosis regulation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902511","count":1},{"id":"GO:0050995","count":1},{"id":"GO:0097202","count":1},{"id":"GO:0070242","count":1},{"id":"GO:0001659","count":1}]},{"hash":"282031720430381176","title":"Insect Developmental Differentiation","description":"The top GO terms cluster around cell fate specification and differentiation in insect tissues (wing cell fate, compound eye cone cell fate, spermatid differentiation, fat cell differentiation) with supporting roles for EGFR ligand maturation and general cellular processes like unfolded protein response and lipid metabolism. This suggests the proteins collectively participate in insect development and tissue differentiation, rather than a single cohesive metabolic pathway. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006641","count":2},{"id":"GO:0038005","count":1},{"id":"GO:0048515","count":1},{"id":"GO:0034620","count":1},{"id":"GO:0042676","count":1}]},{"hash":"2015370607319640085","title":"Translation and tRNA charging","description":"The top GO terms are dominated by multiple aminoacylation activities for various tRNA species (Cys, Met, Ile, Val, Leu, etc.) and by translation and fidelity regulation, together pointing to the translation machinery as the core function of this cluster. Peripheral terms like mycothiol biosynthesis and amyloid-beta formation appear less central to the cluster\u2019s main theme.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006423","count":1},{"id":"GO:0006431","count":1},{"id":"GO:0010125","count":1},{"id":"GO:0006450","count":1},{"id":"GO:0006412","count":1}]},{"hash":"319704342651279360","title":"Aromatic amino acid degradation","description":"The terms are dominated by catabolic pathways for phenylalanine, tyrosine, homogentisate, and related aromatic compounds, indicating a cluster focused on aromatic amino acid catabolism. A subset of GO terms also points to mitochondrial metabolism, linking these catabolic processes to mitochondrial energy handling. This combination supports a cohesive theme of aromatic amino acid degradation with mitochondrial involvement.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0019571","count":2},{"id":"GO:0006572","count":2},{"id":"GO:0006527","count":2},{"id":"GO:1902000","count":2},{"id":"GO:1901023","count":2}]},{"hash":"1085611015281397805","title":"Unknown","description":"The cluster shows GO terms across unrelated processes: mitotic cell cycle regulation, GTPase activity regulation, visual perception, cadmium response, ion transport, and other distinct categories. With no edges and a loose, non-overlapping set of functions, there is no unifying theme. Therefore, a single coherent label cannot be assigned; Unknown is appropriate.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051436","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0007601","count":2}]},{"hash":"2207967017343415895","title":"Skin Development and Integrin Signaling","description":"The cluster centers on cell adhesion and extracellular matrix signaling, highlighted by integrin-mediated signaling, calcium-independent cell-matrix adhesion, and heterotypic cell-cell adhesion, with skin development also represented. This combination points to proteins involved in tissue adhesion and epidermal differentiation processes, making the label representative of the cluster\u2019s core functions.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0034113","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0007161","count":2}]},{"hash":"348674969611068227","title":"Ubiquitin-Dependent Signaling in Muscle Development","description":"The top GO terms center on ubiquitination and proteolysis (protein autoubiquitination, ubiquitin-dependent protein catabolic process) and signaling regulation (regulation of JNK cascade, calcium ion concentration). The presence of muscle-related terms (adult somatic muscle development, transition between fast and slow fiber) suggests a theme where ubiquitin-mediated regulation modulates signaling pathways and calcium dynamics that govern muscle development and fiber type specification. While some terms seem less related (e.g., fermentation, heterochromatin localization), the core appears to be ubiquitin-regulated signaling linked to muscle biology.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0090180","count":1},{"id":"GO:0014883","count":1}]},{"hash":"440944408597530461","title":"Potassium Ion Transport and Membrane Excitability","description":"The cluster's top GO terms emphasize potassium ion import across the plasma membrane and regulation of resting membrane potential, including membrane repolarization in cardiac and skeletal muscle, pointing to a shared role in electrical excitability governed by potassium handling. While some terms (TNF response, wing disc development, pigment granule aggregation, synaptic plasticity) are more distant, the core signal is membrane potential regulation via potassium transport, which motivates this label.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"nervous system process","top_go_terms":[{"id":"GO:0060075","count":4},{"id":"GO:0098914","count":4},{"id":"GO:0090076","count":3},{"id":"GO:1990573","count":3},{"id":"GO:0071356","count":3}]},{"hash":"1548815077055656638","title":"MAPK signaling in angiogenesis and neural development","description":"The top GO terms emphasize angiogenesis and its regulation, and the ERK1/ERK2 cascade, which points to MAPK-driven signaling. Additional terms related to neural development and synaptic potentiation (long-term potentiation, neuron projection development) suggest a shared pathway coordinating vascular growth with neural development. Some ECM-related terms appear, but they don\u2019t override the central MAPK-angiogenesis-neural-development theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0045766","count":2},{"id":"GO:0060291","count":2},{"id":"GO:2001275","count":2}]},{"hash":"425363983625366775","title":"Membrane transport and vesicle trafficking","description":"This cluster centers on ion and metabolite transport (bicarbonate, chloride, L-aspartate), pH and membrane potential regulation, and vesicle trafficking between the Golgi and ER, suggesting a shared role in membrane transport and secretory pathway functions. Retina development and transcription regulation appear as less central annotations, likely reflecting broader protein roles rather than core cluster function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0015701","count":1},{"id":"GO:0001696","count":1},{"id":"GO:0042391","count":1}]},{"hash":"531631265202346450","title":"Innate Immune Defense and Inflammatory Signaling","description":"The terms center on innate immunity and inflammation: defense against Gram-negative bacteria, response to lipoteichoic acid, chemokine production, IL-6 regulation, and respiratory burst associated with inflammatory defense, plus modulation of TLR4 signaling. A couple items like surfactant homeostasis and triglyceride transport may relate to lung-associated immunity, but the dominant signal ties to innate immune sensing and inflammatory responses.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030317","count":2},{"id":"GO:0032722","count":1},{"id":"GO:0034144","count":1},{"id":"GO:0050828","count":1},{"id":"GO:0050829","count":1}]},{"hash":"1880988464805004086","title":"Phospholipid Biosynthesis","description":"The proteins are mainly linked to biosynthesis of phospholipids (phosphatidylethanolamine, phosphatidylserine, phosphatidylglycerol) and related lipid processes, pointing to membrane lipid production as the core theme. Some developmental and behavioral terms appear incidental to the cluster\u2019s primary signal. ","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1905711","count":1},{"id":"GO:0010512","count":1},{"id":"GO:0006659","count":1},{"id":"GO:0070317","count":1},{"id":"GO:0006663","count":1}]},{"hash":"2258676485829198697","title":"Neural development and brain patterning","description":"This cluster is characterized by GO terms related to neuron migration, cerebral cortex regionalization, synapse assembly, and cell-cell adhesion, suggesting a focus on neural development and brain patterning. Additional terms about angiogenesis and organ identity reflect broader embryonic development contexts, but the strongest signals point to neural tissue development.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0043031","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0001764","count":2}]},{"hash":"1724081474815260838","title":"Unknown","description":"The top GO terms are a mix of a broad transcriptional process (DNA-templated transcription) and several disparate metabolic biosynthetic processes (heme, histidine, oxaloacetate) plus a plant developmental term (fruit ripening). The lack of a coherent, single functional theme and the presence of obsolete terms suggest the cluster does not represent one clear function or pathway, but rather a spread of varied roles. Therefore, no specific, representative label can be confidently assigned.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0019551","count":2},{"id":"GO:0042218","count":2},{"id":"GO:0019441","count":2},{"id":"GO:0006107","count":2}]},{"hash":"71383343716939989","title":"Spliceosome-Mediated RNA Splicing and Processing","description":"The GO terms cluster around spliceosome-dependent and alternative mRNA splicing, along with associated post-transcriptional processing steps (mRNA export, stabilization, and small-subunit processome assembly) and ncRNA-mediated regulation, indicating a cohesive focus on RNA splicing and processing. Some silencing-related terms may reflect related RNA regulatory networks, but the dominant signal is spliceosome-driven mRNA processing.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0000380","count":2},{"id":"GO:0001825","count":2},{"id":"GO:0075525","count":2}]},{"hash":"1537398535322921511","title":"Embryonic development and stress-induced apoptosis","description":"These proteins show GO terms heavily tied to developmental processes (embryonic organ development, skeletal morphogenesis, retina development) alongside apoptotic signaling and glial cell apoptosis, with additional stress-related responses (heat stress, hypoxia) and gene regulation via methylation. The combination suggests a cluster focused on developmental programs that can be modulated by cellular stress and apoptosis, hence the label. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":3},{"id":"GO:2001235","count":2},{"id":"GO:2000728","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0034349","count":2}]},{"hash":"306114410275604800","title":"Brain development and neural patterning","description":"The top GO terms cluster around brain development\u2014cerebral cortex radial migration, forebrain radial glial differentiation, and neural tube patterning\u2014indicating a shared role in brain formation and regional patterning. A translation term appears but does not define the central theme, which is neurodevelopmental processes.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021799","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0071389","count":4},{"id":"GO:0021861","count":4},{"id":"GO:1903125","count":4}]},{"hash":"2298165079975638676","title":"Ribosome Biogenesis and rRNA Processing","description":"The strongest themes among the terms are ribosomal subunit biogenesis and maturation of SSU and LSU rRNA from tricistronic rRNA transcripts, signaling a clear focus on ribosome assembly and RNA processing. Other terms like DNA replication, mRNA splicing, and protein ubiquitination point to general nuclear housekeeping roles, while the embryonic development term may reflect pleiotropy or broader annotation. Overall, the cluster appears to represent proteins involved in ribosome biogenesis and RNA maturation rather than a specific developmental pathway.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048568","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0000463","count":3},{"id":"GO:0006260","count":3}]},{"hash":"1633667461121530942","title":"Ion and Neurotransmitter Transporters","description":"The top terms cluster around membrane transport, especially chemical synaptic transmission and transport of neurotransmitters (GABA, D-serine) and ions (sodium, ammonium). This points to proteins that function as membrane transporters or channels involved in ion homeostasis and neurotransmitter movement, despite some obsolete terms present. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007268","count":2},{"id":"GO:0015812","count":1},{"id":"GO:0006814","count":1},{"id":"GO:0006884","count":1},{"id":"GO:0035829","count":1}]},{"hash":"623845911075268620","title":"Innate immune recognition and signaling","description":"GO terms point to innate immune recognition and signaling: lectin pathway complement activation, stimulatory C-type lectin receptor signaling, and phagocytosis recognition. A few development-related terms appear (lymph vessel morphogenesis, metanephric development, cartilage condensation), which may reflect pleiotropy or broader annotations rather than a single cohesive pathway. With 4 proteins and no observed edges, the strongest shared theme is lectin- and phagocyte-associated immune activity.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036303","count":1},{"id":"GO:0090238","count":1},{"id":"GO:0001867","count":1},{"id":"GO:0090403","count":1},{"id":"GO:0006910","count":1}]},{"hash":"1855251720943846361","title":"Neural Development and Synaptic Signaling","description":"The top GO terms cluster around neural development programs (embryonic morphogenesis, myelination, synapse organization) and signaling pathways (SHH, STAT phosphorylation) as well as cell\u2013cell interactions and trans-synaptic communication, suggesting these proteins participate in neural development and establishment of synaptic connectivity. The vagus development term is an outlier but does not override the overall neural-development theme.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042517","count":4},{"id":"GO:0060068","count":3},{"id":"GO:0007156","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0007224","count":3}]},{"hash":"1056054794825284557","title":"Neuronal ubiquitination and JNK signaling","description":"Based on the GO terms, the cluster centers on ubiquitin-dependent protein turnover (autoubiquitination, proteolysis, stabilization) and its regulation, with added neuronal synaptic context (neuroligin clustering, postsynaptic assembly) and JNK pathway modulation, suggesting a role in neuron-specific protein turnover and signaling at synapses.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050821","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0097198","count":1}]},{"hash":"1871394896355406150","title":"Developmental signaling and cell cycle regulation","description":"This cluster's top GO terms cluster around embryonic development (embryonic body morphogenesis; dorsal root ganglion development; renal vesicle formation) and signaling control (negative regulation of canonical Wnt signaling), along with cell cycle/centrosome-related processes (regulation of cell cycle; centriole-centriole cohesion; centromeric sister chromatid cohesion). While a few terms like vacuole inheritance and proton transmembrane transport are more general, the dominant themes suggest proteins involved in developmental signaling linked to cell-cycle coordination. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010909","count":3},{"id":"GO:0010172","count":3},{"id":"GO:0070602","count":3},{"id":"GO:0072033","count":3},{"id":"GO:0030997","count":3}]},{"hash":"172358567904178767","title":"Stimulus-Response Signaling in Development","description":"These terms cluster around cellular responses to internal and external cues (TGF-beta stimulus, mechanical stimulus, nutrient response) and pathways influencing survival (extrinsic apoptotic signaling). The additional terms on nervous system development and meristem identity suggest a broader developmental role for signaling processes. Overall, the group appears to reflect general stimulus-driven signaling that shapes development across contexts, rather than a single well-defined pathway.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0007584","count":2},{"id":"GO:2001238","count":2}]},{"hash":"241654000098478674","title":"Unknown","description":"The GO terms are diverse, including plant meristem maintenance, various signaling pathways (TGF-beta/SMAD, NF-kappaB), vacuole fusion, and photosystem-related adjustments, with no single unifying function. There are no edges connecting the proteins, suggesting no cohesive functional cluster can be inferred. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010074","count":1},{"id":"GO:0046827","count":1},{"id":"GO:0010991","count":1},{"id":"GO:0061191","count":1},{"id":"GO:0071560","count":1}]},{"hash":"1780329637496460320","title":"Nuclear hormone receptor signaling and circadian transcription","description":"This cluster is dominated by GO terms for DNA-templated transcription and for signaling pathways of nuclear hormone receptors (estrogen and ecdysone receptors), along with circadian regulation of gene expression. Together these point to a coherent theme of transcriptional control driven by nuclear receptors with circadian timing, with a few peripheral terms related to brain development and lipid metabolism. Therefore, the label captures the core functional motif of the cluster.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0034971","count":3},{"id":"GO:0035076","count":3},{"id":"GO:1901522","count":3},{"id":"GO:0032922","count":3}]},{"hash":"766588391536554310","title":"Unknown","description":"The GO terms are highly diverse, spanning vesicle trafficking (endosome transport), membrane proteolysis regulation, various developmental processes (bone/adipose lineage, brood size), signaling, and cell cycle, with no clear, single functional theme connecting the proteins. There are no edges to suggest a cohesive module, so a specific, representative label cannot be determined.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034499","count":1},{"id":"GO:0051044","count":1},{"id":"GO:0060378","count":1},{"id":"GO:0045022","count":1},{"id":"GO:0048310","count":1}]},{"hash":"1117350192124151717","title":"Opioid- and NO-mediated synaptic signaling","description":"The top GO terms point to synapse localization and signaling, including cellular response to morphine, regulation of opioid receptor signaling, receptor localization to synapse, and retrograde nitric oxide signaling, indicating neuromodulatory signaling at synapses driven by opioids and NO.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0098924","count":3},{"id":"GO:0071315","count":3},{"id":"GO:1904781","count":3},{"id":"GO:0035418","count":3},{"id":"GO:0032416","count":3}]},{"hash":"1301453373498075242","title":"Neuronal development and immune signaling","description":"The terms cluster around brain development and neuronal function (learning/memory; neuronal/glial apoptotic regulation) and also involve immune/cytokine signaling (IL-6/IL-2 production, IFN-beta regulation) and related signaling pathways (calcium release, TGF-beta). This suggests a functional theme of neural development coupled with neuro-immune communication, though the signals are somewhat diverse. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007059","count":1},{"id":"GO:0034349","count":1},{"id":"GO:0043525","count":1},{"id":"GO:0007611","count":1},{"id":"GO:0032755","count":1}]},{"hash":"1413271700561686870","title":"Innate Immune Signaling and Cytokine Production","description":"The GO terms point to activation of innate immune pathways (TLR signaling, dsRNA sensing) and increased production of cytokines and chemokines (CXCL1, IL-6, IL-13, IFN-\u03b3) with defense against Gram-negative bacteria. The mitotic spindle term appears incidental, not core to the cluster\u2019s function. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007052","count":1},{"id":"GO:0034123","count":1},{"id":"GO:2000340","count":1},{"id":"GO:0045080","count":1},{"id":"GO:0032736","count":1}]},{"hash":"1210565887552199863","title":"Unknown","description":"The GO terms here are scattered across immune response (adaptive immunity, RIG-I signaling) and diverse cellular processes (ubiquitination, peroxisome import, spindle pole regulation, dosage compensation, JNK signaling), with several obsolete terms, offering no single coherent function to bind the cluster. Therefore, there is no clear, representative theme to name the cluster confidently.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0002250","count":4},{"id":"GO:0090073","count":4},{"id":"GO:0009048","count":4},{"id":"GO:0016558","count":4},{"id":"GO:0039536","count":4}]},{"hash":"46850983605317747","title":"Hair Keratinization Proteins","description":"The top GO terms point to hair biology, specifically the hair cycle and keratinization, suggesting these proteins are involved in hair follicle structure or keratin fiber formation. This forms a cohesive, hair-related functional group despite the small cluster size.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042633","count":4},{"id":"GO:0031424","count":4}]},{"hash":"1937902581802891240","title":"Developmental RNA processing and chromatin regulation","description":"The GO terms point to RNA processing (splicing, mRNA export) and chromatin modification (histone acetylation) with developmental contexts (mesoderm, seminiferous tubule development) and stress-responsive regulation (hypoxia, apoptotic signaling), suggesting a theme of developmental gene expression control via RNA processing and chromatin state.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0072520","count":3},{"id":"GO:0043981","count":3},{"id":"GO:0043966","count":3},{"id":"GO:0043982","count":3}]},{"hash":"2245878945225075802","title":"Ubiquitin-Mediated Proteostasis","description":"This cluster centers on protein ubiquitination and degradation (polyubiquitination, ERAD pathway) and related post-translational modifications (methylation). It also includes stress- and apoptosis-related processes, suggesting regulation of protein turnover and signaling under stress, with some developmental roles. The common theme appears to be ubiquitin-proteasome\u2013driven proteostasis and PTMs rather than a single, narrow function. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000011","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0030433","count":3},{"id":"GO:2001235","count":2},{"id":"GO:2000728","count":2}]},{"hash":"582323926626728045","title":"Ubiquitination-linked inflammatory signaling","description":"The Top Terms include two ubiquitination-related terms (protein autoubiquitination; protein K6-linked ubiquitination) and two inflammatory signaling terms (TNF-mediated signaling; regulation of JNK cascade), pointing to ubiquitination as a regulator of inflammatory pathways. While other terms touch chromatin remodeling or dosage compensation, these are less directly connected to the core functions. Therefore, labeling it as ubiquitination-linked inflammatory signaling best captures the cluster\u2019s likely theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090073","count":3},{"id":"GO:0009048","count":3},{"id":"GO:0070512","count":3},{"id":"GO:0046328","count":3},{"id":"GO:1903762","count":3}]},{"hash":"1923474707629447456","title":"Embryonic Development and Tissue Patterning","description":"Top terms indicate involvement across multiple developmental processes and tissue specification, including palate (roof of mouth), mesoderm, skeletal muscle, thyroid gland, placenta, and left-right pattern formation, alongside general transcriptional regulation. This suggests the cluster centers on morphogenesis and lineage patterning rather than a single, cohesive pathway, hence a developmental/tissue-patterning label captures the common theme.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0007519","count":2},{"id":"GO:0006366","count":2},{"id":"GO:0030878","count":2}]},{"hash":"1588660742611319239","title":"Neural cell adhesion and brain development","description":"These proteins show a theme of adhesion-related interactions linked to neural development. Several GO terms emphasize cell-cell adhesion and cadherin-mediated junctions (homophilic adhesion; cadherin-mediated adhesion; cell-cell junction organization) and brain development, with supplementary references to neuronal stem cell maintenance and oligodendrocyte progenitor regulation. While some terms touch on epithelial intermicrovillar adhesion and other processes, the dominant signal points to adhesion functions guiding neural tissue development. Confidence: Medium","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0097150","count":1},{"id":"GO:0002315","count":1},{"id":"GO:0070445","count":1},{"id":"GO:0045216","count":1},{"id":"GO:0055096","count":1}]},{"hash":"2153065161145461211","title":"Embryonic eye development and retinal metabolism","description":"The top GO terms are dominated by eye/retina-related processes (embryonic camera-type eye development, retinal metabolic process, 9-cis-retinoic acid biosynthetic process, retinal metabolic process), suggesting the proteins cluster around retinoid signaling and ocular development. Some broader craniofacial-development terms appear (neural crest development, olfactory pit development), but the strongest signal is eye/retina-focused, justifying this label.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042904","count":3},{"id":"GO:0014032","count":2},{"id":"GO:0006678","count":2},{"id":"GO:0001936","count":2},{"id":"GO:0042574","count":2}]},{"hash":"2128962528835731842","title":"Unknown","description":"The listed GO terms are heterogeneous (apoptotic process, xenobiotic response, cAMP signaling, extracellular signal regulation, corneocyte development) with some obsolete entries, giving no clear, single biological theme to tie the proteins together. Confidence in a specific functional label is not justifiable from the terms provided.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0044179","count":2},{"id":"GO:0009405","count":1},{"id":"GO:1900116","count":1},{"id":"GO:0006915","count":1},{"id":"GO:0071320","count":1}]},{"hash":"729383852493821736","title":"Neuronal vesicle trafficking and neurotransmitter release","description":"The cluster centers on vesicle transport and signaling processes: ARF-related signal transduction, activation of GTPases, and microtubule-based movement point to vesicle trafficking, while catecholamine secretion and tachykinin receptor signaling indicate neurotransmitter release pathways. Extracellular matrix/adherence terms are present but appear secondary to the core trafficking/secretion theme. Overall, these proteins likely participate in neuronal vesicle trafficking and neurotransmitter release.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010765","count":3},{"id":"GO:0032012","count":3},{"id":"GO:0030212","count":2},{"id":"GO:0033633","count":2},{"id":"GO:0010748","count":2}]},{"hash":"1762104355178684497","title":"Immune Activation and Signaling","description":"The listed GO terms mainly point to immune-related processes and signaling events: response to interferon, neutrophil chemotaxis, regulation of T cell proliferation, platelet activation, and general signaling such as GTPase activation and response to TGF-beta. Although a couple terms touch neuronal development, the dominant pattern is immune cell activation and intercellular signaling, justifying a label focused on immune activation.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071346","count":1},{"id":"GO:0008360","count":1},{"id":"GO:2000562","count":1},{"id":"GO:0043525","count":1},{"id":"GO:0090630","count":1}]},{"hash":"595085345647471877","title":"Unknown","description":"Top Terms are empty and there are no edges or triangles, giving no GO-based signal for a shared function. Although 3 proteins were re-added by ReCIPE, this does not provide a coherent functional theme to name the cluster.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1699742149590663505","title":"Nuclear protein quality control and ubiquitination","description":"This cluster centers on nuclear-associated protein handling and ubiquitin-mediated regulation, as evidenced by terms referencing unfolded protein maintenance (ERAD-related), localization to the nuclear pore, PML body organization, and protein autoubiquitination. While other GO terms (transcription/translation) appear, the strongest coherent theme ties to nuclear protein quality control and ubiquitination pathways. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904378","count":3},{"id":"GO:0090204","count":3},{"id":"GO:0017085","count":3},{"id":"GO:0030578","count":3},{"id":"GO:0051865","count":3}]},{"hash":"1654380577718671723","title":"Nuclear RNA processing and splicing","description":"This cluster is dominated by terms related to spliceosome assembly and mRNA processing (splicing via spliceosome, snRNP assembly, deadenylation-dependent decapping, P-body assembly, and mRNA metabolic processes), indicating proteins primarily involved in nuclear RNA maturation and turnover rather than a single signaling pathway. While other terms touch on transcription termination and cell cycle regulation, the cohesive theme centers on RNA splicing and processing.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033962","count":2},{"id":"GO:0006369","count":2},{"id":"GO:0009414","count":2},{"id":"GO:0042633","count":2},{"id":"GO:0051170","count":2}]},{"hash":"1767023844428419468","title":"Nucleotide Metabolism and Salvage","description":"The GO terms cluster around nucleotide processing: AMP salvage, ADP and CDP biosynthesis, GTP metabolic process, and purine ribonucleotide interconversion, indicating a focus on nucleotide biosynthesis and turnover. While liver and brain development terms appear, they are incidental compared with the strong nucleotide metabolism signal, suggesting the proteins primarily function in nucleotide metabolism rather than developmental processes.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":3},{"id":"GO:0046940","count":3},{"id":"GO:0046939","count":3},{"id":"GO:0044209","count":3},{"id":"GO:0046041","count":3}]},{"hash":"1945890714745454432","title":"Unknown","description":"The GO terms span ER targeting by SRP, calcium signaling, platelet activation, and diverse immune and developmental signaling, with no single unifying function across the proteins, making a precise label difficult to assign.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006614","count":1},{"id":"GO:0006616","count":1},{"id":"GO:0071346","count":1},{"id":"GO:0008360","count":1},{"id":"GO:2000562","count":1}]},{"hash":"933704421554146727","title":"Meiosis-linked DNA repair and kinetochore localization","description":"The top GO terms cluster around meiotic cell cycle, DNA double-strand break repair via nonhomologous end joining, and protein localization to the kinetochore, which together point to roles in chromosome segregation and genome maintenance during meiosis. Other terms like cell-cell adhesion or neuron differentiation appear less central to this core function, likely reflecting broader multifunctionality or annotation noise. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:2001034","count":3},{"id":"GO:0098609","count":3},{"id":"GO:0051321","count":3},{"id":"GO:0034501","count":3},{"id":"GO:1903244","count":3}]},{"hash":"1938516341275929072","title":"Vertebrate Developmental Processes","description":"The top GO terms cluster around development of vertebrate tissues and organs\u2014including somite formation, brain and retina development, muscle development, and neural differentiation\u2014suggesting proteins with roles in embryonic development and tissue specification. A few terms (sulfur oxidation, activation of meiosis) appear peripheral, but overall the dominant signal is vertebrate development.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014807","count":2},{"id":"GO:0035847","count":2},{"id":"GO:0007517","count":2},{"id":"GO:0060677","count":2},{"id":"GO:0021516","count":2}]},{"hash":"2225295161031653220","title":"Chromatin remodeling and ribosome biogenesis","description":"Based on the prominent GO terms for nucleosome assembly/disassembly, histone acetylation regulation, and ribosome biogenesis, the cluster seems centered on nuclear chromatin dynamics together with ribosome production, with smaller hints of signaling and transport. This combination supports a cohesive theme of chromatin remodeling coupled to ribosome biogenesis.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032147","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0006337","count":1},{"id":"GO:0035041","count":1},{"id":"GO:0071442","count":1}]},{"hash":"1058513516981172499","title":"Unknown","description":"The top GO terms are highly diverse, spanning cell cycle and division, telomere localization, mitochondrial import, pore complex assembly, protein misfolding response, and various stress responses. There is no clear, singular functional theme tying these three proteins together, suggesting no cohesive cluster-specific function can be inferred from the terms provided. ","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:1904851","count":3},{"id":"GO:0046686","count":3},{"id":"GO:0046931","count":3},{"id":"GO:0045041","count":3}]},{"hash":"875495404152911235","title":"Developmental and Apoptosis Regulation","description":"The GO terms prominently feature embryonic organ development, retina development, and skeletal morphogenesis, along with positive regulation of apoptotic signaling and glial apoptotic process. This points to a theme around developmental programs that regulate cell survival, i.e., apoptosis during organ formation. Additional terms like cellular response to hypoxia and TGF-beta stimulus indicate stress-signaling contexts often linked to development. While there are other entries (histone methylation, mRNA export) that are less coherent, the dominant set ties development with apoptosis and stress response, supporting the label.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001235","count":2},{"id":"GO:2000728","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0034349","count":2},{"id":"GO:0048705","count":2}]},{"hash":"674535830799933417","title":"Embryonic organogenesis and neural development","description":"The proteins in this cluster are linked to broad embryonic development across multiple tissues, including somitogenesis, muscle organ development, brain and retina formation, spinal cord development, ureteric bud elongation, and neural cell differentiation, indicating a cohesive theme of organogenesis with neural specification.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0014807","count":3},{"id":"GO:0035847","count":3},{"id":"GO:0007517","count":3},{"id":"GO:0060677","count":3},{"id":"GO:0021516","count":3}]},{"hash":"2137774164666165383","title":"Unknown","description":"The GO terms are highly diverse (immune tolerance, tissue development, endosome transport, injury response, drug response), with no single cohesive function across the three proteins. This suggests no clear common theme; label as Unknown.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0002651","count":3},{"id":"GO:0060068","count":3},{"id":"GO:0032801","count":3},{"id":"GO:0009611","count":3},{"id":"GO:0032762","count":3}]},{"hash":"881653673887085435","title":"Chaeta and cilium morphogenesis","description":"This cluster centers on insect development of specialized structures (chaeta) and ciliary-related processes, with terms for chaeta development/morphogenesis and cilium assembly/ intraciliary transport. Wing disc development and DNA-templated transcription support a developmental program, while centrosome-associated microtubule anchoring and nuclear pore complex assembly reflect cytoskeletal and nucleocytoplasmic transport facets linked to ciliogenesis. Confidence: Medium","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0022416","count":2},{"id":"GO:1902857","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0035220","count":2},{"id":"GO:0006351","count":2}]},{"hash":"756703357601295254","title":"Nucleotide salvage and catabolism","description":"Most terms point to nucleotide turnover and salvage (uridine/guanosine/purine ribonucleoside salvage, AMP salvage) with related catabolic processes, suggesting the cluster centers on nucleotide salvage pathways. A few terms (immune T cell differentiation, menaquinone biosynthesis, glucose starvation response) seem ancillary or noisy given the small cluster size and cross-species annotations.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006218","count":1},{"id":"GO:0044209","count":1},{"id":"GO:0046638","count":1},{"id":"GO:0034418","count":1},{"id":"GO:0019284","count":1}]},{"hash":"1885164348248516189","title":"Bacterial envelope polysaccharide and wall biosynthesis","description":"GO terms cluster around biosynthesis of envelope components such as lipopolysaccharide, lipid A, peptidoglycan, slime layer polysaccharides, and UDP-N-acetylglucosamine, as well as associated cell morphogenesis. This indicates a cohesive role in building the bacterial cell wall and surface glycans that define envelope structure and shape.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009089","count":1},{"id":"GO:0008360","count":1},{"id":"GO:0009103","count":1},{"id":"GO:0045228","count":1},{"id":"GO:0009245","count":1}]},{"hash":"1895492244024833051","title":"Ubiquitin-Proteasome and Autophagy Regulation","description":"The top GO terms cluster around ubiquitin-dependent proteolysis (proteasomal degradation, K48-linked ubiquitination, autoubiquitination) and regulation of autophagy (autophagosome maturation, mitophagy). There are also a peroxisome import term and a plant secondary metabolism term that may reflect broader quality-control roles or annotation noise. Overall, the cluster points to protein turnover and organelle quality control via ubiquitin-proteasome and autophagy pathways.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009718","count":1},{"id":"GO:1903415","count":1},{"id":"GO:1901525","count":1},{"id":"GO:1901098","count":1},{"id":"GO:0032435","count":1}]},{"hash":"506515843195493123","title":"Unknown","description":"The GO terms span very different processes (proteolysis, translation, chromatin organization, photosynthesis, transport, collagen catabolic), with no dominant shared function in the cluster. The lack of consistent functional signal and the absence of linking edges suggest there is no coherent theme tying these proteins together.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003094","count":1},{"id":"GO:0035551","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0034724","count":1},{"id":"GO:0030574","count":1}]},{"hash":"1821100949195607056","title":"Unknown","description":"The three proteins share a scattered set of GO terms spanning metabolism (amino acid and nucleotide), chemotaxis, differentiation, and physiological processes (myelination regulation, angiogenesis, gastric motility), with no cohesive single function linking them. This lack of a common theme makes it inappropriate to assign a specific label; hence Unknown with no confidence.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000162","count":2},{"id":"GO:0006206","count":2},{"id":"GO:0006935","count":2},{"id":"GO:0031641","count":2},{"id":"GO:0046104","count":2}]},{"hash":"439222080766097654","title":"Spliceosome Assembly and RNA Processing","description":"The top GO terms center on prespliceosome and U2-type splicing, plus regulation of mRNA splicing via the spliceosome, indicating a coherent role in pre-mRNA processing and spliceosome assembly; other terms are broader but do not strongly override the splicing signal.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1990120","count":3},{"id":"GO:0070869","count":3},{"id":"GO:0008306","count":3},{"id":"GO:0070417","count":3},{"id":"GO:1903241","count":3}]},{"hash":"153305745798872261","title":"RNA methylation and rRNA processing","description":"Based on the GO terms, there is a clear enrichment for methylation activities (protein methylation, tRNA methylation) and RNA processing (rRNA processing). This points to a core theme around RNA modification/processing within the cluster, despite the presence of other less-connected terms. Given the small cluster size and lack of interaction data, this label is plausible but not definitive.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009236","count":2},{"id":"GO:0006479","count":2},{"id":"GO:0030488","count":2},{"id":"GO:0006364","count":2},{"id":"GO:0051160","count":1}]},{"hash":"1208174759795083188","title":"PI3K/AKT-driven developmental differentiation","description":"This cluster features GO terms tied to development and differentiation across multiple tissues (vagina development; mammary gland epithelial cell proliferation; neurogenesis; osteoclast differentiation; myoblast differentiation) along with PI3K/AKT signaling. The presence of proliferation, differentiation, and survival signals suggests a theme of growth/differentiation control mediated by PI3K/AKT, rather than a single tissue-specific function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060068","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0022008","count":2},{"id":"GO:0008284","count":2},{"id":"GO:0033598","count":2}]},{"hash":"2042274042557329594","title":"Skeletal muscle calcium signaling and fiber-type regulation","description":"The cluster is dominated by GO terms tied to calcium ion concentration and calcium handling in skeletal muscle, including SR/ER and Golgi Ca2+ homeostasis, Ca2+-triggered NFAT/calcineurin signaling, calcium release and reuptake, and transitions between fast and slow muscle fibers. Although a few terms (stilbene catabolism, copper export, potassium import) are less directly connected, the prevailing pattern points to calcium-dependent control of muscle function.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090076","count":3},{"id":"GO:1990573","count":3},{"id":"GO:0032470","count":3},{"id":"GO:0070885","count":3},{"id":"GO:0046272","count":3}]},{"hash":"960480677601628777","title":"ER-associated degradation and ubiquitin-mediated proteolysis","description":"The cluster shows strong signals for ERAD-related maintenance of unfolded proteins, autoubiquitination, and aggresome assembly, pointing to proteostasis via the ubiquitin-proteasome system as the main theme. While a few terms touch on transcription or translation, the clearest common function across the terms is protein quality control and degradation through ubiquitination.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904378","count":3},{"id":"GO:0017085","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0006357","count":3},{"id":"GO:0006412","count":3}]},{"hash":"151828726480646791","title":"Amino acid and fatty acid catabolism; quinone biosynthesis","description":"The top GO terms cluster around catabolic processes for amino acids (valine, phenylacetate) and fatty acids, alongside biosynthesis of quinones (phylloquinone, menaquinone). This points to a metabolic module centered on energy-related breakdown pathways and quinone biosynthesis, rather than a single isolated function.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006574","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0006635","count":3},{"id":"GO:0042372","count":3},{"id":"GO:0009234","count":3}]},{"hash":"364746390079508066","title":"Unknown","description":"The GO terms for this cluster are highly heterogeneous, including stress responses (response to herbicide, response to ethanol), cellular signaling (cellular response to cAMP), apoptosis, immune/neuronal development (granulocyte differentiation, positive regulation of neuron projection development), and even obsolete terms. There is no clear, single biological process or pathway tying these proteins together, and the presence of obsolete terms suggests low interpretability. With no edges or cohesive functional signal, this cluster lacks a definite shared function.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051572","count":2},{"id":"GO:0042135","count":1},{"id":"GO:0009635","count":1},{"id":"GO:0071320","count":1},{"id":"GO:0006915","count":1}]},{"hash":"86956688508578450","title":"Mitochondrial dynamics and neuronal stress signaling","description":"The GO terms strongly point to mitochondrial processes (protein transport and inner membrane insertion, regulation of mitochondrial fission, and control of cytochrome c release) as well as cellular stress and apoptosis pathways in neurons (ER stress, NF-kappaB signaling, oxidative stress-related neuronal apoptotic signaling). The combination suggests a cohesive theme around mitochondrial dynamics in conjunction with neuronal stress responses, with ancillary transcriptional regulation components likely reflecting multi-functional proteins. Confidence: High","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":1},{"id":"GO:0032979","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0090141","count":1},{"id":"GO:0051865","count":1}]},{"hash":"485879759398624414","title":"Membrane Small-Molecule Transporters","description":"The GO terms point to transmembrane transport of small molecules and ions (inositol, pantothenate, biotin, glucose) and related ion export, indicating this cluster comprises membrane transport proteins.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015798","count":1},{"id":"GO:0015887","count":1},{"id":"GO:0071436","count":1},{"id":"GO:0015878","count":1},{"id":"GO:0008292","count":1}]},{"hash":"1184038241417615556","title":"Mitochondrial Fe-S Cluster Assembly","description":"The dominant GO terms describe mitochondrial processes: NADH to ubiquinone electron transport, assembly of respiratory chain complex II, and [2Fe-2S] cluster assembly and transfer, pointing to iron-sulfur cluster biogenesis in mitochondria as the shared function. A few terms relate to ribosome biogenesis or RNA processing, which may reflect annotation noise, but do not override the mitochondrial/Fe-S theme.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":1},{"id":"GO:0034553","count":1},{"id":"GO:0042273","count":1},{"id":"GO:0000280","count":1},{"id":"GO:0006364","count":1}]},{"hash":"2274923084146940297","title":"Unknown","description":"The GO terms are very heterogeneous, including angiogenesis regulation, muscle fiber type transitions, calcium signaling, multiple protein localization/trafficking processes (ER, endosome, ERAD, retrograde ER-to-cytosol transport), macrophage cytokine regulation, and mitochondrial mRNA polyadenylation. There is no single coherent functional theme tying these together, so a specific, representative label cannot be confidently assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016525","count":1},{"id":"GO:0014883","count":1},{"id":"GO:0051481","count":1},{"id":"GO:0014886","count":1},{"id":"GO:0097051","count":1}]},{"hash":"903822809864660939","title":"DNA Repair and Recombination","description":"The top GO terms are dominated by DNA recombination and nucleotide-excision repair, with DNA integration also represented, pointing to functions in DNA damage response and genome maintenance. While other terms touch on regulation and general protein turnover, the strongest and most consistent signal across the cluster centers on DNA repair/recombination activities, suggesting these proteins participate in genome maintenance pathways. Confidence is high that this label reflects the cluster\u2019s predominant function.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":3},{"id":"GO:0006289","count":3},{"id":"GO:0014070","count":3},{"id":"GO:1904378","count":2},{"id":"GO:0017085","count":2}]},{"hash":"789712119891867991","title":"Intrinsic apoptosis under oxidative stress (p53)","description":"Dominant GO terms indicate apoptotic signaling, especially the intrinsic p53-mediated pathway, with responses to hydrogen peroxide and other oxidative stresses, suggesting these proteins function in p53-driven apoptosis triggered by DNA damage and ROS. While some RNA processing and metabolic terms appear, the strongest signal is stress-induced apoptosis. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0042542","count":1},{"id":"GO:0036245","count":1},{"id":"GO:0006915","count":1},{"id":"GO:0072332","count":1}]},{"hash":"1036197298758194886","title":"Unknown","description":"The top GO terms cover immune signaling, development across multiple tissues (bone, nervous system, tracheal/tube morphogenesis), epithelial localization, and insect imaginal disc patterning, with no single shared function. Coupled with zero edges, there is no coherent theme linking these proteins, so a specific functional label cannot be confidently assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900041","count":2},{"id":"GO:0045176","count":2},{"id":"GO:0002315","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0021957","count":2}]},{"hash":"745210515458383269","title":"Embryonic eye development","description":"The top GO terms are strongly centered on eye formation and morphogenesis (embryonic camera-type eye development, optic cup morphogenesis, retinal metabolic process), with supporting terms related to craniofacial/neural crest aspects that can contribute to eye structures. This suggests the cluster is primarily involved in early eye development and morphogenesis.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0014032","count":3},{"id":"GO:0006678","count":3},{"id":"GO:0001936","count":3},{"id":"GO:0042574","count":3},{"id":"GO:0060166","count":3}]},{"hash":"1990299402821588007","title":"Nuclear Transport and Mitotic Membrane Dynamics","description":"This cluster\u2019s top GO terms center on nuclear import and export (regulation of protein import into nucleus, NLS-bearing protein import, tRNA export from nucleus), plus mitotic nuclear envelope remodeling (mitotic nuclear membrane disassembly, protein localization to nuclear inner membrane). Intracellular transport of virus and protein oligomerization terms further support a role in nuclear-cytoplasmic transport and assembly during cell division. Overall, a coherent theme around nuclear transport and mitotic envelope dynamics emerges.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007077","count":3},{"id":"GO:0042306","count":3},{"id":"GO:0006409","count":3},{"id":"GO:0075733","count":3},{"id":"GO:0006607","count":3}]},{"hash":"682743182757687542","title":"ECM Proteoglycan Biosynthesis and Lens Morphogenesis","description":"The top GO terms are dominated by proteoglycan biosynthesis (heparan sulfate, chondroitin sulfate) and tissue morphogenesis including lens transparency, pointing to extracellular matrix assembly and development as the core function; other terms appear ancillary.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048729","count":1},{"id":"GO:0036438","count":1},{"id":"GO:0015012","count":1},{"id":"GO:0002121","count":1},{"id":"GO:0006486","count":1}]},{"hash":"1763929753298934506","title":"Signal transduction, cytoskeleton remodeling, and apoptosis regulation","description":"This cluster centers on signaling cascades (GTPase regulation, ERK/MAPK activity, serine phosphorylation), cytoskeletal dynamics (stress fiber assembly), and apoptotic processes (apoptosis, engulfment of apoptotic cells), with additional links to ubiquitination and immune-related regulation. The common theme is signaling-driven control of cytoskeletal remodeling and cell fate, with some ancillary immune/mechanosensory associations.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0045953","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0070374","count":2}]},{"hash":"984941046730056977","title":"Notch-target transcription and development regulation","description":"The top terms cluster around transcription initiation and regulation of Notch target genes (DNA-templated transcription initiation, RNA Pol II preinitiation complex assembly, positive regulation of transcription of Notch receptor target), with supportive links to developmental processes such as follicle cell development and cell growth. The presence of snoRNP assembly and chromatin-related terms suggests additional regulatory layers at the transcription/chromatin level during development. Collectively, these terms point to a cohesive theme of transcriptional control in a developmental/Notch-sensitive context.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007221","count":3},{"id":"GO:0006352","count":3},{"id":"GO:0000492","count":3},{"id":"GO:0030307","count":3},{"id":"GO:0030707","count":3}]},{"hash":"13130085260888028","title":"Embryonic organogenesis and heart development","description":"The GO terms point to multiple embryonic development processes, especially heart formation (outflow tract morphogenesis, cardiac muscle proliferation) along with pharyngeal system, hindlimb, and metanephros development, plus signaling pathways (ERK cascade, activin receptor signaling) that coordinate organogenesis. This pattern suggests a cohesive theme of embryonic organ formation and heart development across tissues.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060045","count":2},{"id":"GO:0060128","count":2},{"id":"GO:0035116","count":2},{"id":"GO:0021703","count":2},{"id":"GO:0001656","count":2}]},{"hash":"889750636230921033","title":"Stress-Responsive mRNA Regulation","description":"The top GO terms center on post-transcriptional control: regulation of mRNA stability in response to stress, mitochondrial mRNA polyadenylation, regulation of mRNA splicing, and positive regulation of mRNA binding. This points to a shared function in RNA processing and stability under stress, with some neural-related terms likely reflecting tissue-specific roles rather than core function. Overall, the cluster appears to represent stress-related mRNA regulation.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010610","count":3},{"id":"GO:0097222","count":2},{"id":"GO:0044830","count":2},{"id":"GO:0010323","count":2},{"id":"GO:0048024","count":2}]},{"hash":"1216677808464793098","title":"Mitosis and Cell Cycle Regulation","description":"The GO terms cluster around mitotic progression: cell cycle, exit from mitosis, cell division, centriole elongation regulation, and nuclear membrane reassembly, with supporting signals from related vesicle trafficking terms. This suggests the proteins participate in mitosis regulation and nuclear envelope dynamics rather than a single metabolic pathway.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":1},{"id":"GO:0071454","count":1},{"id":"GO:0006915","count":1},{"id":"GO:0019058","count":1},{"id":"GO:1903541","count":1}]},{"hash":"1749350259558803169","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036353","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0090073","count":2},{"id":"GO:0061158","count":2},{"id":"GO:0009048","count":2}]},{"hash":"348688351593691266","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048568","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0000463","count":3},{"id":"GO:0000472","count":3}]},{"hash":"361826338895765951","title":"Unknown","description":"The proteins show a scattered mix of GO terms across metabolism (urate, allantoin, purine, retinol), signaling/ECM interactions (extracellular matrix organization, regulation by extracellular stimulus, thyroid hormone transport), and cytoskeletal dynamics (lamellipodium/ruffle assembly), with no dominant shared function or strong connections. Because there is no cohesive theme linking the functions, the cluster is best described as Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019628","count":1},{"id":"GO:0043312","count":1},{"id":"GO:0042572","count":1},{"id":"GO:0019428","count":1},{"id":"GO:0001560","count":1}]},{"hash":"598331078027809044","title":"Translation Initiation and Stress Response","description":"Reasoning: The cluster\u2019s top terms center on translation initiation and reinitiation (formation of translation preinitiation complex, translation reinitiation) and regulation of mRNA export in response to heat stress, accompanied by stress-response processes (hypoxia, apoptotic signaling) and related epigenetic/methylation activities. This pattern suggests a theme of gene expression control under stress, particularly at the level of translation and RNA processing, rather than a single, cohesive developmental function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008283","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:2001235","count":2},{"id":"GO:2000728","count":2}]},{"hash":"38353589702945559","title":"Nutrient-Sensing Metabolic Regulation","description":"The GO terms cluster around metabolic control and nutrient signaling, including positive regulation of insulin secretion, cholesterol homeostasis, and regulation of gluconeogenesis, as well as cellular responses to nutrient levels. Additional terms related to retinoic acid signaling and hypoxia suggest broader metabolic and developmental signaling cross-talk. While some terms (like vaginal development or wound response) are less directly connected, the dominant theme is nutrient-sensing and metabolic regulation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032024","count":3},{"id":"GO:0071456","count":2},{"id":"GO:0060068","count":2},{"id":"GO:0009611","count":2},{"id":"GO:0048385","count":2}]},{"hash":"1969029616280179100","title":"Cytokine-driven inflammatory immune signaling","description":"The terms cluster around immune signaling and inflammation: production and signaling of interleukins (IL-5, IL-6), STAT activation, acute inflammatory response, and immunoglobulin-mediated responses. A few mitochondrial-related terms and pancreas development appear less central and may reflect noise, but the dominant theme is cytokine-driven immune response.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":1},{"id":"GO:0034553","count":1},{"id":"GO:0032722","count":1},{"id":"GO:0016064","count":1},{"id":"GO:0042523","count":1}]},{"hash":"329765046094967556","title":"NF-kappaB signaling and ubiquitin-mediated regulation","description":"The top GO terms cluster around modulation of inflammatory signaling pathways, especially NF-kappaB (positive regulation of canonical NF-kappaB signaling) and processes tied to ubiquitin regulation (autoubiquitination, negative regulation of ubiquitin-dependent protein catabolic process), with supporting hints from immune-related terms (IL-17 signaling, macrophage chemokine production) and nuclear body involvement (PML body organization). This suggests a cohesive function in regulating immune signaling through ubiquitin-based control mechanisms.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071641","count":1},{"id":"GO:1903762","count":1},{"id":"GO:1903883","count":1},{"id":"GO:0051865","count":1},{"id":"GO:0030578","count":1}]},{"hash":"1531753857695203961","title":"Growth Factor Signaling and Cytoskeletal Remodeling","description":"This cluster centers on signaling responses to growth factors (HGF, BMP, TGF-beta) and processes tied to actin-driven morphogenesis (lamellipodium formation, neuron projection development), suggesting a theme of signaling-driven cytoskeletal remodeling. Additional terms on autophagy regulation and microtubule-based organelle localization reinforce a broader context of coordinated signaling, trafficking, and morphological changes rather than a single enzymatic activity.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:2000786","count":3},{"id":"GO:1900144","count":3},{"id":"GO:0035728","count":3},{"id":"GO:1904694","count":3},{"id":"GO:2000394","count":3}]},{"hash":"1792258154734000060","title":"Iron Homeostasis and Fe-S Enzyme Metabolism","description":"This cluster\u2019s GO terms cluster around iron handling, including iron transport, siderophore-iron import, and detoxification of iron ions, together with Fe-S\u2013dependent enzymes such as aconitate hydratase and succinate dehydrogenase; these point to a core theme of iron metabolism and Fe-S cluster\u2013related energy metabolism, with other terms representing peripheral annotations.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048147","count":2},{"id":"GO:0033214","count":1},{"id":"GO:0097286","count":1},{"id":"GO:0006950","count":1},{"id":"GO:0006880","count":1}]},{"hash":"1869797295474998595","title":"Immune development and signaling","description":"The cluster is dominated by immune-related terms: lymph vessel morphogenesis, complement activation via the lectin pathway, phagocytosis recognition, and stimulatory C-type lectin receptor signaling. Positive regulation of arachidonate secretion also aligns with inflammatory mediator production. While there are developmental terms (kidney and cartilage development), the prevailing theme centers on immune responses and lymphatic/immune signaling.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0036303","count":3},{"id":"GO:0090238","count":3},{"id":"GO:0001867","count":3},{"id":"GO:0090403","count":3},{"id":"GO:0006910","count":3}]},{"hash":"1269424481919878332","title":"Collagen Biosynthesis and ECM Organization","description":"Top GO terms in this cluster predominantly point to extracellular matrix processes, especially collagen fibril organization and collagen biosynthetic process, suggesting a core function in collagen production and ECM assembly. While other terms refer to signaling regulation and various cellular processes, the collagen-related terms provide the most cohesive theme for these proteins. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010739","count":1},{"id":"GO:0031953","count":1},{"id":"GO:0050765","count":1},{"id":"GO:0061003","count":1},{"id":"GO:0010745","count":1}]},{"hash":"1683644540435797657","title":"Embryonic and neural development","description":"The GO terms cluster around broad developmental processes across multiple tissues, especially neural development (brain, retina, amacrine cell differentiation, spinal cord) and organogenesis (muscle, ureteric bud), indicating a common theme of embryonic development rather than a single tissue-specific function.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014807","count":2},{"id":"GO:0035847","count":2},{"id":"GO:0007517","count":2},{"id":"GO:0060677","count":2},{"id":"GO:0021516","count":2}]},{"hash":"1237192935637558824","title":"Embryonic and organ development","description":"Most terms describe development of various tissues and organs (muscle, brain, retina, spinal cord, uterus, kidney), including somitogenesis regulation; together they point to a broad developmental program rather than a single pathway. A few terms (sulfur oxidation, activation of meiosis) are unrelated outliers, but the dominant signal supports developmental processes.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014807","count":1},{"id":"GO:0035847","count":1},{"id":"GO:0007517","count":1},{"id":"GO:0060677","count":1},{"id":"GO:0021516","count":1}]},{"hash":"485825112255470692","title":"Multi-lineage differentiation and development","description":"This cluster centers on GO terms related to differentiation and development across multiple lineages and tissues (granulocytes, erythrocytes, megakaryocytes, hypothalamus, mammary gland, muscle). While there are a few metabolic and inflammatory terms, the dominant pattern is differentiation programs spanning diverse cell types, suggesting proteins tied to developmental processes rather than a single pathway. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030851","count":2},{"id":"GO:0045648","count":2},{"id":"GO:0042853","count":2},{"id":"GO:0060056","count":1},{"id":"GO:0035155","count":1}]},{"hash":"648731864956547583","title":"Embryonic development and morphogenesis","description":"The top GO terms point to a cohesive developmental program, with emphasis on embryogenesis, mesoderm formation, placenta/organ development, tissue morphogenesis (cartilage, roof of the mouth), and left-right patterning, suggesting a cluster of proteins involved in early developmental processes and morphogenetic events.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0003198","count":1},{"id":"GO:0060806","count":1},{"id":"GO:0010957","count":1},{"id":"GO:0007498","count":1}]},{"hash":"203986350799634269","title":"GPCR signaling and calcium regulation","description":"The terms span immune regulation, chemokine production, GPCR signaling, calcium release, endocytosis, and organ-level cell communication, indicating a general signaling/regulatory theme rather than a single specific function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010745","count":2},{"id":"GO:2000340","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0051209","count":2},{"id":"GO:0044707","count":2}]},{"hash":"853008166939583085","title":"Actin Cytoskeleton Remodeling and Cytokinesis","description":"Top GO terms point to actin cytoskeleton organization, sarcomere organization, and mitotic contractile ring assembly, all tied to actin dynamics and cell division. Regulation of Rho signaling and cell adhesion further support this cytoskeletal theme. Some terms (neural development, IL-2 production) are broader, but the dominant pattern is actin remodeling and contractile ring\u2013driven cytokinesis.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0021873","count":2},{"id":"GO:1902405","count":2},{"id":"GO:1903477","count":2}]},{"hash":"607836066651042311","title":"Cardiac development & smooth muscle signaling","description":"This cluster centers on heart development and signaling pathways that regulate muscle cell growth and differentiation, including GPCR acetylcholine signaling, MAPK cascade regulation, and smooth muscle proliferation. The shared GO terms point to a cardiovascular signaling module that coordinates cardiac and smooth muscle physiology, justifying a label around cardiac development and muscle signaling.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0007213","count":2},{"id":"GO:0045669","count":2},{"id":"GO:0043410","count":2},{"id":"GO:0048661","count":2}]},{"hash":"73275362909815470","title":"Neural development and cadherin-mediated cell adhesion","description":"The cluster centers on brain development and neuronal progenitor maintenance (e.g., neuronal stem cell maintenance, brain development) and multiple cell\u2013cell adhesion processes, especially cadherin- and junction-associated adhesion. Although a few outliers (e.g., B cell differentiation, LDL signaling) appear, the dominant theme is neural development with cadherin-mediated cell adhesion. ","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097150","count":1},{"id":"GO:0002315","count":1},{"id":"GO:0070445","count":1},{"id":"GO:0045216","count":1},{"id":"GO:0055096","count":1}]},{"hash":"2147358820711262309","title":"Neural and Eye Development","description":"The top GO terms are dominated by neural and eye-related processes (neuron projection development, retina development, lens fiber cell differentiation, pyramidal neuron differentiation), suggesting the proteins cluster around neural and ocular development functions. Other terms appear more peripheral (defense, fertilization), but the core theme is neural/eye development.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":2},{"id":"GO:0042742","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0070306","count":2}]},{"hash":"888525464913042506","title":"Neurotransmitter Secretion and Amino Acid Transport","description":"The terms point to neural signaling and amino acid handling, with glycine/serotonin/dopamine-related secretion, uptake, and transport, plus glycine import and proline transport. Although some terms touch on development or glial growth, the dominant theme is neurotransmission and amino acid transport, suggesting these proteins function in synaptic signaling and amino acid movement. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:1905847","count":1},{"id":"GO:0042066","count":1},{"id":"GO:0061537","count":1},{"id":"GO:0014064","count":1}]},{"hash":"1313297165744878439","title":"Unknown","description":"GO terms are highly diverse with only a couple directly linked to muscle development and sarcomere organization; many terms concern plant tropisms, immune differentiation, kidney function, and cell division, so there is no single coherent function tying all proteins together.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007519","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0009638","count":1},{"id":"GO:2001200","count":1},{"id":"GO:0035853","count":1}]},{"hash":"924976637477251414","title":"Photosynthesis-Related Energy Metabolism","description":"This cluster centers on photosynthesis and light-energy management (photosynthesis, nonphotochemical quenching) with supporting roles in nitrogen assimilation and proton transport, suggesting plastid-associated energy capture and regulation. Some terms (aromatic compound catabolism, CMP-N-acetylneuraminate metabolism) seem less directly connected, possibly reflecting annotation noise or broader metabolic capabilities. Overall, the proteins appear linked to photosynthetic energy metabolism, supporting the chosen label.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015979","count":1},{"id":"GO:1902600","count":1},{"id":"GO:0010196","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0055114","count":1}]}]