[{"hash":"562435645611107088","title":"Viral DNA Integration and Proviral Latency","description":"These GO terms cluster around a viral genome integrating into the host and establishing latency, evidenced by DNA integration, transposition, replication, and transcription-related terms, plus host entry and proviral latency. This pattern fits a retroviral or proviral lifecycle that modulates host transcription to maintain latency.","confidence":"High","size":29,"edges":322,"triangles":1993,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0015074","count":8},{"id":"GO:0046718","count":7},{"id":"GO:0039651","count":7},{"id":"GO:0075732","count":7},{"id":"GO:0075713","count":7}]},{"hash":"798340179334770967","title":"Nuclear import and nuclear pore complex assembly","description":"This cluster is dominated by GO terms related to importing proteins into the nucleus (including NLS-bearing and ribosomal proteins) and assembling the nuclear pore complex, indicating a coherent theme of nuclear transport and pore assembly. Additional terms on regulation of proteolysis and GTPase activity fit within the broader regulatory context of trafficking and nuclear transport processes, reinforcing a nucleus-centric functional cluster.","confidence":"High","size":29,"edges":372,"triangles":2903,"max_degree":28,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0060188","count":19},{"id":"GO:0006610","count":19},{"id":"GO:0000060","count":19},{"id":"GO:0051292","count":19},{"id":"GO:0006607","count":19}]},{"hash":"965770474569424419","title":"ER-Golgi trafficking and cell cycle regulation","description":"This cluster centers on intracellular transport between the ER and Golgi, plus components of cell division and chromatin/ transcription regulation (e.g., DNA-templated transcription, CENP-A chromatin assembly). Additional terms for microtubule severing, proteasome assembly, and ubiquitin-dependent ERAD point to protein quality control and mitotic machinery, suggesting a cohesive theme around trafficking, protein turnover, and cell-cycle\u2013related organization. The pigmentation term appears as an outlier. ","confidence":"Medium","size":29,"edges":170,"triangles":444,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006888","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0043473","count":3},{"id":"GO:0061641","count":3}]},{"hash":"267700513223969003","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":329,"triangles":2067,"max_degree":28,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":6},{"id":"GO:0006412","count":4},{"id":"GO:0008283","count":4},{"id":"GO:0031440","count":4},{"id":"GO:0070481","count":3}]},{"hash":"1799424172348405643","title":"Embryonic development and tissue differentiation","description":"This cluster centers on embryogenesis, patterning, and organogenesis, with terms spanning heart-related EMT in endocardial cushion formation, left-right patterning, cartilage morphogenesis, placenta/ trophoblast development, and endocrine/pancreatic lineage formation, all pointing to differentiation programs during development and associated signaling.","confidence":"High","size":29,"edges":45,"triangles":11,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":9},{"id":"GO:0035270","count":8},{"id":"GO:0060536","count":8},{"id":"GO:0060806","count":8},{"id":"GO:0060972","count":8}]},{"hash":"2044305553851750345","title":"Spliceosome-mediated RNA processing and export","description":"The cluster is enriched for GO terms centered on spliceosome-driven mRNA splicing, including regulation and positive regulation of splicing, plus downstream mRNA maturation steps such as stabilization and export, and even translation initiation, indicating a cohesive role in RNA processing and export.","confidence":"High","size":29,"edges":141,"triangles":337,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":8},{"id":"GO:0048026","count":5},{"id":"GO:0048255","count":5},{"id":"GO:0006378","count":4},{"id":"GO:0001731","count":3}]},{"hash":"357652814698934402","title":"Ubiquitin-Proteasome and Histone Methylation Regulation","description":"These terms cluster around protein turnover via ubiquitin-proteasome pathways (SCF-dependent ubiquitination and proteasomal degradation) and chromatin modification via histone methylation (H3K4, H3K79, H3K27). The co-occurrence suggests a functional link between proteostasis and epigenetic regulation, with additional hints of developmental and mitotic roles, supporting a coherent ubiquitination\u2013chromatin regulation theme. Some histone terms are obsolete, but the overall connection remains plausible.","confidence":"Medium","size":29,"edges":15,"triangles":2,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031146","count":8},{"id":"GO:0051568","count":8},{"id":"GO:0071276","count":8},{"id":"GO:0000209","count":8},{"id":"GO:0051260","count":8}]},{"hash":"351143542319697363","title":"Neuro-immune inflammatory signaling and behavior","description":"The terms show a strong emphasis on immune/inflammatory responses (LPS, defense against bacteria, inflammatory response, IL-6 regulation) together with neural/behavioral aspects (locomotory behavior, behavioral response to cocaine). While heart development and ERK signaling appear, the recurring theme ties immune activation to nervous system\u2013linked behaviors, suggesting a cluster centered on neuro-immune signaling with inflammatory and behavioral components.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":11},{"id":"GO:0070374","count":10},{"id":"GO:0032496","count":9},{"id":"GO:0042742","count":9},{"id":"GO:0007626","count":9}]},{"hash":"1409501727868716132","title":"Adaptive Immune Activation and T Cell Trafficking","description":"The top GO terms cluster around adaptive immunity, T cell proliferation and CCR7 signaling, plus cell\u2013cell adhesion and junction localization, suggesting proteins involved in T cell activation and trafficking within lymphoid tissues and at immune interfaces. Peripheral terms on development or epithelial maintenance are present but do not override the main immune-focused theme.","confidence":"High","size":29,"edges":6,"triangles":1,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:2000649","count":12},{"id":"GO:0007275","count":11},{"id":"GO:0007157","count":11},{"id":"GO:0002250","count":11},{"id":"GO:0031175","count":10}]},{"hash":"1490153113577434149","title":"Neural adhesion and synapse assembly","description":"The top terms cluster around neural development and synaptic organization, especially cell\u2013cell adhesion (heterophilic/homophilic) and positive regulation of synapse assembly, plus features like retina morphogenesis and sodium channel clustering that point to neuronal connectivity. Other terms (innate immunity, complement, ossification) appear peripheral or pleiotropic, not defining the main theme. Overall, the proteins seem tied to neural adhesion and synapse formation.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":14},{"id":"GO:0007399","count":14},{"id":"GO:0051965","count":14},{"id":"GO:0007156","count":13},{"id":"GO:0043931","count":12}]},{"hash":"438701249353819277","title":"Neural sensory learning and drug responses","description":"The top GO terms emphasize neuronal signaling, sensory perception (taste and olfactory), learning (olfactory learning, conditioned taste aversion), and responses to psychoactive substances (amphetamine, ethanol), along with synaptic vesicle regulation and ion transport. This points to a cohesive neural module involved in sensory processing, learning, and drug/chemical responses, justifying the label.","confidence":"High","size":29,"edges":171,"triangles":560,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0031631","count":29},{"id":"GO:0001975","count":29},{"id":"GO:0001661","count":29},{"id":"GO:0097011","count":29},{"id":"GO:0008355","count":29}]},{"hash":"62890631935187231","title":"Cell adhesion and immune regulation at host-pathogen interfaces","description":"The top GO terms cluster around heterophilic cell-cell adhesion and cell junction localization, with several entries on regulation of immune cell activity (macrophages, NK cells, cytotoxic T cells) and virion/symbiont entry. This suggests a theme centered on cellular interfaces where adhesion molecules influence signaling and immune interactions, alongside host-pathogen entry processes. The inclusion of heart tissue\u2013related adhesion (AV node) also reflects broad cell-adhesion roles at interfaces. Therefore the name emphasizes adhesion at cellular interfaces coupled with immune modulation at host-pathogen interaction sites.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":24},{"id":"GO:0046718","count":23},{"id":"GO:0043031","count":23},{"id":"GO:0002859","count":23},{"id":"GO:0043318","count":23}]},{"hash":"424563552941387482","title":"Glycinergic Neurotransmission and Amino Acid Transport","description":"The top GO terms cluster around glycine secretion and glycinergic synaptic transmission, along with glycine import and various amino acid transport processes (including taurine and leucine) and dopaminergic involvement in synaptic transmission. This suggests a cohesive theme of glycine-mediated signaling and general amino acid transport in neural contexts, with some related developmental and glial context terms providing ancillary support. ","confidence":"High","size":29,"edges":100,"triangles":73,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0061537","count":18},{"id":"GO:0060012","count":18},{"id":"GO:1903346","count":18},{"id":"GO:0051583","count":18},{"id":"GO:0042066","count":18}]},{"hash":"1035309348126831320","title":"Embryonic Development and Organogenesis","description":"The top GO terms point to palate and mesoderm development, patterning (left/right), heart-related EMT, hair follicle morphogenesis, and endocrine system development, all indicative of embryonic tissue morphogenesis and organ formation. Occasional terms for splicing and DNA replication are general cellular processes that support development, but the core signal is embryonic organogenesis and patterning.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060021","count":29},{"id":"GO:0007498","count":29},{"id":"GO:0031069","count":29},{"id":"GO:0010957","count":29},{"id":"GO:0035270","count":29}]},{"hash":"2165061197705511125","title":"Neural development and axonogenesis","description":"The cluster is dominated by GO terms tied to neural formation, including forebrain development, axonogenesis, neural tube closure, and dendritic spine morphogenesis, indicating a coherent role in neural development and neuron structure. Some terms involve broader cytoskeletal or signaling processes (spindle attachment, leukocyte chemotaxis, VEGF signaling, autophagy, Wnt regulation) but the neural development signals are the strongest unifying theme.","confidence":"High","size":28,"edges":349,"triangles":2792,"max_degree":27,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0009636","count":19},{"id":"GO:0030900","count":19},{"id":"GO:0007409","count":19},{"id":"GO:0051316","count":18},{"id":"GO:0001843","count":18}]},{"hash":"2205189662296908279","title":"Neuronal development and synaptic signaling","description":"The cluster includes strong neuronal-related terms such as dendritic spine morphogenesis and long-term synaptic potentiation, pointing to synaptic development and plasticity. It also shows regulation of Wnt signaling (both positive and negative) and multicellular development, indicating broader developmental signaling roles. While immune signaling (T cell receptor pathway) and angiogenesis are present, the dominant pattern centers on signaling networks governing neural development and synaptic function. Confidence: Medium","confidence":"","size":28,"edges":59,"triangles":19,"max_degree":11,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0050852","count":11},{"id":"GO:0090090","count":11},{"id":"GO:0007275","count":11},{"id":"GO:0051436","count":10},{"id":"GO:0090263","count":10}]},{"hash":"1715454073746228902","title":"Antiviral Innate Immunity and Mitochondrial Apoptosis","description":"The top GO terms point to antiviral innate responses (dsRNA sensing, defense against virus) and mitochondrial apoptotic signaling (outer membrane permeabilization, fission), suggesting a cohesive role in antiviral defense coupled with apoptosis regulation; a few cell-cycle terms may be ancillary.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071360","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0045087","count":2},{"id":"GO:1901028","count":2},{"id":"GO:0008284","count":2}]},{"hash":"856149509897484458","title":"Unknown","description":"The top GO terms span ubiquitination, B cell homeostasis, kidney development, GABAergic synaptic transmission, and various growth-factor signaling/regulation processes, with no single cohesive function tying all proteins together. The lack of edges further suggests the proteins don\u2019t form a tightly connected functional module, so there isn't a clear, interpretable cluster function.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0071364","count":2},{"id":"GO:0097011","count":2},{"id":"GO:0001782","count":2},{"id":"GO:0007049","count":2}]},{"hash":"104193580989096739","title":"Developmental cell fate and morphogenesis","description":"The cluster is dominated by GO terms for development and cell fate specification across diverse tissues (neuroblasts, auditory cells, renal fibroblasts, heart valve formation, Malpighian tubule differentiation) with transcriptional regulation by RNA polymerase II as a common underlying mechanism, indicating a theme of developmental differentiation and morphogenesis. A single plant-specific term appears, but the overall signal supports the developmental/fate specification theme.","confidence":"High","size":28,"edges":140,"triangles":440,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":28},{"id":"GO:0072049","count":22},{"id":"GO:0072141","count":22},{"id":"GO:0007400","count":22},{"id":"GO:0071392","count":22}]},{"hash":"1592635807360301688","title":"Embryonic organogenesis and patterning","description":"The cluster is enriched for developmental GO terms, including pancreatic/endocrine development, left\u2013right pattern formation, cartilage morphogenesis, and EMT in heart cushion formation, pointing to coordinated embryonic organogenesis and tissue patterning. General transcription/splicing terms are present but secondary to the developmental theme. ","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":6},{"id":"GO:0000055","count":5},{"id":"GO:1903026","count":5},{"id":"GO:0032298","count":5},{"id":"GO:0000398","count":5}]},{"hash":"2000463997450336778","title":"Embryonic morphogenesis and angiogenesis","description":"TheTop GO terms show ureteric bud and salivary gland morphogenesis, branching morphogenesis, and chondroblast differentiation, all pointing to organ development. In parallel, BMP signaling and positive regulation of ERK cascades suggest growth and patterning control, while endothelial and fibroblast proliferation/migration and sprouting angiogenesis indicate vascular remodeling during development. Together, these terms reflect a cohesive cluster of genes involved in embryonic organogenesis and associated angiogenic remodeling.","confidence":"High","size":28,"edges":353,"triangles":2903,"max_degree":27,"top_function":"wound healing","top_go_terms":[{"id":"GO:0001657","count":21},{"id":"GO:0070374","count":21},{"id":"GO:0030513","count":21},{"id":"GO:0001658","count":21},{"id":"GO:0007435","count":20}]},{"hash":"657841369414137100","title":"Neuronal signaling and synaptic plasticity","description":"This cluster is enriched for neuronal signaling and synaptic regulation terms: regulation of synaptic plasticity by receptor localization to synapse, regulation of Ephrin receptor signaling, and GPCR-mediated signaling related to neural communication, along with sensory perception of sound. Additional terms point to broader regulatory processes such as transcriptional control and chromatin remodeling, plus insulin signaling and development-related responses (cell migration, mechanical stimulus). Overall, the dominant theme is neuronal signaling and synaptic modulation, with some supportive regulatory processes.","confidence":"Medium","size":28,"edges":7,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007205","count":6},{"id":"GO:1900383","count":6},{"id":"GO:1901187","count":6},{"id":"GO:2001275","count":5},{"id":"GO:0016477","count":5}]},{"hash":"711080022236292193","title":"Rho GTPase signaling and actin remodeling","description":"Top GO terms point to regulation of Rho/small GTPase signaling, lamellipodium assembly, and endothelial tube lumen extension, all hallmarking Rho-family\u2013driven cytoskeletal dynamics and cell migration. The inclusion of heart and thymus development hints at roles in organogenesis where vascular and cytoskeletal remodeling are critical. Overall, a coherent theme of cytoskeletal control and vascular development emerges.","confidence":"High","size":28,"edges":106,"triangles":149,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035023","count":9},{"id":"GO:0043552","count":8},{"id":"GO:0051262","count":8},{"id":"GO:0007264","count":8},{"id":"GO:0007507","count":7}]},{"hash":"932098972260696151","title":"Neural development and axon guidance","description":"The top GO terms cluster around nervous system development, axon guidance, synapse assembly, and cell\u2013cell adhesion, with semaphorin-plexin signaling highlighted. This points to coordinated neural connectivity and guidance processes, possibly involving neural crest\u2013derived cells that contribute to craniofacial structures (ossification) as a related but secondary theme. Overall, the cluster is best described as a neural development/axon guidance module.","confidence":"High","size":28,"edges":59,"triangles":18,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":13},{"id":"GO:0043931","count":13},{"id":"GO:0007399","count":12},{"id":"GO:0007413","count":12},{"id":"GO:0007157","count":12}]},{"hash":"1180356453037640834","title":"Embryonic Development and Morphogenesis","description":"The top GO terms cluster around developmental processes and tissue morphogenesis across multiple organs (heart cushions, cartilage, hair follicles, placenta/placental derivatives, left-right patterning, mesoderm, and oral structures), indicating a cohesive theme of embryogenesis and organogenesis rather than a single tissue-specific function.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":6},{"id":"GO:0035270","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0031069","count":5},{"id":"GO:0060806","count":5}]},{"hash":"211174196918138333","title":"Carbohydrate and amino acid metabolism with kinase signaling","description":"The cluster is enriched for carbohydrate metabolic processes, serine and homocysteine/transsulfuration pathways, and GMP biosynthesis, pointing to central carbon and amino acid metabolism with nucleotide production. The inclusion of activation of protein kinase activity suggests regulatory signaling roles alongside metabolism; a retina development term appears as an outlier rather than defining the cluster\u2019s core function. Medium","confidence":"","size":28,"edges":62,"triangles":41,"max_degree":12,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0005975","count":5},{"id":"GO:0060041","count":4},{"id":"GO:0051289","count":4},{"id":"GO:0043418","count":4}]},{"hash":"865226509053580535","title":"Neural calcium transport and junctions","description":"The cluster is dominated by GO terms for calcium ion transmembrane transport and transmission of nerve impulse, indicating a core theme of calcium-dependent neural signaling. Supporting terms like protein localization to the cell surface and septate junction assembly, along with establishment of glial blood\u2013brain barrier, point to roles at neural interfaces and barrier structures. A few terms (regulation of tube size, viral release, osteoclast differentiation) appear peripheral, suggesting some pleiotropy or unrelated associations among a subset of proteins.","confidence":"Medium","size":28,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070588","count":9},{"id":"GO:0019226","count":9},{"id":"GO:0034394","count":7},{"id":"GO:0019991","count":7},{"id":"GO:0060857","count":7}]},{"hash":"393959210794951877","title":"Mitochondrial Translation and tRNA Charging","description":"This cluster is dominated by GO terms for translation, regulation of translational fidelity, and specifically mitochondrial tRNA aminoacylation (serine and histidine) along with mitochondrial DNA metabolism and respiratory chain processes. The convergence on mitochondrial protein synthesis machinery, tRNA charging, and linked mitochondrial energy production suggests a coherent theme around mitochondrial translation and ribosomal function. ","confidence":"High","size":28,"edges":151,"triangles":394,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0006412","count":4},{"id":"GO:0001701","count":4},{"id":"GO:0006450","count":3},{"id":"GO:0070158","count":2}]},{"hash":"77320304636189812","title":"Cell growth and cycle regulation","description":"This cluster centers on control of cell proliferation and division, with GO terms pointing to regulation of the cell cycle, mitotic processes, and pathways that modulate growth signals (e.g., Wnt), plus complementary regulation of transcription and stress responses that influence cell fate. Collectively, these proteins appear to participate in limiting or coordinating cell growth and division rather than carrying out a single, focused pathway.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043065","count":1},{"id":"GO:0000281","count":1},{"id":"GO:0007050","count":1},{"id":"GO:0008285","count":1},{"id":"GO:0030178","count":1}]},{"hash":"1448678815887834953","title":"Lamellipodium/Filopodium Assembly and Cell Spreading","description":"The cluster is enriched for lamellipodium and filopodium assembly terms, along with positive regulation of substrate adhesion-dependent cell spreading and activation of GTPase activity. This points to actin cytoskeleton remodeling driving protrusions and cell migration, with broader links to development and morphogenesis. The combination suggests a cohesive theme around actin-driven protrusions and adhesion-dependent movement rather than a single metabolic or signaling pathway.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030032","count":11},{"id":"GO:1900026","count":11},{"id":"GO:0090630","count":10},{"id":"GO:0046847","count":10},{"id":"GO:0007205","count":10}]},{"hash":"1238434523725088401","title":"Mitotic Cell Cycle and APC-Dependent Proteolysis","description":"The dominant signals are mitosis-related: mitotic cell cycle, cell division, and APC-dependent proteolysis, including K11-linked ubiquitination, indicating a core theme of mitotic control and protein turnover. While there are developmental and chromatin-related terms present (hair follicle morphogenesis, multicellular growth, histone methylation), these likely reflect coupling of cell cycle progression with growth and chromatin regulation. Overall, the cluster appears to represent a mitosis-centered ubiquitin-proteolysis module governing cell division.","confidence":"High","size":28,"edges":15,"triangles":3,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":7},{"id":"GO:0051301","count":7},{"id":"GO:0071276","count":5},{"id":"GO:0061087","count":5},{"id":"GO:2001162","count":5}]},{"hash":"703164638321769310","title":"Neural signaling and development","description":"The cluster is driven by neural signaling terms: positive regulation of ERK1/ERK2 cascade, dopamine uptake in synaptic transmission, and acetylcholine metabolic regulation, plus several developmental terms (heart development, posterior midgut development, primary ovarian follicle growth). A defense response to bacterium appears as a less coherent signal within the set, suggesting possible cross-talk but not defining the cluster. Overall, the dominant themes point to neural signaling with developmental regulation.","confidence":"Medium","size":28,"edges":10,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042742","count":26},{"id":"GO:0070374","count":24},{"id":"GO:0007507","count":24},{"id":"GO:0001975","count":21},{"id":"GO:0007497","count":21}]},{"hash":"1038770949608836786","title":"TNF/Cytokine Signaling with NF-\u03baB and JNK Regulation","description":"This cluster centers on immune signaling, with strong representation of positive regulation of cytokine production, TNF production, and JNK/NF-\u03baB pathways, plus PI3K/AKT signaling. The mix of positive and negative regulators of inflammation suggests coordinated activation and restraint of inflammatory responses, aligning with a cytokine-TNF signaling theme.","confidence":"High","size":28,"edges":347,"triangles":2829,"max_degree":26,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0046330","count":24},{"id":"GO:0051092","count":24},{"id":"GO:0002741","count":24},{"id":"GO:0043491","count":24},{"id":"GO:0042535","count":24}]},{"hash":"1931801674790216035","title":"Steroid and lipid hormone biosynthesis","description":"This cluster is dominated by biosynthetic processes for steroid hormones (testosterone androgens) and other lipid mediators (prostaglandins, retinoic acid), with supporting terms like sex differentiation and inflammatory regulation. The strong presence of biosynthesis-related GO terms around lipid hormones indicates a coherent theme of lipid hormone production and signaling.","confidence":"High","size":28,"edges":9,"triangles":0,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0061370","count":20},{"id":"GO:0008209","count":20},{"id":"GO:0001516","count":14},{"id":"GO:0042904","count":14},{"id":"GO:0032259","count":13}]},{"hash":"2061701292938786302","title":"Immune cell chemotaxis, phagocytosis, and coagulation","description":"The terms point to immune activation and recruitment: dendritic cell and monocyte chemotaxis, positive regulation of phagocytosis, and activation of the blood coagulation cascade. Calcium-related processes and bleb assembly align with calcium signaling and membrane remodeling in inflamed cells, supporting a cohesive theme of inflammation-driven immune responses with coagulation involvement. Bone mineralization and calcium transport add some background signaling context but do not contradict the overall immune/coagulation theme.","confidence":"Medium","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048265","count":4},{"id":"GO:0032060","count":4},{"id":"GO:0070588","count":3},{"id":"GO:0060100","count":3},{"id":"GO:0002543","count":3}]},{"hash":"21889327013401300","title":"Embryonic organ morphogenesis and patterning","description":"The top GO terms cluster around diverse embryonic developmental processes across multiple tissues (palate and mesoderm formation, cartilage and hair follicle morphogenesis, heart EMT, endocrine and pancreatic development, left-right patterning, placenta formation), indicating a shared theme of organogenesis and patterning during development.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0060021","count":28},{"id":"GO:0007498","count":28},{"id":"GO:0031069","count":28},{"id":"GO:0010957","count":28},{"id":"GO:0035270","count":28}]},{"hash":"459091449233691882","title":"Unknown","description":"The GO terms are highly diverse, spanning bacterial cell wall degradation, immune defense against bacteria, viral release, kidney function regulation, pain signaling, locomotion, and mitochondrial electron transport. There isn't a clear, single biological theme that ties these terms together for this protein set, suggesting the cluster does not reflect one coherent function.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0016998","count":17},{"id":"GO:0019076","count":17},{"id":"GO:0009253","count":17},{"id":"GO:0003093","count":16},{"id":"GO:0042742","count":15}]},{"hash":"1655599947846060745","title":"Neural and Muscular Calcium Signaling in Development","description":"The cluster centers on neuropeptide signaling and calcium signaling processes (store-operated calcium entry, SR calcium release, ER membrane organization, and membrane potential regulation) with developmental processes like limb and palate morphogenesis. This suggests a cohesive theme of Ca2+-dependent signaling in neural and muscular development and activity.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007218","count":6},{"id":"GO:0007626","count":3},{"id":"GO:0032237","count":2},{"id":"GO:0035108","count":2},{"id":"GO:0031585","count":2}]},{"hash":"1068269048319837103","title":"Developmental Signaling and Tissue Morphogenesis","description":"This cluster is dominated by GO terms tied to signaling pathways (ERK cascade, Rho signaling, IP3 biosynthesis) and tissue development/morphogenesis (heart, ovary follicles, nipple, lung connective tissue). Although there are a few terms related to immunity and locomotion, the prevalent pattern points to proteins involved in developmental signaling guiding organ formation and tissue morphogenesis.","confidence":"Medium","size":28,"edges":75,"triangles":37,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":22},{"id":"GO:0007507","count":22},{"id":"GO:0042742","count":21},{"id":"GO:0007626","count":19},{"id":"GO:0060408","count":18}]},{"hash":"962900370812666356","title":"Embryonic morphogenesis and organ development","description":"The cluster\u2019s top GO terms cluster around embryogenesis and tissue morphogenesis (mesoderm development, left-right pattern formation, cartilage and hair follicle morphogenesis, endocardial cushion/heart development, and placenta-related differentiation). Although one term involves ribosomal subunit export, the overall pattern points to genes involved in shaping organs and tissues during development rather than a single molecular function. This suggests a coherent theme of embryonic morphogenesis.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0000055","count":28},{"id":"GO:0035270","count":28},{"id":"GO:0060021","count":28},{"id":"GO:0060536","count":28},{"id":"GO:0003198","count":28}]},{"hash":"2001213232315141859","title":"Basophil activation and Fc receptor signaling","description":"The top GO terms are dominated by basophil activation and Fc-gamma receptor signaling, pointing to a cluster enriched for IgG receptor\u2013mediated immune activation and related inflammatory signaling; additional terms related to NK cell regulation and arachidonic acid pathways support an overall immune/inflammatory module, though a few terms (developmental or stress-related) may be outliers.","confidence":"Medium","size":28,"edges":253,"triangles":1297,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0045575","count":28},{"id":"GO:0038094","count":28},{"id":"GO:0090403","count":28},{"id":"GO:0071226","count":28},{"id":"GO:0072218","count":28}]},{"hash":"348620124550596311","title":"GPCR-cAMP Signaling in Vascular Regulation","description":"The top GO terms cluster around adenylate cyclase-activating GPCR signaling pathways (dopamine receptor signaling, prostaglandin response, amphetamine response) and their downstream effects such as cAMP production, regulation of blood pressure, Rho signaling, inflammatory modulation, and development. This points to a cohesive theme of GPCR-mediated signaling that influences vascular tone, inflammation, and growth, despite one term (electron transport chain) being less directly connected. Overall, the nucleus of the cluster is GPCR-cAMP\u2013driven signaling linked to vascular and inflammatory regulation.","confidence":"Medium","size":28,"edges":8,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":24},{"id":"GO:0010579","count":24},{"id":"GO:0045777","count":24},{"id":"GO:0035025","count":23},{"id":"GO:0071380","count":22}]},{"hash":"251297448567677542","title":"Neural Development and Axon Guidance","description":"The proteins are enriched for nervous system development, neurogenesis, axon guidance, myelination, and cell adhesion, with roles in Roundabout and Hedgehog (Smoothened) signaling pathways\u2014key components of neural wiring and connectivity. This cohesive theme supports a label of neural development and axon guidance; one outlier term (symbiont entry into host cell) likely reflects annotation noise.","confidence":"High","size":28,"edges":4,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046718","count":24},{"id":"GO:0007422","count":24},{"id":"GO:0007399","count":24},{"id":"GO:0035385","count":24},{"id":"GO:0007224","count":24}]},{"hash":"2115359376211728782","title":"Cell Cycle, Immunity, and Development Regulators","description":"The top GO terms show strong signals for mitotic cell cycle, innate immune response, B cell signaling, various developmental processes (skeletal muscle and nervous system), and stress responses (cadmium ion response, xenophagy) as well as apoptosis. This pattern suggests the cluster comprises regulators with broad, cross-talk roles rather than a single, cohesive pathway, indicating a multifunctional regulatory hub that ties cell proliferation to immune and developmental signals.","confidence":"Medium","size":27,"edges":107,"triangles":170,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":21},{"id":"GO:0045087","count":20},{"id":"GO:0071276","count":19},{"id":"GO:0050853","count":17},{"id":"GO:0007519","count":17}]},{"hash":"889720250432779010","title":"Neural development and synaptic assembly","description":"This cluster\u2019s top GO terms emphasize multicellular and skin development alongside synapse assembly and innervation, plus components of synaptic vesicle transport and cytoskeletal regulation. The strongest cohesive theme is development of neural connections and their organization at synapses, with supporting signals (TGF-beta, NF-kappaB regulation) and microtubule dynamics that underpin neurite outgrowth and transport. Confidence: Medium","confidence":"","size":27,"edges":166,"triangles":484,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0060386","count":3},{"id":"GO:0030433","count":3}]},{"hash":"1502282858490714031","title":"Nervous system development and neuron axonogenesis","description":"The cluster is dominated by terms related to nervous system formation and axon growth, including CNS projection neuron axonogenesis, sympathetic nervous system development, and branching morphogenesis of a nerve, indicating a cohesive theme of neural development. Some terms reference metabolic regulation and signaling (glycolysis, aerobic respiration, Notch signaling), which may reflect regulatory layers accompanying neural differentiation rather than a separate pathway.","confidence":"Medium","size":27,"edges":340,"triangles":2675,"max_degree":26,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0045820","count":5},{"id":"GO:0051225","count":5},{"id":"GO:0048485","count":5},{"id":"GO:0048755","count":5},{"id":"GO:0001655","count":5}]},{"hash":"792753059163296441","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning protein homeostasis (homooligomerization, ubiquitin-dependent degradation), plant-specific signaling (brassinosteroid signaling, gravitropism), organ morphogenesis (distal tubule morphogenesis), circadian rhythm, and immune cell differentiation, with no clear, single functional theme connecting them all. Confidence in a cohesive label is therefore None. ","confidence":"","size":27,"edges":149,"triangles":310,"max_degree":22,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0051260","count":7},{"id":"GO:0042787","count":7},{"id":"GO:0045497","count":6},{"id":"GO:1900477","count":6},{"id":"GO:2000176","count":6}]},{"hash":"2138979564969906809","title":"Craniofacial skeletal and tooth development","description":"The dominant GO terms cluster around differentiation and morphogenesis of craniofacial skeletal tissues\u2014chondrocyte development/differentiation and embryonic cranial skeleton morphogenesis\u2014along with odontogenesis (tooth dentin formation) and its regulation. Hedgehog pathway regulation and immune signaling hints (IL-2, granulocyte differentiation) may reflect broader developmental programs in craniofacial progenitors. Overall, the theme centers on skeletal/cartilaginous and tooth development in the craniofacial region.","confidence":"Medium","size":27,"edges":78,"triangles":120,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042675","count":9},{"id":"GO:0048701","count":8},{"id":"GO:0030097","count":8},{"id":"GO:0002062","count":8},{"id":"GO:0002063","count":7}]},{"hash":"331369134304480067","title":"Negative regulation of small GTPase signaling and cytoskeleton","description":"The cluster is dominated by GO terms about negative regulation of Rho, Rac, and small GTPase\u2013mediated signaling, as well as related cytoskeletal processes like stress fiber assembly. This suggests the proteins collectively act to dampen signaling pathways that drive cytoskeletal remodeling and cell movement. Some terms (e.g., DNA integration) appear unrelated, likely annotation noise, but the prevailing theme centers on inhibitory control of GTPase-driven cytoskeletal signaling.","confidence":"Medium","size":27,"edges":22,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0051497","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0051531","count":1},{"id":"GO:0042993","count":1},{"id":"GO:0090334","count":1}]},{"hash":"1450258464226003863","title":"Cardiovascular development and signaling regulation","description":"This cluster is dominated by GO terms for heart development and blood vessel morphogenesis, alongside regulators of signaling pathways (GTPase activity, calcineurin-NFAT signaling, and DNA binding) and protein phosphorylation. While a few terms point to neural processes, the strongest and most frequent signals pertain to cardiovascular development and its signaling mechanisms.","confidence":"High","size":27,"edges":31,"triangles":6,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":17},{"id":"GO:0031954","count":16},{"id":"GO:0007507","count":16},{"id":"GO:0001975","count":15},{"id":"GO:0051533","count":15}]},{"hash":"527986586714854865","title":"Inflammatory response signaling","description":"This cluster is centered on terms related to immune and inflammatory responses (positive regulation of inflammatory response; cellular response to interleukin-1; response to lipopolysaccharide; response to wounding), with supporting signaling regulation terms (negative regulation of protein kinase activity; positive regulation of peptidyl-serine phosphorylation). While DNA-templated transcription appears, the prevailing theme points to immune/stress signaling rather than basic metabolism. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0008344","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0033138","count":3},{"id":"GO:0045471","count":3}]},{"hash":"1988572922439955011","title":"Cardiac development and muscle contraction with redox regulation","description":"Cardiac development and cardiac muscle contraction are the most represented terms, indicating a core cardiac biology theme. Additional terms point to redox-related processes (hydrogen peroxide catabolic process, cellular oxidant detoxification) and vascular/osteogenic development, suggesting broader developmental context but with heart biology as the dominant signal. The combination of signaling regulation and protein interactions aligns with networks governing cardiac growth and contractile function, modulated by redox state. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":14},{"id":"GO:0006469","count":12},{"id":"GO:0051291","count":9},{"id":"GO:0000278","count":8},{"id":"GO:0042744","count":8}]},{"hash":"98717938131378008","title":"Cytoskeleton remodeling and immune cell migration","description":"This cluster is dominated by actin-based protrusion processes (filopodium and lamellipodium assembly), cell migration, and Rho signaling, with hyaluronan metabolism linking to extracellular matrix interactions. Immune-related terms (IL-7 response, IL-4 production, B cell maturation) suggest roles in immune cell signaling and movement, while heart development and insulin signaling appear as broader developmental/metabolic contexts. Overall, the common theme is cytoskeletal dynamics driving cell migration in development and immune contexts.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046847","count":5},{"id":"GO:0030032","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0016477","count":5},{"id":"GO:0035023","count":5}]},{"hash":"690344431403908175","title":"LPS-responsive NF-\u03baB signaling and cytokine regulation","description":"The cluster shows strong signals for innate immune response to lipopolysaccharide, together with regulation of both canonical and non-canonical NF-\u03baB pathways, apoptotic processes, and cytokine production (IL-4, IL-18) influencing Th2 differentiation. This suggests a cohesive module of LPS-triggered inflammatory signaling and cytokine regulation.","confidence":"High","size":27,"edges":85,"triangles":181,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071222","count":11},{"id":"GO:0051092","count":11},{"id":"GO:1901223","count":11},{"id":"GO:0006915","count":11},{"id":"GO:0043123","count":10}]},{"hash":"346807141836484584","title":"Neural and glial differentiation signaling","description":"The cluster is enriched for neural lineage differentiation terms (oligodendrocyte and radial glial differentiation) and placode-related morphogenesis, pointing to neural/ectodermal development as the core function; additional terms on multicellular development and regulation of signaling and ion transport suggest coordinated developmental signaling and cellular activity in this context.","confidence":"High","size":27,"edges":44,"triangles":35,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0048709","count":7},{"id":"GO:0007049","count":6},{"id":"GO:0060019","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0030949","count":6}]},{"hash":"225151541302309464","title":"Chromatin silencing and transcriptional control during cell cycle","description":"This cluster centers on negative regulation of transcription (RNA Pol II and I), chromatin silencing and heterochromatin formation (including histone modifications like H3-K27me3), and nucleosome positioning/density, with additional links to the centrosome cycle and spindle assembly, suggesting coordination between chromatin state and cell-cycle progression.","confidence":"High","size":27,"edges":58,"triangles":39,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0061188","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0007098","count":5},{"id":"GO:0098532","count":5},{"id":"GO:0000122","count":5}]},{"hash":"1046307330898592948","title":"Embryogenesis and Placental Development","description":"This cluster centers on developmental processes, especially embryogenesis and placental lineage formation. GO terms include endocrine system development, trophoblast giant cell differentiation, and placental-related regulation of differentiation, plus left-right patterning and morphogenesis of cartilage and pancreas. The terms point to a cohesive theme of early organogenesis and placental development, with proteins possibly coordinating progenitor differentiation in these contexts.","confidence":"High","size":27,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":9},{"id":"GO:0060707","count":9},{"id":"GO:0003198","count":9},{"id":"GO:0060972","count":9},{"id":"GO:0060806","count":9}]},{"hash":"2077566242323504175","title":"mRNA Processing and Export","description":"The top GO terms cluster around mRNA maturation steps\u2014polyadenylation, spliceosome-mediated splicing regulation (both positive and negative), regulation of mRNA stability in response to stress, and export of mRNA from the nucleus\u2014along with formation of the translation preinitiation complex. These collectively point to a cohesive module of proteins coordinating mRNA processing and nuclear export, justifying this label.","confidence":"High","size":27,"edges":222,"triangles":1006,"max_degree":25,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":25},{"id":"GO:0048025","count":25},{"id":"GO:0010610","count":25},{"id":"GO:0001731","count":24},{"id":"GO:1905663","count":24}]},{"hash":"2063400920853784339","title":"Embryonic development and morphogenesis","description":"The cluster shows GO terms centered on developmental and morphogenetic processes across multiple lineages\u2014endocrine system development, cartilage morphogenesis, EMT in heart formation, placental/trophoblast differentiation, left-right patterning, axial mesoderm formation, and pancreatic cell development\u2014with some neural development (dendritic spine morphogenesis). This points to a cohesive theme of early development and tissue patterning rather than a single organ-specific function.","confidence":"Medium","size":27,"edges":90,"triangles":170,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0060972","count":4}]},{"hash":"431728358679023430","title":"NFAT signaling in cardiac and vascular cells","description":"This cluster is dominated by calcium/calmodulin\u2013dependent signaling terms, especially positive regulation of the calcineurin-NFAT pathway and regulation of SA node cell action potential, pointing to cardiac conduction and NFAT-driven gene regulation. VEGF receptor-2 signaling and lung epithelial differentiation suggest vascular and developmental contexts, while actin filament bundle assembly and cell-matrix adhesion reflect cytoskeletal remodeling in endothelial/cardiac cells. The presence of ubiquitination indicates turnover within these signaling networks. Together, the terms imply a coherent theme of NFAT-mediated signaling integrating cardiac/vascular function with cytoskeletal and adhesion dynamics during development or adaptation.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098907","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0070886","count":4},{"id":"GO:0051017","count":4},{"id":"GO:0036324","count":3}]},{"hash":"418498556045607887","title":"Diverse catabolic processes","description":"The top GO terms are dominated by various catabolic reactions (triglyceride, uracil, prostaglandin, monoacylglycerol, alkaloid, menaquinone, etc.), suggesting a general theme of metabolic degradation rather than a single substrate pathway. An outlier term related to plant development may reflect annotation noise or multifunctionality. Overall, the cluster appears to represent broad catabolic metabolism.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0019433","count":3},{"id":"GO:0006212","count":3},{"id":"GO:1905344","count":3},{"id":"GO:0010223","count":3}]},{"hash":"590163861629258436","title":"Embryonic skeletal morphogenesis and organ development","description":"The dominant GO terms cluster around developmental and morphogenetic processes, especially skeletal formation (intramembranous ossification, embryonic cranial skeleton morphogenesis) and heart development, with supporting signals for broader organogenesis and tissue differentiation. A few terms (visual perception, T cell costimulation) appear less directly related and may reflect annotation noise. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":3},{"id":"GO:0031295","count":3},{"id":"GO:0007507","count":2},{"id":"GO:0001957","count":2},{"id":"GO:0007601","count":2}]},{"hash":"1137022800538334713","title":"Connective tissue and ECM morphogenesis","description":"The cluster shows strong representation of cartilage and tendon development, collagen fibril organization, basement membrane and skin morphogenesis, and lymphangiogenesis, all pointing to connective tissue formation and extracellular matrix remodeling. Peripheral terms like oxidative stress detection and immune regulation are present but less central. Overall, the shared theme is development and organization of connective tissue and ECM components.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060351","count":13},{"id":"GO:0035989","count":12},{"id":"GO:0032836","count":12},{"id":"GO:0070994","count":12},{"id":"GO:0045650","count":12}]},{"hash":"1271449998780564423","title":"Cell signaling and transcriptional regulation","description":"These terms span multiple regulatory layers: signal transduction (BMP, insulin receptor signaling), transcriptional control (DNA-templated transcription, mRNA processing), cell cycle and centrosome duplication, developmental processes (spermatogenesis), immune signaling (innate response, TNF production), and cytoskeletal organization (actin filament network) leading to apoptosis. The unifying theme is regulation of cellular fate and behavior by coordinated signaling and gene expression programs, which justifies a label like 'Cell signaling and transcriptional regulation'.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006397","count":4},{"id":"GO:0046626","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0051298","count":3},{"id":"GO:0030509","count":3}]},{"hash":"1143209903243361752","title":"Ubiquitination and Autophagy Pathways","description":"This cluster is dominated by ubiquitin-related processes (ubiquitination, sumoylation, neddylation) and degradation pathways (ubiquitin-dependent ERAD) along with autophagy routes (piecemeal microautophagy of the nucleus, Cvt pathway). The combination points to a cohesive set of proteins involved in tagging and routing substrates for destruction through both the proteasome and autophagy, with additional links to immune signaling downstream effects.","confidence":"High","size":27,"edges":181,"triangles":545,"max_degree":22,"top_function":"autophagy","top_go_terms":[{"id":"GO:0030433","count":9},{"id":"GO:0016925","count":6},{"id":"GO:0051865","count":6},{"id":"GO:1903265","count":6},{"id":"GO:0034727","count":5}]},{"hash":"1523611838622088914","title":"Unknown","description":"The top terms span multiple, seemingly unrelated pathways: amino acid and vitamin biosynthesis, porphyrin/heme, lipid biosynthesis, and various signaling or defense processes. Because there is no single unifying function for this cluster, there isn't a reliable, representative label beyond Unknown.","confidence":"","size":27,"edges":344,"triangles":2762,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019878","count":14},{"id":"GO:0042853","count":14},{"id":"GO:0006782","count":14},{"id":"GO:0009102","count":14},{"id":"GO:0007219","count":14}]},{"hash":"2156495749256313577","title":"ER glycoprotein maturation and ERAD","description":"This cluster is dominated by GO terms related to glycoprotein processing in the endoplasmic reticulum and Golgi, including N-glycan trimming and ubiquitin-dependent ER-associated degradation (ERAD). The presence of mannose trimming and ER-to-cytosol retrograde transport terms points to ER quality control of glycoproteins and their targeting for degradation, supporting a cohesive theme despite a few unrelated terms. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":1},{"id":"GO:1904381","count":1},{"id":"GO:1904154","count":1},{"id":"GO:0036510","count":1},{"id":"GO:0036512","count":1}]},{"hash":"2300543262553696655","title":"ER protein folding and quality control","description":"Most terms cluster around endoplasmic reticulum\u2013associated protein folding, redox-balanced disulfide formation, handling of misfolded proteins, and unfolded protein response, with supporting processes in protein trafficking and nuclear export regulation, suggesting a cohesive quality-control network across compartments.","confidence":"High","size":27,"edges":219,"triangles":969,"max_degree":25,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045454","count":27},{"id":"GO:0034975","count":24},{"id":"GO:0051259","count":15},{"id":"GO:0031204","count":14},{"id":"GO:0070843","count":14}]},{"hash":"1215890659104960140","title":"Fatty acid metabolism and phospholipid biosynthesis","description":"The cluster is dominated by lipid-related processes: phosphatidic acid biosynthesis, various facets of fatty acid beta-oxidation (including regulation and specific chain-length metabolism), carnitine metabolism, and long-chain fatty acid transport. While there are ancillary development terms (cranial skeletal system, substantia nigra, ovarian follicle growth), the strongest and most coherent signal is lipid metabolism and phospholipid biosynthesis, suggesting these proteins function primarily in lipid processing and related pathways.","confidence":"High","size":27,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006654","count":4},{"id":"GO:1904888","count":2},{"id":"GO:0032000","count":2},{"id":"GO:0051791","count":2},{"id":"GO:0033540","count":2}]},{"hash":"1682332227105350334","title":"Immune cell signaling and development","description":"This cluster is dominated by immune- and lymphoid-related GO terms: B cell receptor signaling, thymus development, NK T cell differentiation, and cellular responses to IL-7, PDGF, retinoic acid, and nitric oxide, alongside integrin-mediated signaling. While a few terms touch on broader development or signaling contexts, the preponderance of immune and lymphoid functions supports labeling the cluster as immune cell signaling and development.","confidence":"High","size":27,"edges":161,"triangles":530,"max_degree":21,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050853","count":14},{"id":"GO:0060444","count":13},{"id":"GO:0007229","count":13},{"id":"GO:0048538","count":13},{"id":"GO:0098761","count":13}]},{"hash":"269380025447746261","title":"Neuroendocrine-immune signaling cluster","description":"This cluster centers on signaling pathways linking neural development cues (neural plate axis specification) with endocrine and immune functions (insulin signaling and secretion; B cell differentiation; T cell regulatory processes) and associated signal modulation (Ras, SMAD) and trafficking processes, suggesting a cohesive role in coordinating growth, metabolism, and immune responses. Some terms like membrane repair and Pol III transcription are broader housekeeping associations within these signaling networks.","confidence":"Medium","size":27,"edges":17,"triangles":20,"max_degree":5,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0021997","count":15},{"id":"GO:0001778","count":13},{"id":"GO:0045945","count":13},{"id":"GO:0038028","count":13},{"id":"GO:0002316","count":12}]},{"hash":"1957219578210291793","title":"Excitatory synapse assembly and endocytosis","description":"This cluster centers on synaptic structure and function: dendritic spine morphogenesis, postsynaptic density assembly, regulation of excitatory postsynaptic potentials, and clathrin- and actin-dependent endocytosis. Together with vesicle uncoating and endocytic regulation, these terms point to assembly and maintenance of excitatory synapses and vesicle cycling. Some apoptosis-related terms are present but do not define the main theme.","confidence":"High","size":27,"edges":316,"triangles":2199,"max_degree":26,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006915","count":18},{"id":"GO:0000147","count":17},{"id":"GO:0006897","count":16},{"id":"GO:0060997","count":12},{"id":"GO:0016191","count":11}]},{"hash":"1463761695837145652","title":"GTPase Signaling and Immune Regulation","description":"The top GO terms center on small GTPase\u2013mediated signaling and its negative regulation (Ras), alongside immune-related processes such as follicular B cell differentiation, NK cell cytotoxicity regulation, and TLR2 signaling modulation. Additional terms touch on nitric oxide response, retinoic acid signaling, and trafficking, suggesting a cluster of proteins that modulate GTPase-driven signaling with immune and cellular transport roles. ","confidence":"Medium","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007264","count":26},{"id":"GO:0002316","count":26},{"id":"GO:0071300","count":26},{"id":"GO:0034136","count":26},{"id":"GO:1902237","count":26}]},{"hash":"1992047614346237676","title":"Embryonic craniofacial morphogenesis and development","description":"This cluster is dominated by GO terms tied to embryogenesis and tissue morphogenesis, including mesoderm development, roof of mouth and cartilage morphogenesis, hair follicle morphogenesis, and epithelial-to-mesenchymal transition in heart structures, as well as left-right patterning and placenta-related differentiation. The coherence across these diverse processes points to a shared role in embryonic development and craniofacial/tissue patterning, rather than a single enzyme activity. Therefore, the label captures the principal theme of the proteins' functions.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":23},{"id":"GO:0035270","count":23},{"id":"GO:0060021","count":23},{"id":"GO:0060536","count":23},{"id":"GO:0003198","count":23}]},{"hash":"1307436640270405079","title":"Unknown","description":"The terms mix reproductive (binding sperm to zona pellucida, FSH response), developmental (EMT, cardiac morphogenesis, vasculogenesis), immune signaling (T cell proliferation), and basic processes (maltose transport, SMAD phosphorylation) with no single dominant theme. There isn\u2019t a coherent common function linking most proteins, so a specific label isn\u2019t justifiable.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007339","count":6},{"id":"GO:0031953","count":6},{"id":"GO:0015768","count":6},{"id":"GO:0032354","count":5},{"id":"GO:0022009","count":5}]},{"hash":"301563778340675445","title":"Ubiquitin-Dependent Endosomal Sorting","description":"The top GO terms emphasize ubiquitin-mediated protein catabolism via the multivesicular body (MVB) sorting pathway and regulation of endosome maturation (early to late endosome transport), pointing to a central role in cargo ubiquitylation and endosomal trafficking. Additional terms touch on nuclear transport regulation, autophagy, and cell-cycle events, suggesting these proteins participate in coordinated turnover and trafficking linked to broader cellular regulation. Overall, the shared theme is ubiquitin-dependent sorting within the endosomal system, with auxiliary ties to nuclear transport and cell-cycle processes.","confidence":"Medium","size":26,"edges":21,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:2000641","count":3},{"id":"GO:0043162","count":3},{"id":"GO:0033160","count":3},{"id":"GO:0046827","count":2}]},{"hash":"2109396433609665648","title":"TLR-driven immune signaling and cytoskeletal remodeling","description":"The top terms center on MyD88-dependent TLR4 signaling, highlighting innate immune signaling, while multiple terms point to actin cytoskeleton organization, Rho signaling, and cell migration, suggesting coordination between signaling and cytoskeletal dynamics. Additional terms related to neutrophil degranulation and vascular remodeling support a theme of immune cell function and movement, with some broader transcriptional and developmental roles. Overall, the cluster appears to link innate immune signaling with cytoskeletal remodeling and motility.","confidence":"Medium","size":26,"edges":325,"triangles":2600,"max_degree":25,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035660","count":17},{"id":"GO:0006355","count":17},{"id":"GO:0007527","count":17},{"id":"GO:0035023","count":8},{"id":"GO:0016082","count":6}]},{"hash":"1679671896223118020","title":"TLR-driven innate immune activation","description":"This cluster is enriched with Toll-like receptor signaling (both MyD88-dependent and -independent), innate immune response, macrophage activation, and defense responses to Gram-negative bacteria and viruses, along with regulation of dendritic cell cytokine production. Taken together, the GO terms point to a cohesive TLR-centered innate immune activation program involving macrophages and dendritic cells; a single term about mechanical stimulus is peripheral to the main theme.","confidence":"High","size":26,"edges":56,"triangles":26,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":8},{"id":"GO:0034142","count":8},{"id":"GO:0042116","count":8},{"id":"GO:0050829","count":8},{"id":"GO:0051770","count":8}]},{"hash":"883459012063572616","title":"Nervous system development and function","description":"These proteins are enriched for nervous-system\u2013related processes such as sensory perception of sound and myelination in the peripheral nervous system, along with behavioral/motor aspects like adult locomotory behavior. The presence of terms related to cytoskeletal remodeling and mitochondrial dynamics (stress fiber assembly, cell spreading, mitochondrial fission) further suggests roles in neural structure and signaling, alongside general cellular processes. Overall, the cluster appears to group proteins involved in nervous system development and function, with supporting cytoskeletal and organelle dynamics. ","confidence":"Medium","size":26,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051262","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0051496","count":4},{"id":"GO:0022011","count":4},{"id":"GO:1900026","count":4}]},{"hash":"1368126451208794335","title":"Cell Cycle and Proteostasis","description":"The cluster centers on processes tied to cell division and protein turnover, with GO terms for cell cycle, spindle assembly, ubiquitination, and proteasome complex assembly, plus growth regulation. Telomere maintenance regulation and apoptotic processes further tie the set to genome maintenance and cell fate during division. Taken together, these terms suggest a cohesive theme of coordinating cell-cycle progression with protein quality control and genome integrity.","confidence":"Medium","size":26,"edges":160,"triangles":352,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":7},{"id":"GO:2001275","count":7},{"id":"GO:0007049","count":6},{"id":"GO:0097284","count":5},{"id":"GO:0016567","count":5}]},{"hash":"860806308019964595","title":"Cardiac Muscle Development and Electrical Regulation","description":"The top GO terms point to heart-related development and functional electrical activity: regulation of SA node cell action potential, outflow tract morphogenesis, and striated muscle cell development. This suggests a cluster enriched for genes involved in cardiac muscle formation and electrical conduction. Immune-related terms (defense response to virus, interferon signaling) are present but less central to the core cardiac theme, which justifies labeling this as a cardiac development/electrical function cluster.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098907","count":2},{"id":"GO:0032479","count":1},{"id":"GO:0043569","count":1},{"id":"GO:0055002","count":1},{"id":"GO:0003151","count":1}]},{"hash":"57505781648678321","title":"Developmental Signaling and Cell Cycle","description":"This cluster centers on developmental signaling processes (neural tube closure, VEGF signaling, Wnt pathway regulation) and cell cycle control (meiotic spindle\u2013kinetochore attachment, mitotic intra-S DNA damage checkpoint). The mixture suggests a theme of signaling that coordinates development with cell proliferation, rather than a single narrow function, hence a label that reflects both aspects.","confidence":"Medium","size":26,"edges":63,"triangles":61,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051316","count":26},{"id":"GO:0001843","count":26},{"id":"GO:0048010","count":26},{"id":"GO:0016242","count":26},{"id":"GO:0090090","count":26}]},{"hash":"2003512276600115404","title":"Proteostasis and Translation in Embryogenesis","description":"This cluster combines strong signals for ubiquitin-dependent proteolysis and proteasome assembly with translation initiation/reinitiation, alongside embryonic development annotations (in utero development, multicellular development, germ-line encapsulation). This suggests a theme of regulating protein turnover and protein synthesis during development.","confidence":"Medium","size":26,"edges":106,"triangles":165,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032436","count":8},{"id":"GO:0006351","count":7},{"id":"GO:0006511","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0006260","count":6}]},{"hash":"466773483600539645","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0016573","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0000395","count":2},{"id":"GO:0080188","count":2}]},{"hash":"1487263203115583686","title":"Embryonic development and EMT signaling","description":"This cluster centers on embryogenesis-related processes, including prechordal plate formation, gastrulation/epiboly, and epithelial-to-mesenchymal transition, with supporting roles for cartilage morphogenesis and TGF-beta/SMAD signaling; ubiquitination-related regulation appears as a modulator. The recurring theme is developmental morphogenesis and signaling control during early embryo formation.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021501","count":3},{"id":"GO:0031398","count":3},{"id":"GO:0055113","count":3},{"id":"GO:0030511","count":3},{"id":"GO:0030579","count":3}]},{"hash":"853820751136827685","title":"Dopaminergic signaling and neurotransmitter secretion","description":"This cluster is enriched for terms related to neural communication and secretion, including dopamine secretion and dopamine receptor signaling, along with neurotransmitter secretion and dendrite morphogenesis. Although there are a couple of platelet/blood coagulation terms as outliers, the strongest shared theme among the top GO terms points to dopaminergic signaling and vesicle-mediated secretion in neurons.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051897","count":2},{"id":"GO:0030239","count":1},{"id":"GO:0014059","count":1},{"id":"GO:0007596","count":1},{"id":"GO:0060155","count":1}]},{"hash":"1051081666431769470","title":"ER Stress Signaling and Cytoskeletal Remodeling","description":"This cluster is enriched for ER unfolded protein response, vesicle trafficking between Golgi and ER, lamellipodium assembly, microtubule severing, endocytosis, and mechanosensitive transcription/cell cycle cues, indicating a link between ER stress signaling, cytoskeletal dynamics, and trafficking.","confidence":"Medium","size":26,"edges":7,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030968","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0043966","count":3},{"id":"GO:0071260","count":3}]},{"hash":"461341672439175344","title":"Ubiquitin-mediated protein turnover and quality control","description":"Dominated by ubiquitin-related processes: ubiquitin-dependent proteolysis, protein ubiquitination, and deubiquitination at several linkages, plus aggresome formation. These together define ubiquitin-proteasome\u2013driven turnover and protein quality control, with possible links to Wnt signaling regulation via ubiquitination. The label captures the core function of the cluster.","confidence":"High","size":26,"edges":13,"triangles":2,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006511","count":5},{"id":"GO:0006397","count":4},{"id":"GO:0016055","count":4},{"id":"GO:0048549","count":4},{"id":"GO:0016567","count":4}]},{"hash":"1577791906186860992","title":"Cell Signaling and Growth Regulation","description":"The cluster highlights multiple signaling pathways (Wnt, insulin receptor, TNF production) and regulatory processes (Rho signaling, phosphatidylinositol dephosphorylation), with supporting terms for cell cycle progression (G2/M) and endocytic/mechanosensitive functions (pinocytosis, mechanical stimulus). Together these suggest a cohesive theme of regulated signaling networks governing proliferation and cellular responses, including mechanotransduction.","confidence":"Medium","size":26,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0016055","count":3},{"id":"GO:0048549","count":3},{"id":"GO:0046856","count":3},{"id":"GO:0035024","count":3}]},{"hash":"1475070574892592291","title":"Coagulation, immune defense, and vascular remodeling","description":"This cluster centers on processes bridging immunity, coagulation, and vascular structure: classical complement activation, blood coagulation, defense against Gram-positive bacteria, angiogenesis, tissue remodeling, and smooth muscle cell\u2013matrix adhesion; plus a cardiovascular regulation term. The convergence on coagulation, complement, angiogenesis, and remodeling supports a vascular-immune remodeling theme.","confidence":"High","size":26,"edges":102,"triangles":164,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":8},{"id":"GO:0006958","count":8},{"id":"GO:0045766","count":7},{"id":"GO:0007596","count":7},{"id":"GO:0071333","count":6}]},{"hash":"1047965728126306134","title":"Innate immune response and cell migration","description":"The top GO terms show a strong emphasis on innate immunity and cellular movement (cell migration), with supporting signals for immune development (hematopoiesis, interleukin-7 response) and related cytoskeletal/mitotic processes (microtubule localization, mitotic cell cycle, phosphorylation). This pattern suggests a cluster of proteins involved in immune cell development and motility rather than a single metabolic function or unrelated processes.","confidence":"Medium","size":26,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016477","count":9},{"id":"GO:0045087","count":9},{"id":"GO:2001275","count":9},{"id":"GO:0010765","count":8},{"id":"GO:0007507","count":8}]},{"hash":"1413016129836528672","title":"Rho-Cytoskeleton and Receptor Signaling","description":"These terms cluster around signaling pathways that regulate the actin cytoskeleton and cell adhesion: Rho-regulated dynamics, filopodium assembly, and integrin activation, plus GPCR and thrombin receptor signaling. While some terms touch on transcriptional processes or development, the strongest shared theme is receptor- and cytoskeleton-associated signaling controlling movement and adhesion.","confidence":"Medium","size":26,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0046847","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0070493","count":3}]},{"hash":"1785078631008692555","title":"Connective Tissue Morphogenesis and ECM Organization","description":"The top GO terms cluster around development and organization of connective tissue and extracellular matrix: cartilage and tendon development, glomerular basement membrane development, collagen fibril organization, skin morphogenesis, and lymphangiogenesis. These common themes point to ECM remodeling and connective tissue morphogenesis as the core function of the cluster, with ancillary terms like oxidative stress detection or aldosterone secretion not altering the main theme.","confidence":"High","size":26,"edges":5,"triangles":1,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060351","count":21},{"id":"GO:0035989","count":20},{"id":"GO:0032836","count":20},{"id":"GO:0070994","count":20},{"id":"GO:0045650","count":20}]},{"hash":"2213052653903087600","title":"Cochlear synapse formation and plasticity","description":"This cluster centers on auditory and synaptic biology (sensory perception of sound, cochlea morphogenesis, dendritic spine morphogenesis, long-term synaptic depression, and positive regulation of synapse structural plasticity), with NO-mediated retrograde signaling and JNK cascade regulation reinforcing synaptic signaling themes. The epithelial polarity and basolateral localization terms align with hair cell polarity in the cochlea, though a few transport-related terms may reflect supporting metabolic roles. Overall, the terms cohere around development and plasticity of auditory synapses.","confidence":"High","size":26,"edges":280,"triangles":1918,"max_degree":24,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0007605","count":24},{"id":"GO:0060292","count":23},{"id":"GO:0090103","count":23},{"id":"GO:0060997","count":23},{"id":"GO:0045198","count":23}]},{"hash":"1547715623587201658","title":"Multi-tissue developmental signaling","description":"The top GO terms point to developmental processes across multiple organs (heart trabecula formation, seminiferous tubule development, neuron migration regulation, blood-brain barrier establishment) and associated signaling pathways (PKC, cAMP-related signaling), with an additional note of mitochondrial energy production (electron transport chain). The common theme appears to be signaling guiding organogenesis across tissues, rather than a single tissue-specific function.","confidence":"Medium","size":26,"edges":56,"triangles":49,"max_degree":15,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0019933","count":25},{"id":"GO:0022900","count":22},{"id":"GO:0072520","count":21},{"id":"GO:0032792","count":21},{"id":"GO:0060347","count":21}]},{"hash":"664813087087105830","title":"Embryonic development and organ morphogenesis","description":"This cluster is dominated by GO terms tied to embryogenesis and tissue formation, including endocrine system development, cartilage morphogenesis, EMT in endocardial cushion formation, left-right patterning, pancreatic cell development, and roof of the mouth development, pointing to a cohesive developmental/tissue morphogenesis theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035270","count":26},{"id":"GO:0060536","count":26},{"id":"GO:0003198","count":26},{"id":"GO:0060806","count":26},{"id":"GO:0060972","count":26}]},{"hash":"157545809689127359","title":"Innate and Adaptive Immunity Signaling","description":"The cluster shows strong enrichment for innate immune response, defense against bacteria, and adaptive immune response, along with T cell proliferation regulation, T cell costimulation, phagocytosis recognition, and Fc-epsilon receptor signaling, pointing to a coherent theme of immune activation across both innate and adaptive arms. The heart development term is likely non-specific or pleiotropic. Overall, it reflects immune signaling and lymphocyte activation mechanisms.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":6},{"id":"GO:0042742","count":6},{"id":"GO:0002250","count":6},{"id":"GO:0038095","count":6},{"id":"GO:0007507","count":6}]},{"hash":"463570528121400318","title":"Mitochondrial respiration and signaling","description":"Most frequent GO term is electron transport chain (GO:0022900) with 24 proteins, indicating a core mitochondrion-based energy metabolism theme. The other enriched terms point to diverse signaling pathways (adenylate cyclase-activating GPCR signaling, Rho signaling, inositol phosphate biosynthesis) and organ development processes (heart trabecula formation, seminiferous tubule development) that may reflect broad functional links between mitochondrial function and cellular signaling and development across tissues, hence a label centered on mitochondrial respiration with associated signaling roles.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":24},{"id":"GO:0010579","count":22},{"id":"GO:0045777","count":22},{"id":"GO:0035025","count":17},{"id":"GO:0072520","count":16}]},{"hash":"1570306961602361401","title":"Embryonic development and tissue morphogenesis","description":"The Top Terms include endocrine system development, cartilage morphogenesis, EMT in heart cushion formation, placental differentiation, left-right patterning, pancreatic cell development, trophoblast differentiation, hippocampus development, DNA-templated transcription, and ossification. Together they point to broad developmental programs and tissue morphogenesis across multiple tissues, suggesting a general embryogenesis/theme rather than a single tissue-specific function. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0003198","count":6},{"id":"GO:0060806","count":6},{"id":"GO:0060972","count":6}]},{"hash":"659727386704366003","title":"Ion and Metabolite Transmembrane Transporters","description":"Top GO terms indicate transmembrane transport of diverse substrates: ions (sodium, potassium, nitrite, nitrate), sugars (galactose, arabinose), vitamins, and aromatic compounds. This pattern suggests a cluster of membrane transporter proteins with broad substrate specificity, forming a cohesive transport module rather than separate functions. Re-added proteins by ReCIPE further support a transport-focused grouping.","confidence":"High","size":26,"edges":64,"triangles":114,"max_degree":13,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0035725","count":22},{"id":"GO:0042128","count":21},{"id":"GO:0015706","count":21},{"id":"GO:0071805","count":21},{"id":"GO:0015757","count":20}]},{"hash":"1004216492784602384","title":"Fungal sterol and sphingolipid metabolism","description":"The top GO terms emphasize ergosterol biosynthesis regulation and mannosyl-inositol phosphorylceramide metabolism, with lipid storage, pointing to fungal lipid pathways as the cluster's core. Some xenobiotic response and NO-related terms may reflect broader stress signaling but do not outweigh the fungal lipid signals.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":3},{"id":"GO:0010873","count":3},{"id":"GO:0050728","count":2},{"id":"GO:0034115","count":2},{"id":"GO:0019915","count":2}]},{"hash":"1216835149813496950","title":"Broad-substrate membrane transporters","description":"GO terms point to a range of transmembrane transport activities for ions, sugars, nitrates/nitrites, urate, vitamins, and other substrates. The unifying theme is transporter proteins across membranes rather than a single substrate or pathway, suggesting a cluster of diverse membrane transporters. ","confidence":"High","size":26,"edges":3,"triangles":0,"max_degree":2,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0015747","count":7},{"id":"GO:0071805","count":7},{"id":"GO:0042128","count":6},{"id":"GO:0035725","count":6},{"id":"GO:0015757","count":5}]},{"hash":"829112342779556431","title":"Glycosylation and glycan biosynthesis","description":"The top GO terms are dominated by glycosylation- and carbohydrate-related processes: protein glycosylation (including N-linked), N-glycan processing, protein sialylation, oligosaccharide metabolism, and ganglioside biosynthesis. This points to a cohesive functional theme around glycoprotein and glycan biosynthesis and modification, with other terms like pollen-related processes likely reflecting annotation noise rather than a distinct functional module. Confidence: High","confidence":"","size":26,"edges":50,"triangles":105,"max_degree":10,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0005975","count":4},{"id":"GO:0006486","count":4},{"id":"GO:0006491","count":4},{"id":"GO:0021628","count":4},{"id":"GO:0009846","count":4}]},{"hash":"1669642753772423551","title":"GPCR-cAMP Signaling in Neural Development","description":"The cluster is dominated by GO terms for cAMP biosynthesis and adenylate cyclase-activating GPCR signaling (GO:0006171, GO:0036303, GO:0007189, GO:0007190), and by axonogenesis and axon guidance in dopaminergic and serotonergic neurons (GO:0007409, GO:0036514, GO:0036515). This points to a core theme of GPCR-triggered cAMP signaling shaping neural development and axon pathfinding. While some terms touch broader morphogenesis (metanephric and lymph vessel morphogenesis), the shared mechanism appears to be GPCR-cAMP signaling regulating neuronal development.","confidence":"Medium","size":26,"edges":17,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006171","count":4},{"id":"GO:0072237","count":4},{"id":"GO:0036303","count":4},{"id":"GO:0007189","count":4},{"id":"GO:0007409","count":4}]},{"hash":"336657039767534671","title":"Gastrointestinal Mucosal Immunity and Barrier","description":"The cluster centers on functions related to the GI epithelial barrier and mucosal immune defense: maintenance of GI epithelium, innate and adaptive immune responses, defense against bacteria, immunoglobulin transcytosis via the polymeric immunoglobulin receptor, and processes involved in host-microbe interactions (symbiont and virion entry). The presence of T cell proliferation regulation and CCR7 signaling further supports a mucosal immune context. Overall, the proteins appear tied to preserving the GI epithelial barrier while coordinating immune responses to microbes.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030277","count":14},{"id":"GO:0046814","count":14},{"id":"GO:0042102","count":14},{"id":"GO:1903082","count":14},{"id":"GO:1902414","count":14}]},{"hash":"813426088487272170","title":"Immune cell adhesion and cytotoxic regulation","description":"This cluster shows strong signals for cell\u2013cell adhesion (homophilic/heterophilic) and localization to cell junctions, paired with multiple terms about regulation of cytotoxic lymphocyte activity (NK and CD8 T cells) and degranulation. This suggests a theme around immune synapse formation and modulation of cytotoxic responses, with additional notes on host\u2013pathogen attachment at the cell surface. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":20},{"id":"GO:0007157","count":20},{"id":"GO:0046814","count":19},{"id":"GO:1902414","count":19},{"id":"GO:0046718","count":19}]},{"hash":"1986219902154710960","title":"Embryonic Development and Tissue Morphogenesis","description":"The GO terms point to palate, mesoderm, left-right patterning, hair follicle morphogenesis, and placenta development, indicating a core theme of embryonic development and tissue patterning. While some terms touch on general gene regulation and RNA processing, the dominant signal is developmental morphogenesis and patterning across multiple tissues.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060021","count":26},{"id":"GO:1903026","count":26},{"id":"GO:0010957","count":26},{"id":"GO:0032298","count":26},{"id":"GO:0060972","count":26}]},{"hash":"1603560135916011563","title":"Unknown","description":"No GO terms are listed to define a common function for this 26-protein cluster, so a reliable, specific label cannot be inferred.","confidence":"","size":26,"edges":211,"triangles":941,"max_degree":25,"top_function":null,"top_go_terms":[]},{"hash":"1494313828924185532","title":"Transmembrane solute transporters","description":"The cluster is heavily enriched for diverse transmembrane transport GO terms (vitamin, arabinose, phosphate, nitrate, sodium, sialic acid, xenobiotic transport) and even a neurotransmitter loading term, pointing to a group of membrane proteins specialized in moving various solutes across membranes. This makes \"Transmembrane solute transporters\" a concise and representative label.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":5},{"id":"GO:0015751","count":5},{"id":"GO:0035435","count":5},{"id":"GO:0006004","count":5},{"id":"GO:0015739","count":5}]},{"hash":"1306189842778495032","title":"Developmental Gene Regulation","description":"The top terms point to tissue and organ development (atrial septum morphogenesis, pharyngeal system development, uterine and tarsal gland development) coupled with transcriptional and chromatin regulation (DNA-templated transcription, histone modification, cell cycle control) and cytokine production. This suggests proteins involved in coordinating developmental processes with gene expression and chromatin state, making \"Developmental Gene Regulation\" a representative, concise label.","confidence":"Medium","size":25,"edges":72,"triangles":59,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0003290","count":6},{"id":"GO:1903699","count":5},{"id":"GO:2000134","count":5},{"id":"GO:0097676","count":5}]},{"hash":"2286217862449346623","title":"Cerebral development and forebrain patterning","description":"The cluster shows strong signals for neural development: neuronal fate commitment in the forebrain, cerebral cortex regionalization, and habenula/pituitary development. Transcriptional regulation terms (DNA-templated transcription and regulation of gene expression) align with gene-regulatory programs driving neurodevelopment. Occasional terms for T cell differentiation and ureteric bud branching may reflect pleiotropy or cross-annotation, but the dominant theme centers on brain development and regional specification.","confidence":"Medium","size":25,"edges":289,"triangles":2067,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021902","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0021796","count":6},{"id":"GO:0043374","count":6},{"id":"GO:0090190","count":6}]},{"hash":"560634767405483724","title":"Golgi-to-synapse vesicle trafficking","description":"The top GO terms cluster around vesicle trafficking between the ER, Golgi, and plasma membrane, SNARE complex assembly, and vesicle fusion at both Golgi and synaptic sites. Terms include vesicle fusion with Golgi, ER-to-Golgi transport, Golgi ribbon formation, synaptic vesicle fusion to presynaptic membranes, and exocytic insertion of receptors, all indicating a shared SNARE-driven trafficking/fusion machinery. A single outlier term (cornified envelope) does not override the overall theme of Golgi- and synapse-associated vesicle transport.","confidence":"High","size":25,"edges":159,"triangles":490,"max_degree":24,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0048280","count":15},{"id":"GO:0098967","count":15},{"id":"GO:0035493","count":15},{"id":"GO:0006888","count":15},{"id":"GO:0090161","count":15}]},{"hash":"1513758376161674163","title":"Lens development and visual perception","description":"The top GO terms include lens development in camera-type eye and visual perception, pointing to proteins involved in eye formation and function. Additional terms for apoptotic regulation, TORC1 signaling, amino acid starvation response, and ubiquitin-dependent protein catabolism suggest supportive cellular regulation in eye tissues. Taken together, the cluster appears enriched for eye development and vision, with related stress and proteostasis processes. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903343","count":4},{"id":"GO:0006915","count":4},{"id":"GO:1904262","count":4},{"id":"GO:0034198","count":4},{"id":"GO:0007601","count":4}]},{"hash":"80107059232289185","title":"Vascular Development and Coagulation with Bone Remodeling","description":"The top terms cluster around vascular biology and skeletal development: blood coagulation, blood vessel maturation, bone development, and regulation of osteoclast activity. Calcium signaling and nitric oxide pathways further tie into vascular remodeling and tone. A few terms (acrosome reaction regulation, microcystin transport) are less related, but the dominant theme is hemostasis, vascular formation, and bone remodeling.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0007596","count":11},{"id":"GO:0030324","count":10},{"id":"GO:0060348","count":9},{"id":"GO:0001955","count":8},{"id":"GO:2001256","count":8}]},{"hash":"1845647305536864031","title":"Developmental transcriptional programs","description":"The cluster\u2019s top GO terms center on RNA polymerase II\u2013mediated and DNA-templated transcription, with multiple development-related terms spanning placenta, pancreas, bronchiole, and neural fate specification, suggesting a group of proteins that coordinate developmental gene expression across tissues.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":17},{"id":"GO:0006351","count":12},{"id":"GO:0043433","count":12},{"id":"GO:0032922","count":12},{"id":"GO:0001892","count":10}]},{"hash":"2005772885247152341","title":"Vertebrate neural and organ development","description":"The cluster\u2019s top GO terms are strongly centered on nervous system development and synapse assembly, with additional signals related to heart and skeletal system development, lateral mesoderm fate, and key signaling pathways like ERK and PI3K. This pattern suggests a vertebrate-wide developmental program that integrates neural differentiation with broader organogenesis, rather than a single tissue-restricted function. ","confidence":"Medium","size":25,"edges":5,"triangles":1,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":13},{"id":"GO:0007399","count":12},{"id":"GO:0014068","count":12},{"id":"GO:0001501","count":11},{"id":"GO:0007507","count":11}]},{"hash":"2210426082347596305","title":"Ubiquitin-dependent NF-kappaB signaling regulation","description":"These proteins are enriched for various ubiquitination processes (autoubiquitination, K6/K63/linear polyubiquitination) and ubiquitin-dependent proteolysis, together with regulation of NF-kappaB signaling and necroptosis. A common theme is ubiquitin-mediated control of protein turnover and inflammatory signaling, with histone turnover and vitamin D response as related chromatin and signaling connections.","confidence":"High","size":25,"edges":32,"triangles":2,"max_degree":12,"top_function":"autophagy","top_go_terms":[{"id":"GO:0036205","count":12},{"id":"GO:0051865","count":12},{"id":"GO:1903265","count":12},{"id":"GO:0085020","count":12},{"id":"GO:0042787","count":12}]},{"hash":"1688388034654052793","title":"Neuronal stress signaling","description":"This cluster\u2019s GO terms center on brain-related processes (substantia nigra development) and stress/ signaling responses (corticosterone, amphetamine, hypoxia, and calcineurin-NFAT pathway), suggesting proteins functioning in neuronal stress signaling rather than a single metabolic pathway. Some metabolic terms are present but do not override the main brain stress/signaling theme.","confidence":"Medium","size":25,"edges":254,"triangles":1659,"max_degree":23,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021762","count":7},{"id":"GO:0006919","count":6},{"id":"GO:0051412","count":6},{"id":"GO:0019483","count":5},{"id":"GO:0055114","count":5}]},{"hash":"741966932525064474","title":"Cell fate determination and tissue morphogenesis","description":"Top GO terms indicate a common theme of cell fate specification across diverse tissues (neuroblast, auditory receptor, renal interstitial fibroblast development, heart valve formation, Malpighian tubule differentiation) together with transcription by RNA polymerase II. This points to a shared developmental program where transcriptional regulation drives differentiation and morphogenesis. While some terms are obscure or organism-specific, the overall pattern supports a cohesive developmental theme. ","confidence":"Medium","size":25,"edges":209,"triangles":891,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":23},{"id":"GO:0072049","count":15},{"id":"GO:0072141","count":15},{"id":"GO:0007400","count":15},{"id":"GO:0071392","count":15}]},{"hash":"900307377310268239","title":"Mitotic regulation and innate immune response","description":"The cluster is anchored by cell division and mitotic cycle terms, with supporting signals from protein\u2013protein interactions and K11-linked ubiquitination, plus innate antiviral and unfolded protein responses. This suggests a theme of coordinating cell-cycle progression with protein quality control and antiviral defense, rather than a single isolated pathway. ","confidence":"Medium","size":25,"edges":147,"triangles":430,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":10},{"id":"GO:0000278","count":9},{"id":"GO:0051291","count":9},{"id":"GO:0051607","count":6},{"id":"GO:0045087","count":6}]},{"hash":"2303752583229868751","title":"Immune Development and Inflammatory Signaling","description":"The cluster\u2019s top GO terms are dominated by immune-related processes (NK T cell differentiation, hemopoiesis, interleukin-7 response) and inflammatory signaling (prostaglandin response, GPCR desensitization). While a few terms touch on development or other processes (heart development, apoptosis, synaptic plasticity), the shared theme appears to be immune cell development coupled with inflammatory signaling, which best explains the observed term enrichment.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0097194","count":7},{"id":"GO:0071380","count":6},{"id":"GO:0018107","count":6},{"id":"GO:0002029","count":6},{"id":"GO:0007507","count":6}]},{"hash":"731788030728235101","title":"Negative Regulation of Inflammation and Vascular Dynamics","description":"The top GO terms center on dampening neutrophil activity (degranulation, respiratory burst), restricting leukocyte extravasation and vascular permeability, and limiting vascular remodeling, plus regulation of Rac and GTPase signaling. Together these point to a cluster of proteins that act to suppress inflammatory responses and modulate vascular behavior, with some developmental signaling context appearing as well.","confidence":"High","size":25,"edges":198,"triangles":832,"max_degree":24,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006915","count":8},{"id":"GO:0000747","count":8},{"id":"GO:0060313","count":8},{"id":"GO:0002692","count":8},{"id":"GO:0043114","count":8}]},{"hash":"2228260555638275759","title":"Neuronal signaling and actin remodeling","description":"These proteins cluster around signaling pathways (insulin receptor signaling, GTPase regulation) and cytoskeletal dynamics (actin organization, filopodium assembly) with neuronal-specific processes such as long-term synaptic depression and dense core granule maturation, suggesting a functional module linking signal transduction to actin remodeling and vesicle maturation in neurons. The mitotic cell cycle term is less central to neurons but may reflect shared components.","confidence":"High","size":25,"edges":33,"triangles":20,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008286","count":7},{"id":"GO:0046847","count":7},{"id":"GO:0007205","count":7},{"id":"GO:0000278","count":6},{"id":"GO:0060292","count":6}]},{"hash":"534701907490533313","title":"RNA splicing and translation machinery","description":"This cluster is dominated by GO terms for mRNA processing and protein synthesis: spliceosome-mediated mRNA splicing, export of the ribosomal large subunit from the nucleus, and cytoplasmic translation, indicating a core RNA processing/translation module. A few viral/symbiont-related terms appear but are low in representation and likely incidental. Overall, the proteins seem to cluster around gene expression machinery rather than a single signaling pathway.","confidence":"High","size":25,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0002181","count":2},{"id":"GO:0007605","count":1},{"id":"GO:0030260","count":1}]},{"hash":"894718843220976516","title":"Neural and Visual Development","description":"The strongest signals are in nervous system development, visual perception, and visual learning, pointing to a cluster centered on neural and retinal development and function. Additional terms like peptidyl-threonine phosphorylation and PI3K/AKT signaling fit into common neuronal signaling and plasticity pathways, while cadmium response and innate immune/thymus development appear as less central, perhaps reflecting broader tissue responsiveness. Overall, the core theme is neural/visual development with supportive signaling processes.","confidence":"Medium","size":25,"edges":75,"triangles":60,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":25},{"id":"GO:0007601","count":23},{"id":"GO:0071276","count":22},{"id":"GO:0045087","count":22},{"id":"GO:0048538","count":21}]},{"hash":"2052281142196142928","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":286,"triangles":2008,"max_degree":24,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006378","count":5},{"id":"GO:0000380","count":4},{"id":"GO:0098789","count":4},{"id":"GO:0061470","count":4},{"id":"GO:0043029","count":4}]},{"hash":"991904952635748603","title":"Neurodevelopment and axon guidance signaling","description":"This cluster is dominated by GO terms related to nervous system development, axon guidance, and neural morphogenesis (anterior commissure morphogenesis, chemorepulsion of branchiomotor axons, semaphorin-plexin signaling). Regulation of GTPase activity and transcriptional processes support growth cone navigation and neural differentiation, with broader development terms reflecting overall organismal development. Overall, the functions converge on neural development and axon guidance.","confidence":"High","size":25,"edges":26,"triangles":18,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043087","count":8},{"id":"GO:0048485","count":8},{"id":"GO:0043931","count":8},{"id":"GO:0006893","count":7},{"id":"GO:0006351","count":7}]},{"hash":"402845766614376279","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms cluster around developmental processes and morphogenesis across various tissues\u2014mesoderm development, left-right patterning, palatal/roof-of-mouth formation, cartilage morphogenesis, hair follicle morphogenesis, and EMT in heart cushion formation\u2014indicating a shared role in embryogenesis and tissue shaping. An outlier term about ribosomal export from the nucleus is present but does not override the overall developmental theme.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0000055","count":25},{"id":"GO:0035270","count":25},{"id":"GO:0060021","count":25},{"id":"GO:0060536","count":25},{"id":"GO:0003198","count":25}]},{"hash":"1737251065000503130","title":"Ribosome Biogenesis and Cell Cycle","description":"The cluster is dominated by GO terms for ribosome biogenesis, ribosomal subunit export, translation, and tRNA modification, together with cell cycle and cell division processes. This points to a cohesive group of proteins coordinating ribosome production and protein synthesis during cell growth and division.","confidence":"High","size":25,"edges":21,"triangles":8,"max_degree":6,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":20},{"id":"GO:0000055","count":18},{"id":"GO:0090529","count":17},{"id":"GO:0007049","count":17},{"id":"GO:0002181","count":17}]},{"hash":"1014884040510628521","title":"Embryonic Morphogenesis and Differentiation","description":"The GO terms point to embryonic development processes (trophoblast giant cell differentiation, palatal roof development, embryonic skeletal morphogenesis) and adhesion signaling (positive regulation of integrin-mediated signaling), suggesting a cohesive theme of developmental differentiation and tissue morphogenesis. Additional terms about transcriptional regulation and immune differentiation fit within broad embryogenesis and lineage specification contexts. Overall, these terms align with early developmental programs rather than a single enzymatic pathway.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":2},{"id":"GO:2001046","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0042308","count":1},{"id":"GO:0048704","count":1}]},{"hash":"1479661485494696282","title":"Pregnancy- and lactation-associated angiogenesis","description":"The cluster\u2019s top GO terms converge on vascular processes (angiogenesis, endothelial cell migration, blood coagulation) and reproductive biology (lactation, female pregnancy). This pattern suggests a coordinated program of vascular remodeling in reproductive tissues during pregnancy and lactation, with ancillary signals like insulin signaling and protein transport supporting cellular growth and migration.","confidence":"High","size":25,"edges":144,"triangles":430,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":5},{"id":"GO:0007595","count":4},{"id":"GO:0007565","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0010596","count":3}]},{"hash":"1152987484365656300","title":"Developmental patterning and organ morphogenesis","description":"This cluster centers on GO terms related to embryonic development, tissue morphogenesis, and patterning (e.g., endocrine system development, cartilage morphogenesis, EMT in heart cushion formation, placental differentiation, left-right patterning, pancreatic cell development, olfactory nerve formation, pollen germination), indicating a broad theme of developmental processes across tissues and even kingdoms. The label captures the common thread of development and morphogenesis, though the terms span multiple contexts, suggesting a general developmental program rather than a single pathway.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0060972","count":2}]},{"hash":"1734842091732588473","title":"Epithelial cytoskeleton and surface architecture","description":"The cluster is dominated by terms tied to cytoskeletal dynamics and apical surface structures: actin filament depolymerization, actin cytoskeleton reorganization, terminal web assembly, cilium assembly, and factors affecting cell spreading and protein localization at the cell surface. The presence of intestinal glucose absorption hints at brush-border organization, linking microvilli/terminal web with epithelial surface functions. While DNA-templated transcription is present, the prevailing theme points to cytoskeletal remodeling shaping epithelial cell surfaces and ciliogenesis, making this a cohesive epithelial cytoskeleton/surface cluster.","confidence":"Medium","size":25,"edges":8,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0031532","count":3},{"id":"GO:0060271","count":2},{"id":"GO:0001951","count":2},{"id":"GO:1902896","count":2}]},{"hash":"1384225627614622967","title":"Spliceosome-Mediated mRNA Splicing Regulation","description":"The top GO terms are dominated by regulation of mRNA splicing via the spliceosome and alternative splicing, plus associated mRNA stability, indicating a cohesive function in splicing control and mRNA fate. This cluster likely comprises splicing regulators and spliceosome components influencing transcript processing.","confidence":"High","size":25,"edges":172,"triangles":558,"max_degree":22,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":18},{"id":"GO:0048026","count":16},{"id":"GO:0048255","count":16},{"id":"GO:0000380","count":16},{"id":"GO:0048025","count":15}]},{"hash":"1131449086469787145","title":"Innate immune signaling and macrophage activation","description":"This cluster is enriched for innate immune processes, especially macrophage activation, regulation of interferon production, and modulation of NF-kappaB/ERK signaling, with additional links to nitric oxide, vitamin D responses, and membrane repair\u2014together indicating a macrophage-driven innate immune program with both activating and regulatory components.","confidence":"High","size":25,"edges":191,"triangles":795,"max_degree":24,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032479","count":25},{"id":"GO:0070373","count":25},{"id":"GO:0042116","count":25},{"id":"GO:0051770","count":25},{"id":"GO:0033280","count":25}]},{"hash":"952166515191001668","title":"Cardiac Conduction and Electrophysiology","description":"The top GO terms center on heart electrical activity, including regulation of membrane depolarization during cardiac action potentials and SA node to atrial muscle communication, indicating a cohesive role in cardiac conduction and electrophysiology. While there are other terms (immune signaling, vitamin D response, adipogenesis) present, the dominant theme points to cardiac signaling and membrane potential regulation.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000083","count":13},{"id":"GO:0033280","count":9},{"id":"GO:0098907","count":9},{"id":"GO:0032088","count":9},{"id":"GO:0070431","count":9}]},{"hash":"1867995885323291125","title":"Ubiquitin-Regulated Signaling in Heart and Neural Plasticity","description":"The terms cluster around ubiquitin-related processes (autoubiquitination, K63-linked ubiquitination) and GPCR desensitization, with links to Rho signaling and microtubule localization, plus heart development and modulation of synaptic plasticity. This suggests a module of signaling proteins whose activity is regulated by ubiquitination, impacting cardiovascular and neural signaling pathways.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0051865","count":4},{"id":"GO:0030579","count":4},{"id":"GO:0070534","count":4},{"id":"GO:0071380","count":4}]},{"hash":"851806088662311282","title":"Developmental processes and cell adhesion","description":"The top GO terms point to broad developmental roles across multiple tissues (nervous system, heart, multicellular development) and include both cell\u2013cell adhesion (homophilic/heterophilic) and processes like synapse assembly, suggesting these proteins participate in tissue formation and organization rather than a single specialized pathway.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":11},{"id":"GO:0007156","count":10},{"id":"GO:0043931","count":10},{"id":"GO:0051965","count":10},{"id":"GO:0007157","count":10}]},{"hash":"2223486964995528975","title":"Neuronal vesicle trafficking and microtubule transport","description":"The top terms emphasize clathrin-dependent endocytosis, intracellular and vesicle transport, and neuron-related processes like synaptic vesicle coating and neuron projection development, all pointing to vesicle cycling and microtubule-based movement in neurons. Other microtubule and mitochondria distribution terms support a broader cytoskeletal transport context in neural cells.","confidence":"High","size":25,"edges":59,"triangles":85,"max_degree":13,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0072583","count":5},{"id":"GO:0006886","count":5},{"id":"GO:0016183","count":4},{"id":"GO:0007049","count":3},{"id":"GO:0035372","count":3}]},{"hash":"1649782719032223284","title":"Neuronal signaling and synapse assembly","description":"Top GO terms suggest a focus on neuronal communication and synapse formation, with items like positive regulation of synapse assembly, PKC signaling, CREB-related activity, and cAMP biosynthesis pointing to synaptic development and plasticity. While a few terms pertain to unrelated developmental processes, the core theme across the cluster is neuronal signal transduction and synapse maturation.","confidence":"Medium","size":25,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":7},{"id":"GO:0051965","count":6},{"id":"GO:0006171","count":3},{"id":"GO:0007166","count":3},{"id":"GO:0072520","count":3}]},{"hash":"1637177955519835641","title":"Innate Immune Activation and Phagocytosis","description":"This cluster is dominated by GO terms for immune defense: complement activation via the lectin pathway, phagocytosis recognition, Fc-gamma receptor signaling, and basophil activation, suggesting innate and antibody-mediated immune signaling. A few terms related to development (cartilage condensation, metanephric limb development) appear, but they do not outweigh the strong immunity theme, so the label reflects the core function of phagocytic and inflammatory responses.","confidence":"Medium","size":25,"edges":25,"triangles":9,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":11},{"id":"GO:0060355","count":9},{"id":"GO:0001502","count":9},{"id":"GO:0051873","count":9},{"id":"GO:0006910","count":9}]},{"hash":"630755486625406362","title":"Hair and Keratinocyte with Glial Development","description":"The top GO terms cluster around skin/epithelial biology (hair follicle morphogenesis, hair cycle, keratinocyte activation and migration) and glial/neuronal development (astrocyte development, Schwann and Bergmann glial differentiation, PNS axon regeneration), suggesting a cohesive program of ectoderm-derived tissue development spanning skin/keratinocytes and glial lineages. A single outlier term for cardiac muscle development does not override the main theme.","confidence":"High","size":25,"edges":105,"triangles":273,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0031069","count":23},{"id":"GO:0010625","count":22},{"id":"GO:0042633","count":22},{"id":"GO:0014012","count":22},{"id":"GO:0051546","count":22}]},{"hash":"2276460123914846320","title":"Drosophila Segmentation and Follicle Development","description":"The cluster's GO terms center on Drosophila insect development, especially segmentation, patterning, and follicle formation, with terms like imaginal disc-derived leg segmentation and ovarian follicle development, indicating a cohesive developmental module, despite some obsolete or non-specific terms.","confidence":"High","size":25,"edges":297,"triangles":2233,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":15},{"id":"GO:0006486","count":11},{"id":"GO:0036011","count":9},{"id":"GO:0016267","count":9},{"id":"GO:0055016","count":9}]},{"hash":"671967863873282876","title":"Neural development and synapse assembly via cell adhesion","description":"This cluster is dominated by nervous system development and synapse-related terms, notably positive regulation of synapse assembly and nervous system development, along with homophilic/heterophilic cell adhesion and axon paranode localization. While broader developmental terms like heart/kidney development and angiogenesis appear, the core signal centers on neural connectivity and adhesion processes that drive synapse formation and neural wiring.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":15},{"id":"GO:0007399","count":14},{"id":"GO:0007156","count":14},{"id":"GO:0007157","count":12},{"id":"GO:0007507","count":11}]},{"hash":"1077418528824310684","title":"Axon Guidance and Neural Development","description":"The dominant GO terms point to nervous system development and axon pathfinding, including semaphorin-plexin signaling in axon guidance, sympathetic neuron projection guidance, axonal fasciculation, neural crest migration, and branchiomotor neuron axon guidance. While there is a minor presence of a complement activation term, the overall pattern supports roles in directing axon growth and neural circuitry formation, making this a coherent neuronal development cluster.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":10},{"id":"GO:0006958","count":8},{"id":"GO:0007399","count":8},{"id":"GO:0007413","count":8},{"id":"GO:1902287","count":7}]},{"hash":"603913698523572370","title":"Host-pathogen interactions and immune regulation","description":"These proteins cluster around themes of host\u2013pathogen interaction and immune response: virion attachment and symbiont entry into host cells, actin cytoskeleton regulation at cell junctions, and modulation of NK and T cell cytotoxic activities, plus tumor cell detection. A single lens morphogenesis term seems outlier/annotation noise. Overall, the group appears focused on host defense and pathogen engagement rather than a single cellular pathway.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046718","count":23},{"id":"GO:0051963","count":23},{"id":"GO:0002860","count":22},{"id":"GO:0002859","count":22},{"id":"GO:0043318","count":22}]},{"hash":"2268154633754609876","title":"Zinc ion transport and homeostasis","description":"The majority of top GO terms center on zinc handling\u2014import across membranes, intracellular zinc ion homeostasis, response to zinc ion starvation, and detoxification\u2014with supporting terms like cadmium transport and synaptic depression, suggesting a coherent zinc transport/homeostasis module. While limb development appears among the terms, the dominant signal is zinc-related processes, supporting a zinc transport/homeostasis cluster.","confidence":"High","size":25,"edges":119,"triangles":247,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0060173","count":10},{"id":"GO:0010312","count":10},{"id":"GO:0006831","count":10},{"id":"GO:0006830","count":10},{"id":"GO:0034224","count":10}]},{"hash":"264502302843678048","title":"Neuronal development and angiogenesis","description":"The cluster\u2019s top GO terms cluster around neural development\u2014neuron migration, synapse assembly, and cell\u2013cell adhesion\u2014with angiogenesis and vascular differentiation also represented. This points to coordinated neurovascular morphogenesis, i.e., growth and wiring of neural tissue supported by vasculature. Some terms reflect broader developmental processes, but the dominant signal is neurodevelopment with vascular formation.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001525","count":6},{"id":"GO:0007156","count":5},{"id":"GO:0051965","count":5},{"id":"GO:0001764","count":5},{"id":"GO:0038095","count":5}]},{"hash":"982415217760464327","title":"Neural crest migration and axon guidance","description":"These proteins show strong enrichment for neural development and cell adhesion terms, including ventral trunk neural crest cell migration, semaphorin-plexin\u2013mediated axon guidance, sympathetic neuron projection guidance, and paranodal junction assembly. The prevalence of both homophilic/heterophilic adhesion hints at coordinated cell\u2013cell interactions during neural crest\u2013driven morphogenesis and neural wiring, with additional context from skeletal system development and gland morphogenesis that can involve neural crest derivatives. Overall, the cluster likely represents neural crest\u2013related adhesion and neuron guidance functions.","confidence":"High","size":25,"edges":148,"triangles":357,"max_degree":19,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":11},{"id":"GO:0007156","count":10},{"id":"GO:0060445","count":8},{"id":"GO:1902287","count":8},{"id":"GO:0001501","count":8}]},{"hash":"841103326706765552","title":"Innate and Adaptive Immune Activation","description":"The top GO terms indicate both innate defense (phagocytosis, innate immune response, complement activation) and adaptive signaling (positive regulation of B cell activation, B cell receptor signaling). Additional terms on cell adhesion and symbiont entry into host cells reflect interactions during immune responses. Collectively, these proteins seem to function as an immune-response module coordinating innate phagocytic activity with B cell\u2013mediated activation and communication.","confidence":"High","size":25,"edges":38,"triangles":3,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006911","count":22},{"id":"GO:0045087","count":22},{"id":"GO:0050871","count":22},{"id":"GO:0050853","count":22},{"id":"GO:0006958","count":22}]},{"hash":"1970783900661572856","title":"Transmembrane Ion and Nutrient Transporters","description":"The GO terms are dominated by transmembrane transport across the plasma membrane for diverse substrates (calcium, sodium, potassium, amino acids, vitamins, and sugars), suggesting the proteins are membrane transporters or solute carriers rather than enzymes; hence this label.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990034","count":7},{"id":"GO:0032973","count":5},{"id":"GO:0071805","count":4},{"id":"GO:0015878","count":3},{"id":"GO:0015798","count":3}]},{"hash":"1275848583441780532","title":"Neural development and ER membrane organization","description":"This cluster centers on neural development processes (radial glia-guided migration, axonal fasciculation, branching morphogenesis of a nerve) and intracellular membrane dynamics (ER tubular network formation/organization, nuclear pore complex and peroxisome organization), suggesting proteins coordinating neuronal morphogenesis with ER/membrane biogenesis.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001954","count":3},{"id":"GO:1990809","count":3},{"id":"GO:0021801","count":3},{"id":"GO:0071787","count":3},{"id":"GO:2000172","count":3}]},{"hash":"366187755094294489","title":"Unknown","description":"The top GO terms span neural signaling (response to amphetamine, dopamine uptake, acetylcholine signaling), immune modulation (IgA isotype switching, negative regulation of inflammatory response), development (posterior midgut development, ovarian follicle growth), and vascular effects (vasoconstriction), with no single unifying function connecting all proteins. Therefore, no concise, specific label can accurately represent the cluster.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":25},{"id":"GO:0007497","count":25},{"id":"GO:0050728","count":25},{"id":"GO:1901652","count":25},{"id":"GO:0051586","count":25}]},{"hash":"2170283997580813658","title":"Embryonic development and tissue morphogenesis","description":"The GO terms cluster around broad developmental programs across multiple tissues\u2014mesoderm development, left-right patterning, cartilage morphogenesis, palate/roof of mouth development, hair follicle morphogenesis, and EMT in heart cushion formation\u2014plus endocrine system development. A single housekeeping term (ribosomal export) is present but secondary to the overarching theme of embryonic development and morphogenesis, supporting a cohesive interpretation of this cluster.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0000055","count":25},{"id":"GO:0035270","count":25},{"id":"GO:0060021","count":25},{"id":"GO:0060536","count":25},{"id":"GO:0003198","count":25}]},{"hash":"874767146856017474","title":"Dopaminergic and Cholinergic Signaling","description":"Top GO terms emphasize dopaminergic signaling (response to amphetamine, dopamine uptake) and cholinergic GPCR pathways (acetylcholine receptor signaling, acetylcholine metabolism), pointing to a cohesive neurotransmission-focused cluster. A few terms reflect broader biological processes (midgut development, ovarian follicle growth, IgA isotype switching), likely representing pleiotropic gene functions or annotation spillover, but the core theme is neural signaling.","confidence":"High","size":25,"edges":230,"triangles":1089,"max_degree":22,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":25},{"id":"GO:0007497","count":25},{"id":"GO:0050728","count":25},{"id":"GO:1901652","count":25},{"id":"GO:0051586","count":25}]},{"hash":"1144530869778981780","title":"Immune Regulation and Host-Pathogen Interaction","description":"The cluster shows prominent signals for negative regulation of immune cell activities (macrophage activation, NK cytotoxicity, T cell degranulation) alongside terms related to cell\u2013cell adhesion, cell junction localization, and host-cell entry (virion attachment, symbiont entry). This pattern suggests proteins involved in modulating immune responses at the immune synapse and mediating host\u2013pathogen or host\u2013symbiont interactions, rather than a single canonical pathway. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043031","count":23},{"id":"GO:0002859","count":23},{"id":"GO:0043318","count":23},{"id":"GO:0007157","count":23},{"id":"GO:0046814","count":22}]},{"hash":"257933959542829143","title":"Neurotransmitter signaling and GPCR pathways","description":"This cluster is dominated by terms related to neuronal communication and neuromodulation, including adenylate cyclase-activating GPCR signaling, dopamine uptake regulation, acetylcholine metabolism, and responses to amphetamine. These point to a cohesive theme of neurotransmission and neuroendocrine control, with other terms like energy metabolism or development offering broader context but not overriding the primary theme.","confidence":"Medium","size":25,"edges":35,"triangles":10,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":19},{"id":"GO:0010579","count":19},{"id":"GO:0045777","count":19},{"id":"GO:0001975","count":18},{"id":"GO:0007497","count":18}]},{"hash":"667241814447647083","title":"Dopaminergic and Cholinergic Signaling","description":"Based on the top GO terms, the cluster is dominated by neural signaling processes, particularly dopaminergic signaling (response to amphetamine, positive regulation of dopamine uptake) and cholinergic signaling (regulation of acetylcholine metabolic process, GPCR acetylcholine receptor signaling). The enrichment suggests proteins involved in modulating neurotransmitter dynamics and GPCR pathways. A few terms like midgut development and IgA isotype switching appear unrelated and likely reflect broader multifunctionality, but do not override the core neural signaling theme.","confidence":"High","size":25,"edges":106,"triangles":156,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":25},{"id":"GO:0007497","count":25},{"id":"GO:0050728","count":25},{"id":"GO:1901652","count":25},{"id":"GO:0051586","count":25}]},{"hash":"664273734139749875","title":"Dopaminergic and cholinergic signaling","description":"The cluster\u2019s GO terms are dominated by neural signaling and modulation, including response to amphetamine, dopamine uptake, regulation of acetylcholine metabolism, and GPCR signaling related to acetylcholine. These point to a core theme of dopaminergic/cholinergic neurotransmission and its regulation, with additional terms like vasoconstriction and inflammatory regulation suggesting broader signaling cross-talk. Some terms (e.g., IgA isotype switching, ovarian follicle growth) are less clearly connected and may reflect annotation noise, but the strongest signal supports neural signaling pathways.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":25},{"id":"GO:0007497","count":25},{"id":"GO:0050728","count":25},{"id":"GO:1901652","count":25},{"id":"GO:0051586","count":25}]},{"hash":"2100697490804983373","title":"Immune Regulation and Cell Adhesion","description":"These terms converge on immune cell activity modulation (negative regulation of NK cell cytotoxicity, T cell degranulation, and macrophage activation) and cell\u2013cell adhesion with actin cytoskeleton remodeling, including synapse-related processes. While there are hints of broader signaling and neuronal development, the strongest signal centers on immune regulation paired with adhesion-driven cellular interactions.","confidence":"Medium","size":25,"edges":50,"triangles":20,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0002859","count":20},{"id":"GO:0043318","count":20},{"id":"GO:0007157","count":20},{"id":"GO:0090138","count":19},{"id":"GO:0046718","count":19}]},{"hash":"1502344841426850804","title":"Nuclear gene expression and DNA replication","description":"Cluster centers on nuclear processes underlying gene expression and genome duplication: DNA-templated transcription, RNA polymerase II\u2013driven transcription, mRNA processing/splicing, ribosome biogenesis, and DNA replication, with associated cell division and development terms, indicating a cohesive core of nuclear gene expression and cell cycle machinery.","confidence":"High","size":24,"edges":194,"triangles":908,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0051301","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0006260","count":3}]},{"hash":"1806025636676208295","title":"Negative regulation of signaling and proliferation","description":"This cluster is dominated by GO terms describing negative regulation across multiple signaling pathways (BMP, activin receptor, PI3K/AKT) and growth-related processes (fibroblast proliferation), plus related stress and development contexts (response to ischemia, CNS development). The common thread is inhibitory control of signaling and cell growth, rather than activation or metabolism, suggesting a coherent group of proteins that dampen signaling and proliferation. ","confidence":"Medium","size":24,"edges":4,"triangles":1,"max_degree":3,"top_function":"cytokinesis","top_go_terms":[{"id":"GO:0048147","count":6},{"id":"GO:0002931","count":4},{"id":"GO:0070584","count":4},{"id":"GO:0010523","count":4},{"id":"GO:0090005","count":4}]},{"hash":"677615475325027389","title":"DNA Replication and RNA Splicing","description":"This cluster shows prominent DNA replication-related terms (replication, primer synthesis, DNA unwinding) and DNA damage response (SOS, UV protection), along with RNA processing and splicing signals (spliceosome conformational changes, mRNA splicing regulation, nonsense-mediated decay), suggesting a combined role in genome maintenance and RNA maturation.","confidence":"Medium","size":24,"edges":187,"triangles":870,"max_degree":20,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":12},{"id":"GO:0006265","count":10},{"id":"GO:0006269","count":10},{"id":"GO:0006268","count":10},{"id":"GO:0009432","count":10}]},{"hash":"2190063682503941553","title":"Mitotic division and ER-Golgi vesicle trafficking","description":"This cluster combines mitosis-related processes (mitotic spindle assembly, mitotic cell cycle, cell division) with secretory pathway transport between the ER and Golgi (COPII budding, retrograde Golgi-to-ER) and development/growth signals, suggesting a theme of mitotic progression intertwined with secretory trafficking in developing multicellular organisms.","confidence":"High","size":24,"edges":14,"triangles":3,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":17},{"id":"GO:0007275","count":15},{"id":"GO:0035264","count":14},{"id":"GO:0006890","count":14},{"id":"GO:0000278","count":14}]},{"hash":"945972572861134599","title":"ER-Golgi Trafficking and Processing","description":"The cluster is enriched for terms related to the secretory pathway, including ER-to-Golgi vesicle transport, COPI-coated vesicles and budding, ER exit, protein processing, retention in the ER lumen, and N-linked glycosylation, pointing to a cohesive role in protein maturation and trafficking through the ER-Golgi system.","confidence":"High","size":24,"edges":202,"triangles":919,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0018279","count":4},{"id":"GO:0070863","count":3},{"id":"GO:0016485","count":3},{"id":"GO:0048205","count":2}]},{"hash":"1338018300586089896","title":"Insect sensory organ development and transcription regulation","description":"The top terms cluster around DNA-templated transcription and developmental processes specific to sensory organs, notably antennal and compound eye photoreceptor development in insects. While a few terms (wound healing, adipose differentiation, cardiac signaling) are outliers, the dominant theme is transcriptional control driving insect sensory organ development.","confidence":"Medium","size":24,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0042060","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0007469","count":2},{"id":"GO:0045316","count":2}]},{"hash":"98278452043844368","title":"Ubiquitin-mediated transcription and signaling","description":"Proteins in this cluster show strong links to ubiquitin-related regulation (K48- and K11-linked deubiquitination; ubiquitin-dependent protein catabolic process) alongside transcription and chromatin modulation (DNA-templated transcription; histone H3-K4 methylation) and signaling pathways (Rap and Rab GTPase signaling), with additional ties to mRNA processing bodies. This combination suggests a theme of ubiquitin-driven control of gene expression, chromatin state, and signal transduction. ","confidence":"High","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0001662","count":3},{"id":"GO:0045737","count":2},{"id":"GO:0032486","count":2},{"id":"GO:0032483","count":2}]},{"hash":"342077808851760119","title":"Developmental growth and cell proliferation","description":"The cluster is enriched for GO terms tied to development (nervous system development, hair follicle placode formation) and to proliferation and the cell cycle (cell division, mitotic cell cycle, cell population proliferation, multicellular organism growth). The presence of trafficking-related terms (COPII vesicle budding, ribosomal subunit export) aligns with active secretion and ribosome biogenesis in proliferating/developing cells, supporting a cohesive developmental-proliferative theme.","confidence":"Medium","size":24,"edges":97,"triangles":137,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":11},{"id":"GO:0051301","count":11},{"id":"GO:0060789","count":10},{"id":"GO:0071701","count":10},{"id":"GO:0000278","count":10}]},{"hash":"1312407401485300174","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":69,"triangles":39,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":8},{"id":"GO:0030206","count":8},{"id":"GO:0015015","count":8},{"id":"GO:0048541","count":6},{"id":"GO:1903753","count":6}]},{"hash":"1282451823841974337","title":"Ubiquitin-mediated immune signaling","description":"The cluster is dominated by ubiquitination-related processes (monoubiquitination, autoubiquitination, K63-linked ubiquitination, ubiquitin-dependent proteolysis) and immune-related functions (innate immune response, B cell homeostasis, NF-kappaB regulation), suggesting a theme of ubiquitin signaling modulating immunity and development. Some terms also relate to protein localization and muscle/cytoskeletal dynamics, which can be affected by ubiquitination.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0007275","count":11},{"id":"GO:0051092","count":11},{"id":"GO:0035372","count":10},{"id":"GO:0045087","count":10},{"id":"GO:0051865","count":9}]},{"hash":"1490385424584438006","title":"MAPK-ERK Developmental Signaling","description":"These proteins cluster around development-related GO terms (nervous system and multicellular organism development) and signaling pathways, especially ERK1/ERK2 cascade and GPCR signaling, with morphogenesis and tissue-formation terms (branching in salivary gland morphogenesis, cartilage condensation, hair follicle morphogenesis) and angiogenesis. This points to a cohesive role in developmental signaling where ERK/MAPK and GPCR inputs coordinate morphogenesis across multiple tissues. ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0070371","count":4},{"id":"GO:0007186","count":4},{"id":"GO:0014068","count":4}]},{"hash":"1018802635468462405","title":"Lipoprotein remodeling and lipid homeostasis","description":"The terms are dominated by lipid biology: triglyceride and cholesterol homeostasis, phospholipid balance, reverse cholesterol transport, and remodeling of HDL, LDL, and VLDL particles, pointing to a cohesive lipid transport/metabolism theme. A couple of outliers (positive regulation of TLR4 signaling and axonogenesis) appear peripheral to the main lipid-centric theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034145","count":3},{"id":"GO:0044130","count":2},{"id":"GO:0070328","count":2},{"id":"GO:0042632","count":2},{"id":"GO:0043691","count":2}]},{"hash":"869553479621547343","title":"Neural crest\u2013Driven Organ Morphogenesis","description":"These terms point to embryonic morphogenesis with a strong emphasis on neural crest\u2013derived tissues and their organs (heart, eye, cochlea, facial structures). The repeated links to neural crest formation, heart development, and morphogenesis of sensory organs indicate a neural crest\u2013driven organ morphogenesis program.","confidence":"High","size":24,"edges":37,"triangles":10,"max_degree":11,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":20},{"id":"GO:0007507","count":20},{"id":"GO:0014029","count":20},{"id":"GO:0007601","count":20},{"id":"GO:0090103","count":17}]},{"hash":"324125200994126157","title":"Embryogenesis and Tissue Morphogenesis","description":"The top GO terms cluster around development and tissue formation: endocrine system development, cartilage morphogenesis, EMT in endocardial cushion formation (heart development), left-right pattern formation, pancreatic cell development, and trophoblast differentiation. While some terms touch on general cellular processes (ribosomal export, transcription regulation), the dominant theme is embryonic development and morphogenesis across multiple tissues, indicating a cohesive developmental program rather than a single pathway. ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":12},{"id":"GO:0060536","count":12},{"id":"GO:0003198","count":12},{"id":"GO:0060806","count":12},{"id":"GO:0060972","count":12}]},{"hash":"1722340856676807986","title":"Neurodevelopment and Cardiac Development Signaling","description":"This cluster centers on developmental signaling across neural and cardiac tissues, highlighted by hippo signaling, hippocampus development, and neurotrophin receptor pathways, with supporting stress/apoptosis signaling via JNK and apoptosis execution, suggesting coordinated regulation of growth, differentiation, and cell fate decisions in development.","confidence":"Medium","size":24,"edges":150,"triangles":460,"max_degree":21,"top_function":"wound healing","top_go_terms":[{"id":"GO:0051092","count":16},{"id":"GO:0035329","count":14},{"id":"GO:0021766","count":14},{"id":"GO:0048011","count":14},{"id":"GO:0007507","count":14}]},{"hash":"1466991723092994963","title":"Endosomal trafficking and multivesicular body formation","description":"This cluster centers on endosomal membrane dynamics, including intralumenal vesicle formation, endosome maturation (early to late), and MVB-lysosome fusion, as well as associated processes like membrane fission and Golgi retention. The presence of terms tying autophagosome assembly, apoptotic signaling, nuclear membrane reassembly, and mitotic exit to vesicle trafficking suggests a cohesive function in endosomal trafficking and vesicle maturation. ","confidence":"High","size":24,"edges":248,"triangles":1557,"max_degree":23,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070676","count":8},{"id":"GO:0045053","count":8},{"id":"GO:1902902","count":7},{"id":"GO:0006915","count":7},{"id":"GO:0031468","count":7}]},{"hash":"1030345621688118857","title":"Spliceosome-driven mRNA splicing and processing","description":"The cluster is dominated by GO terms for RNA splicing via the spliceosome (regulation of alternative mRNA splicing, RNA splicing, positive regulation of splicing) and mRNA processing/stability (mRNA stabilization, regulation of mRNA stability in response to stress, polyadenylation). While a few terms touch translation initiation, the strongest signal is spliceosome-mediated RNA processing and turnover, suggesting these proteins function primarily in RNA processing rather than translation. ","confidence":"High","size":24,"edges":37,"triangles":26,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":9},{"id":"GO:0000380","count":8},{"id":"GO:0075522","count":7},{"id":"GO:0006378","count":7},{"id":"GO:0048026","count":7}]},{"hash":"1914175807378228257","title":"Rho/Rac-driven lamellipodium and actin remodeling","description":"This cluster centers on actin cytoskeleton dynamics, lamellipodium formation, and small GTPase signaling (Rho and Rac), pointing to roles in edge protrusion and cell motility; broader terms for Ras signaling, insulin pathway, heart development, and myelin maintenance reflect additional regulatory contexts but do not change the core cytoskeletal theme.","confidence":"High","size":24,"edges":256,"triangles":1645,"max_degree":23,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030032","count":21},{"id":"GO:0007507","count":18},{"id":"GO:0035023","count":18},{"id":"GO:0030036","count":17},{"id":"GO:0007264","count":16}]},{"hash":"1592922634710826462","title":"Ciliogenesis and mitotic machinery","description":"The cluster is dominated by GO terms for cilium assembly, establishment of mitotic spindle orientation, actin nucleation via Arp2/3, and general cell division, all pointing to a cohesive role in coordinating ciliogenesis with mitotic and cytoskeletal dynamics. Additional terms on microtubule-based movement and vesicle trafficking further support a theme of cytoskeletal regulation tied to division and intracellular transport, though translation-related terms appear ancillary. Overall, a strong link to ciliary formation and mitotic/cytoskeletal processes.","confidence":"High","size":24,"edges":50,"triangles":56,"max_degree":14,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0060271","count":6},{"id":"GO:0000132","count":6},{"id":"GO:2000601","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0031081","count":5}]},{"hash":"556740988974349004","title":"Lamellipodium Assembly and Rac/Ras Signaling","description":"The cluster is dominated by GO terms for lamellipodium assembly and actin cytoskeleton organization, along with small GTPase\u2013mediated signaling and specific Rac and Ras pathway regulation. This points to a common theme of actin-driven cell motility and cytoskeletal remodeling governed by Rac/Ras signaling networks, with supporting inputs from PI3K/insulin signaling and adhesion-related processes. While some terms are broader (e.g., placenta development, IL-7 response), the strongest signal reflects actin dynamics and motility control.","confidence":"High","size":24,"edges":6,"triangles":4,"max_degree":3,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030032","count":15},{"id":"GO:0014065","count":14},{"id":"GO:0001893","count":14},{"id":"GO:0007264","count":14},{"id":"GO:0046580","count":14}]},{"hash":"642560993547185260","title":"Heart EMT and craniofacial morphogenesis","description":"The top GO terms point to processes in early development, especially heart valve formation via endocardial cushion epithelial-to-mesenchymal transition, mesoderm formation, and craniofacial/skeletal patterning (embryonic cranial skeleton morphogenesis, roof of mouth development, chondrocyte differentiation). While DNA replication/transcription terms are present, the cohesive theme is embryonic heart and craniofacial morphogenesis, suggesting these proteins participate in developmental regulatory networks governing heart ECM/valve formation and facial/skull structures.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0003198","count":4},{"id":"GO:0032298","count":4},{"id":"GO:0002062","count":4},{"id":"GO:0006351","count":4}]},{"hash":"1463750509221098915","title":"Developmental and Metabolic Signaling","description":"The Top Terms show a mix of neural activity (synaptic transmission), developmental processes (heart and face development), and metabolic signaling (insulin/GH pathways and adipogenesis). While the set spans multiple processes, a unifying theme is signaling that governs growth, differentiation, and metabolic regulation. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035249","count":8},{"id":"GO:0031914","count":8},{"id":"GO:2001275","count":8},{"id":"GO:0016477","count":8},{"id":"GO:0007507","count":8}]},{"hash":"1269664642202714822","title":"Rho-Actin Cytoskeleton and Centrosome Regulation","description":"The top GO terms center on centrosome duplication and its positive/negative regulation, combined with Rho-mediated stress fiber formation and cortical actin organization, plus cell polarity establishment. This suggests a module where Rho signaling coordinates cytoskeletal dynamics and centrosome control, with related signaling pathways (NF-kappaB) and angiogenesis regulation as ancillary associations. Confidence reflects coherent alignment between actin/cytoskeleton regulation and centrosome processes in the cluster.","confidence":"High","size":24,"edges":15,"triangles":5,"max_degree":8,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0051298","count":7},{"id":"GO:0051492","count":7},{"id":"GO:0007266","count":7},{"id":"GO:0010825","count":7},{"id":"GO:0006939","count":7}]},{"hash":"301457387195819753","title":"Immune signaling and hematopoiesis","description":"This cluster is characterized by immune system processes and blood cell development, with terms like NK T cell differentiation, interleukin responses (IL-7, IL-4), GM-CSF signaling, hematopoiesis, and PI3K/AKT pathway activity, indicating proteins involved in immune cell signaling and blood cell formation. ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016477","count":10},{"id":"GO:2001275","count":10},{"id":"GO:0098761","count":9},{"id":"GO:0030097","count":9},{"id":"GO:0018107","count":9}]},{"hash":"1499740915586779562","title":"Glutamatergic Synapses and Spine Morphogenesis","description":"This cluster is dominated by GO terms for glutamate secretion, chemical synaptic transmission, and dendritic spine morphogenesis, with strong representation of long-term synaptic depression, suggesting a core focus on glutamatergic synapse formation and plasticity. Additional terms like cochlea morphogenesis and Purkinje cell layer formation align with specialized synaptic circuits (auditory and cerebellar), while adherence junction and polarity terms likely reflect synaptic adhesion and organization. Overall, the proteins appear tied to glutamatergic synapse development and spine remodeling.","confidence":"High","size":24,"edges":185,"triangles":798,"max_degree":23,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0014047","count":21},{"id":"GO:0007268","count":21},{"id":"GO:0060292","count":20},{"id":"GO:0090103","count":20},{"id":"GO:0060997","count":20}]},{"hash":"1459578369847586860","title":"Rho/Ras signaling and vesicle regulation","description":"This cluster centers on regulation of Rho/Ras signaling and vesicle trafficking/exocytosis (synaptic vesicle priming, acrosome reaction, degranulation), with supporting signals in neuronal connectivity and GABAergic transmission. The common thread is signaling-driven vesicle regulation across cell types, so \"Rho/Ras signaling and vesicle regulation\" fits well.","confidence":"High","size":24,"edges":15,"triangles":2,"max_degree":9,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":22},{"id":"GO:0046580","count":21},{"id":"GO:0007340","count":21},{"id":"GO:0016082","count":21},{"id":"GO:0060313","count":21}]},{"hash":"1931892688129055522","title":"T cell mediated immune signaling and apoptosis","description":"The cluster contains immune-related terms such as positive regulation of IP-10 production and T cell homeostasis, plus antiviral process and extrinsic apoptotic signaling, proteolysis, and regulatory miRNA processing terms. This suggests a cohesive theme around immune signaling, antiviral responses, and apoptosis regulation, with additional metabolic/developmental context.","confidence":"Medium","size":24,"edges":48,"triangles":22,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0019677","count":5},{"id":"GO:0018120","count":5},{"id":"GO:0071660","count":5},{"id":"GO:0009405","count":3},{"id":"GO:0016032","count":3}]},{"hash":"939269710676868764","title":"Transcription and DNA Replication Regulation with Stress Response","description":"The terms center on DNA-templated transcription and regulation of DNA replication initiation, with additional signals for developmental signaling (negative regulation of Wnt) and stress responses (response to toxic substances, cellular oxidant detoxification). There are also hints of post-translational modification (palmitoylation) and vesicle dynamics (vacuole fusion) that could influence protein stability and trafficking. Together, these suggest a cluster of proteins involved in regulating gene expression and DNA replication, with a notable but secondary emphasis on stress response and detoxification rather than a single, cohesive pathway.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090090","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0051930","count":2},{"id":"GO:0032298","count":2}]},{"hash":"160695708571603409","title":"Rho/Rac GTPase\u2013driven actin remodeling and endothelial morphogenesis","description":"The proteins cluster around Rho family GTPase signaling (Rho and Rac), with regulation of stress fiber formation and actin filament organization, plus endothelial lumen extension and adhesion-dependent cell spreading. The inclusion of calcineurin-NFAT signaling suggests calcium-regulated transcription linked to these cytoskeletal and morphogenetic processes, supporting a cohesive theme of Rho/Rac-mediated cytoskeletal remodeling driving endothelial morphogenesis.","confidence":"High","size":24,"edges":56,"triangles":66,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0051497","count":10},{"id":"GO:0035024","count":8},{"id":"GO:0007264","count":8},{"id":"GO:0097498","count":8},{"id":"GO:0035021","count":7}]},{"hash":"1720036552792379622","title":"Immune signaling and tissue development","description":"These proteins show a blend of immune-related functions (defense response to bacterium; classical complement activation) and broad signaling/t developmental roles (ERK cascade regulation; VEGF-PDGFR signaling; heart development; GI epithelium maintenance; axon regeneration). The common thread appears to be signaling that links immune responses with tissue development and remodeling, plus adhesion dynamics. Confidence: Medium","confidence":"","size":24,"edges":2,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042742","count":13},{"id":"GO:0070374","count":13},{"id":"GO:0007507","count":13},{"id":"GO:0006958","count":13},{"id":"GO:0007157","count":13}]},{"hash":"2183903532610502968","title":"Embryonic Organogenesis","description":"The proteins show strong enrichment for developmental processes across many organs (heart, forebrain, cerebellum, inner ear, placenta, thyroid, skeletal muscle, cranial skeleton), indicating a shared role in broad organogenesis and tissue morphogenesis rather than a single tissue-specific function.","confidence":"High","size":24,"edges":39,"triangles":44,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0021549","count":7},{"id":"GO:0048839","count":7},{"id":"GO:0030878","count":7}]},{"hash":"1792801334242306997","title":"Insulin-PI3K signaling in hematopoietic/immune cells","description":"This cluster is dominated by GO terms related to insulin receptor signaling and the PI3K/AKT pathway, along with glucose transport and peptidyl-threonine phosphorylation. It also includes hematopoietic/immune differentiation signals (NK T cell differentiation, IL-7 response, GM-CSF stimulus) and hematopoiesis, suggesting a theme of metabolic signaling interacting with immune/hematopoietic development. A heart development term is present but seems less central to the main theme, which is insulin-PI3K\u2013driven signaling in immune-hematopoietic contexts.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":7},{"id":"GO:0010765","count":6},{"id":"GO:0043491","count":6},{"id":"GO:2001275","count":6},{"id":"GO:0008286","count":6}]},{"hash":"733129775108466480","title":"Macrophage Innate Immune Signaling and Cytokine Regulation","description":"This cluster centers on innate immune functions in macrophages, including macrophage activation and innate immune response, with regulatory control of NF-kappaB signaling and cytokine production (TNF, IL-18, IFN-beta). The presence of negative regulation of ERK cascade and actin filament remodeling suggests coordinated signaling and cytoskeletal changes essential for macrophage responses. Overall, a cohesive theme of macrophage-driven innate immune signaling and cytokine regulation fits well.","confidence":"High","size":24,"edges":22,"triangles":8,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070373","count":24},{"id":"GO:0042116","count":24},{"id":"GO:0051770","count":24},{"id":"GO:0045087","count":24},{"id":"GO:0043124","count":24}]},{"hash":"834133191877520465","title":"Cardiac and smooth muscle ion transport signaling","description":"The GO terms show a strong focus on ion transport (potassium import/transport, calcium response) and membrane potential dynamics (membrane repolarization) that drive cardiac and smooth muscle contraction. Additional terms involve cGMP signaling and calcium responses, which modulate muscle tone, again supporting a muscle-centric signaling theme. While there are touches of sensory and skin development terms, the dominant pattern ties to ion handling and signaling that underpins muscle function in heart and smooth muscle, making this a coherent cluster about muscle ion transport signaling.","confidence":"Medium","size":24,"edges":6,"triangles":2,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0098914","count":20},{"id":"GO:0034465","count":19},{"id":"GO:0060083","count":19},{"id":"GO:0050976","count":19},{"id":"GO:0051592","count":19}]},{"hash":"196609548966825832","title":"TLR signaling and cytoskeletal remodeling","description":"This cluster shows strong enrichment for MyD88-dependent TLR4 signaling, along with regulation of transcription, and prominent actin cytoskeleton organization, lamellipodium/filopodium assembly, and GTPase activation. Together, these terms suggest proteins that coordinate innate immune signal transduction with cytoskeletal dynamics and cell motility, a common combination in immune cell responses. Cross-talk with growth factor pathways (e.g., insulin receptor signaling, Ras regulation) may also be present but secondary.","confidence":"High","size":24,"edges":275,"triangles":2002,"max_degree":23,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035660","count":18},{"id":"GO:0006355","count":18},{"id":"GO:0007527","count":18},{"id":"GO:0030036","count":6},{"id":"GO:0008286","count":5}]},{"hash":"2203367330403013738","title":"Epithelial Adhesion and Immune Regulation","description":"This cluster is dominated by cell-cell adhesion terms (homophilic/heterophilic adhesion) and immune-modulatory GO terms (negative regulation of macrophage, NK, and T cell activity) plus GI epithelium maintenance signals, indicating adhesive molecules that coordinate tissue integrity with local immune responses.","confidence":"High","size":24,"edges":8,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":20},{"id":"GO:0007157","count":20},{"id":"GO:0042742","count":19},{"id":"GO:0046718","count":19},{"id":"GO:0043031","count":19}]},{"hash":"2174382600888875532","title":"Cytokine-driven immune signaling and hematopoiesis","description":"The top GO terms cluster around immune signaling and development: cellular responses to IL-7, GM-CSF, and IL-4, NK T cell differentiation, hemopoiesis, and PI3K/AKT signaling, plus associated processes like cell migration and phosphorylation. This pattern points to a group of proteins involved in cytokine-mediated immune cell signaling and blood cell formation rather than a single shared enzymatic function.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0016477","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0098761","count":4},{"id":"GO:0030097","count":4},{"id":"GO:0018107","count":4}]},{"hash":"659049183633845449","title":"ER Network Formation and Neural Morphogenesis","description":"This cluster centers on ER tubular network formation and organization, and ER-to-Golgi trafficking, with several terms tied to neural development (radial glia-guided migration, axonal fasciculation, nerve branching morphogenesis). Additional ER-associated processes like peroxisome organization and steroid biosynthesis further support an ER-centric functional theme, including neural context. Overall, the dominant signal is ER network formation/trafficking coupled with neural morphogenesis.","confidence":"Medium","size":24,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051292","count":3},{"id":"GO:0006888","count":2},{"id":"GO:1990809","count":2},{"id":"GO:0021801","count":2},{"id":"GO:0071787","count":2}]},{"hash":"1928905923502667598","title":"Neuronal signaling and neurotransmitter secretion","description":"The cluster shows a strong enrichment for neuronal communication and secretory processes: GPCR signaling with PKC activation, long-term synaptic depression, regulation of neurotransmitter secretion, monoamine transport, dendritic spine maintenance, dense core granule maturation, and insulin/neuroendocrine secretion regulation, along with cytoskeletal remodeling (Arp2/3, Rac) and phosphorylation control. These together point to a coherent theme of synaptic signaling and neurotransmitter release with related secretory pathways.","confidence":"High","size":24,"edges":103,"triangles":199,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":5},{"id":"GO:1990502","count":3},{"id":"GO:0060292","count":3},{"id":"GO:0046928","count":3},{"id":"GO:0034316","count":3}]},{"hash":"1449609050856792430","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":28,"triangles":3,"max_degree":6,"top_function":"wound healing","top_go_terms":[{"id":"GO:0060384","count":6},{"id":"GO:0030199","count":5},{"id":"GO:1904707","count":5},{"id":"GO:0044849","count":5},{"id":"GO:0071260","count":4}]},{"hash":"846942597908431292","title":"Auditory hair cell signaling and development","description":"The top GO terms cluster around mechanosensation and synaptic activity in the inner ear, including detection of mechanical stimuli for sound, auditory receptor cell development, and calcium-dependent exocytosis, with supporting terms on protein transport and endocytosis. This suggests a cohesive module related to auditory mechanosensory signaling and hair cell neurotransmission.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050715","count":3},{"id":"GO:0015031","count":3},{"id":"GO:0045806","count":3},{"id":"GO:0045956","count":3},{"id":"GO:0060005","count":3}]},{"hash":"32575767770911676","title":"Developmental cell adhesion and signaling","description":"GO terms point to broad developmental roles across neural, cardiac, and vascular tissues (nervous system development, heart development, angiogenesis) with involvement in synapse assembly and cell adhesion. The presence of ERK1/ERK2 cascade regulation and proteolysis implies active signaling and remodeling during morphogenesis. Together, these terms suggest proteins that coordinate developmental signaling with cell\u2013cell adhesion to drive tissue formation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":10},{"id":"GO:0051965","count":9},{"id":"GO:0043931","count":8},{"id":"GO:0007156","count":8},{"id":"GO:0001525","count":7}]},{"hash":"1587271125976628909","title":"Innate Immune Activation and Cytokine Production","description":"The cluster\u2019s top GO terms are dominated by innate immune processes (innate immune response, macrophage activation) and cytokine regulation (production of IL-6, IL-8, and interferon-beta), alongside NOD1 signaling. This points to a shared function in pathogen sensing and immune signaling. Some terms about brassinosteroid detection and axon guidance appear, but the prevailing signal is innate immune activation and cytokine production.","confidence":"High","size":24,"edges":17,"triangles":4,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0009729","count":24},{"id":"GO:0042116","count":24},{"id":"GO:0051770","count":24},{"id":"GO:0071260","count":24},{"id":"GO:0070430","count":24}]},{"hash":"1972078659588536226","title":"ECM Adhesion and Sensory Structure Components","description":"This cluster centers on extracellular matrix organization and cell-matrix adhesion (and associated basement membrane development), with strong links to sensory tissue structure (otolith tethering and sensory perception of sound). The presence of junction assembly terms and ECM-related processes reinforces a theme of adhesion and structural integrity in epithelia and sensory organs, though some lipid biosynthesis terms are also present. Confidence in this label is Medium.","confidence":"Medium","size":24,"edges":85,"triangles":141,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0035889","count":10},{"id":"GO:0032836","count":10},{"id":"GO:0007160","count":10},{"id":"GO:0007605","count":10},{"id":"GO:0090528","count":10}]},{"hash":"2282254750480085183","title":"Chemokine-mediated immune cell recruitment","description":"Top GO terms highlight chemokine-mediated signaling, and chemotaxis of monocytes, T cells, and eosinophils, along with a broad immune response and platelet activation. Together these point to a module coordinating immune cell trafficking and inflammatory signaling, driven by chemokines. The insulin secretion term appears peripheral; overall the dominant pattern is immune recruitment and activation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051930","count":24},{"id":"GO:0090026","count":24},{"id":"GO:0070098","count":24},{"id":"GO:0006955","count":24},{"id":"GO:0030168","count":24}]},{"hash":"1896485883337303356","title":"ECM remodeling in development and fertilization","description":"This cluster shows GO terms centered on extracellular matrix organization and cell-matrix adhesion (e.g., cell-matrix adhesion, elastic fiber assembly), paired with developmental and reproductive processes (embryo implantation, sperm-egg recognition and fusion, multicellular organism development). The combination suggests a coherent function in ECM-driven tissue remodeling during development and fertilization, with additional ECM-related immune/coagulation associations. ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":3},{"id":"GO:0040015","count":3},{"id":"GO:0007566","count":3},{"id":"GO:0007342","count":3},{"id":"GO:0035036","count":3}]},{"hash":"1334550504163112177","title":"Innate Immunity, Phagocytosis, and B Cell Signaling","description":"This cluster is dominated by GO terms for phagocytosis, innate immune response, B cell activation and B cell receptor signaling, and complement activation, suggesting a cohesive module of immune defense that spans innate phagocytic processes and adaptive humoral signaling. The inclusion of macrophage activation regulation and cell adhesion terms supports immune cell interactions within this response, including recognition of symbionts or pathogens. ","confidence":"High","size":24,"edges":152,"triangles":390,"max_degree":18,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006911","count":22},{"id":"GO:0045087","count":22},{"id":"GO:0050871","count":22},{"id":"GO:0050853","count":22},{"id":"GO:0006958","count":22}]},{"hash":"1440321753386115560","title":"Regulation of neuronal signaling and neurotransmitter release","description":"These proteins cluster around key aspects of neuronal communication: regulation and execution of synaptic transmission, especially dopaminergic and glycinergic signaling, and modulation of neurotransmitter release (dopamine, norepinephrine). The GO terms emphasize neurotransmitter secretion and transmission regulation, along with sensory and ethanol-related responses, suggesting a cohesive theme of modulated neuronal signaling and sensory processing.","confidence":"High","size":24,"edges":253,"triangles":1771,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0014061","count":23},{"id":"GO:0060012","count":23},{"id":"GO:0001661","count":23},{"id":"GO:0032226","count":23},{"id":"GO:0051970","count":23}]},{"hash":"2106379398369905920","title":"Gastrointestinal mucosal immunity and epithelial barrier","description":"This cluster centers on mucosal immune defenses in the GI tract, including innate defense against bacteria, phagocytosis, and Ig transcytosis via polymeric immunoglobulin receptor, as well as signals regulating T cell proliferation and CCR7 pathways. The presence of epithelial barrier maintenance and virion attachment terms suggests roles in maintaining epithelial integrity while mounting immune responses, making the GI mucosal immune system the most coherent unifying theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":10},{"id":"GO:0042742","count":10},{"id":"GO:0006910","count":10},{"id":"GO:0006508","count":10},{"id":"GO:0030277","count":9}]},{"hash":"1042457476795999708","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":190,"triangles":915,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":8},{"id":"GO:0007420","count":7},{"id":"GO:0046939","count":6},{"id":"GO:0046940","count":6},{"id":"GO:0015937","count":5}]},{"hash":"1969722216397898475","title":"Telomere-associated mitosis and chromatin regulation","description":"The cluster shows strong enrichment for mitotic cell cycle and telomere-related chromatin terms (cell division, subtelomeric heterochromatin formation, localization to telomeric regions), suggesting a set of proteins involved in chromosome segregation and telomere maintenance during cell division. Some terms (interferon response, cytokinin signaling, Golgi transport) may reflect broader signaling or annotation noise but do not override the central telomere/mitosis theme.","confidence":"Medium","size":23,"edges":101,"triangles":200,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":10},{"id":"GO:0000278","count":10},{"id":"GO:0009736","count":10},{"id":"GO:0051291","count":9},{"id":"GO:0070198","count":7}]},{"hash":"2175683181516895390","title":"Neural development and synapse formation","description":"The cluster is driven by neural development terms: axonogenesis, axonal fasciculation, corpus callosum development, and positive regulation of synapse assembly, indicating a cohesive role in neural connectivity and synapse formation. The presence of innate immune and interferon-related terms suggests some concurrent signaling pathways or regulatory crosstalk, but the dominant theme appears to be neural development and synaptic organization.","confidence":"Medium","size":23,"edges":12,"triangles":5,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051965","count":13},{"id":"GO:0022038","count":12},{"id":"GO:0007409","count":11},{"id":"GO:0007413","count":11},{"id":"GO:0045087","count":10}]},{"hash":"236565137979911171","title":"Regulation of myelination and GTPase signaling","description":"This cluster centers on signaling pathways that control myelin formation and maintenance, highlighted by regulation of GTPase activity and negative regulation of myelination/myelin assembly. The presence of mitotic cell cycle terms suggests involvement in glial progenitor proliferation, while phosphatidylinositol dephosphorylation and autophagy-related terms point to broader membrane trafficking and cellular homeostasis roles that can influence myelination. Overall, the proteins appear linked to signaling networks governing myelination and glial cell behavior rather than a single isolated function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043087","count":4},{"id":"GO:0031642","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":3},{"id":"GO:1902902","count":2}]},{"hash":"1992976205149574452","title":"Ribosome biogenesis and translation machinery","description":"The top terms cluster around ribosome assembly, rRNA maturation, ribosomal subunit biogenesis, and formation of the translation preinitiation complex, indicating a core module of ribosome/translation machinery; other terms related to cell division and microtubule dynamics are present but secondary.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0000463","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0006367","count":3}]},{"hash":"317480092530002800","title":"Neurodevelopment and organogenesis signaling (ERK)","description":"This cluster features strong representation of nervous system development, axon regeneration, and synaptic plasticity regulation, alongside organogenesis terms such as thyroid and thymus development, plus endothelial migration and cell-matrix adhesion. The presence of ERK1/2 cascade regulation ties these neural and organ-development processes together, suggesting a developmental signaling theme rather than a single specific function. Confidence: Medium","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":4},{"id":"GO:0043536","count":4},{"id":"GO:0048680","count":3},{"id":"GO:0030878","count":3},{"id":"GO:0000278","count":3}]},{"hash":"526876248958100820","title":"Mitochondrial Respiration and ATP Synthesis","description":"The top GO terms are dominated by mitochondrial electron transport and ATP production processes (NADH to ubiquinone, cytochrome c to oxygen, proton motive force\u2013driven ATP synthesis), plus assembly of the respiratory chain complex IV. Although one term mentions photosynthesis, the prevailing theme is mitochondrial oxidative phosphorylation and energy generation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042773","count":5},{"id":"GO:1902600","count":4},{"id":"GO:0019684","count":4},{"id":"GO:0033617","count":3},{"id":"GO:0006123","count":3}]},{"hash":"1696544488735622901","title":"Embryonic tissue development","description":"Dominant signals are embryonic development and tissue morphogenesis (heart, muscle, cranial skeleton, and neural guidance). The presence of innate immune and basic cellular processes (DNA replication, apoptosis, transcription regulation) likely reflects general developmental regulation and cell turnover rather than a cohesive immune-focused function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0008045","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0007519","count":4},{"id":"GO:0000122","count":4}]},{"hash":"1153412200321313625","title":"Developmental signaling and cell cycle regulation","description":"This cluster includes terms spanning neuronal development (neural tube closure, dendritic spine morphogenesis), spindle-kinetochore attachment and mitotic DNA damage checkpoint signaling, and major signaling pathways (VEGF signaling, Wnt signaling) along with related processes like autophagy regulation and leukocyte chemotaxis. The common thread appears to be cellular signaling networks coordinating development and cell cycle events, with emphasis on neuronal development and broader developmental signaling pathways. Confidence in this thematic label is moderate, given the diversity of terms but a clear connect through signaling and developmental processes. ","confidence":"Medium","size":23,"edges":74,"triangles":96,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051316","count":23},{"id":"GO:0001843","count":23},{"id":"GO:0060997","count":23},{"id":"GO:0002688","count":23},{"id":"GO:0048010","count":23}]},{"hash":"14351437823057394","title":"Rho-regulated cytoskeleton and polarity","description":"Based on GO terms like podosome assembly, regulation of Rho protein signal transduction, and positive regulation of GTPase activity, the cluster centers on actin cytoskeleton remodeling governed by Rho-family GTPases. Additional terms for cell polarity establishment and developmental processes (eye morphogenesis, vulval fate) suggest roles in tissue morphogenesis and cellular organization. Some metabolic terms appear but do not define the core theme. Confidence: High","confidence":"","size":23,"edges":96,"triangles":181,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":2},{"id":"GO:0071800","count":2},{"id":"GO:0035023","count":2},{"id":"GO:2000114","count":2},{"id":"GO:2000495","count":2}]},{"hash":"527619616554167356","title":"Embryonic heart and angiogenesis with ECM remodeling","description":"The cluster is enriched for heart development, angiogenesis, and broader embryonic organ morphogenesis (cranial skeleton, eye, kidney), along with collagen fibril organization and proteolysis. This combination points to extracellular matrix remodeling supporting cardiovascular and embryonic organogenesis.","confidence":"High","size":23,"edges":24,"triangles":5,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0006508","count":5},{"id":"GO:0030199","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0007507","count":4}]},{"hash":"203472629063388341","title":"Adaptive immune signaling: B cell and Fc receptor pathways","description":"This cluster is rich in GO terms for adaptive immunity, especially B cell receptor and Fc receptor signaling, along with IL-2 production, NF-kappaB regulation, ubiquitination, and Rho signaling, indicating a cohesive B cell\u2013centered signaling module.","confidence":"High","size":23,"edges":205,"triangles":1041,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":22},{"id":"GO:0043066","count":21},{"id":"GO:1900042","count":21},{"id":"GO:0060368","count":21},{"id":"GO:0051092","count":21}]},{"hash":"371567288598691524","title":"Cytoskeletal Remodeling in Development","description":"The cluster prominently features cytoskeletal dynamics (microtubule and actin depolymerization, spindle assembly) and processes related to cell polarity and differentiation, including neuron projection development and muscle/cardiac development, suggesting a cohesive role in cytoskeleton-driven development across tissues.","confidence":"High","size":23,"edges":89,"triangles":91,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007026","count":5},{"id":"GO:0035264","count":5},{"id":"GO:0030433","count":4},{"id":"GO:0016575","count":4},{"id":"GO:0090307","count":4}]},{"hash":"755881180795603233","title":"Wnt and Growth-Factor Signaling in Immunity","description":"The cluster centers on signaling pathways (Wnt signaling, responses to EGF and GM-CSF) with immune-related roles (B cell homeostasis, defense against Gram-positive bacteria) and membrane dynamics (membrane tubulation, myelin maintenance), suggesting a cohesive theme of signaling processes governing immune regulation and development rather than a single dedicated function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":2},{"id":"GO:0050830","count":2},{"id":"GO:1903526","count":2},{"id":"GO:0032287","count":2},{"id":"GO:0001782","count":2}]},{"hash":"1596037743147122491","title":"GTPase signaling and actin cytoskeleton organization","description":"This cluster is best described by the strong representation of GTPase-related terms (positive regulation of GTPase activity; small GTPase-mediated signal transduction) and the prominence of actin cytoskeleton organization, suggesting a coherent theme around GTPase-driven signaling and cytoskeletal dynamics. While other included pathways (insulin/IGF/growth hormone signaling, TNF production) are present, they appear as downstream or parallel connections rather than the primary driver of the cluster.","confidence":"High","size":23,"edges":24,"triangles":7,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0097194","count":4},{"id":"GO:0007264","count":3},{"id":"GO:0060313","count":3},{"id":"GO:0046626","count":3}]},{"hash":"1921865519597933938","title":"Ribosome Biogenesis and RNA Processing","description":"The terms converge on ribosome assembly/export, rRNA processing, and RNA metabolism (mRNA processing/splicing), with mitotic/meiotic cell-cycle signals\u2014a nucleolar program linked to cell division.","confidence":"High","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0000055","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0000747","count":4}]},{"hash":"649333214146803376","title":"Ubiquitin-Proteasome Regulation of Signaling","description":"The cluster is enriched for ubiquitin-dependent protein catabolic processes, K11-linked ubiquitination, and proteasomal degradation, indicating a proteostasis core. It also includes terms related to signaling (Wnt, JNK) and cellular organization (epithelial polarity, mitochondrial fission), suggesting these proteins coordinate protein turnover to modulate signaling pathways and cell structure.","confidence":"High","size":23,"edges":58,"triangles":34,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0042787","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0046329","count":7},{"id":"GO:0000266","count":7}]},{"hash":"1345121775502414958","title":"Cellular stress and proliferation signals","description":"The top GO terms point to ER unfolded protein response and apoptotic processes, alongside DNA replication, DNA biosynthesis, and cell division, suggesting a theme of how cells manage ER stress while proliferating. Developmental terms like fat pad development and endothelial proliferation are present but less central, while a few items (DNA transposition, early viral transcription) are more divergent. Overall, the cluster seems tied to stress-responsive regulation of growth and DNA metabolism rather than a single unified pathway.","confidence":"Medium","size":23,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030968","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0060613","count":2},{"id":"GO:0070389","count":2},{"id":"GO:0006313","count":2}]},{"hash":"463634630435199312","title":"Neuronal adhesion and synaptic organization","description":"The cluster includes multiple GO terms tied to neural connectivity and synaptic architecture: heterophilic and homophilic cell-cell adhesion, regulation of synapse assembly, dorsal/ventral axon guidance, and paranode localization, along with regulation of synaptic vesicle endocytosis. Circadian rhythm terms also fit brain function, while NF-kappaB signaling and ossification appear as broader or less specific associations. Overall, the core theme centers on neural adhesion and synaptic organization with related signaling.","confidence":"Medium","size":23,"edges":13,"triangles":3,"max_degree":6,"top_function":"autophagy","top_go_terms":[{"id":"GO:0043123","count":7},{"id":"GO:0043931","count":7},{"id":"GO:0046598","count":6},{"id":"GO:0007157","count":6},{"id":"GO:1900242","count":6}]},{"hash":"1482867863710343778","title":"Developmental Signaling and Morphogenesis","description":"These proteins cluster around developmental signaling and morphogenesis: transcription regulation, neural tube closure, dendritic spine morphogenesis, and signaling pathways such as Wnt, VEGF, and HGF. The term set points to a broad developmental-growth program influencing neural, vascular, and cellular organization processes, rather than a single pathway. ","confidence":"Medium","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":18},{"id":"GO:0090400","count":18},{"id":"GO:0035729","count":18},{"id":"GO:0051316","count":16},{"id":"GO:0001843","count":16}]},{"hash":"1325048074452933966","title":"Mitochondrial fusion and cristae organization","description":"The cluster is driven by mitochondrial structure terms, especially mitochondrial fusion and cristae formation, suggesting a primary theme of mitochondrial morphology. Related terms such as phosphatidic acid biosynthesis (membrane biogenesis), endosome-to-lysosome transport (membrane trafficking), and lamellipodium morphogenesis (cytoskeletal remodeling) point to interconnected membrane and trafficking processes that shape organelle architecture and dynamics. Some other terms (eye development, brood size) appear tangential, but do not outweigh the core mitochondrial signal.","confidence":"Medium","size":23,"edges":13,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0008053","count":3},{"id":"GO:0042407","count":3},{"id":"GO:0000278","count":2},{"id":"GO:0000902","count":1},{"id":"GO:0006654","count":1}]},{"hash":"2043153041184936333","title":"Vertebrate embryogenesis and tissue morphogenesis","description":"The top GO terms cluster around developmental processes: endocrine system development, cartilage morphogenesis, EMT in endocardial cushion formation, placental development, left-right pattern formation, pancreatic cell development, and trophoblast differentiation. These collectively point to roles in vertebrate embryogenesis and organ/tissue morphogenesis, with a couple of broader housekeeping terms likely reflecting shared cellular machinery rather than core function. Overall, the cluster appears to consist of proteins involved in embryonic development and tissue formation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0060806","count":5},{"id":"GO:0060972","count":5}]},{"hash":"878032786118224902","title":"Neural and Mesoderm Development","description":"The top GO terms are dominated by developmental processes, notably multicellular organism development, mesoderm formation, neural tube closure, and nervous system development, with some signaling and immune-related terms appearing secondary. This suggests the cluster centers on proteins involved in early development and neural differentiation, with ancillary roles in stress signaling.","confidence":"High","size":23,"edges":56,"triangles":39,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0001707","count":2},{"id":"GO:0046827","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0045087","count":2}]},{"hash":"1877963021951443803","title":"Neuronal signaling and dendritic spine morphogenesis","description":"Top GO terms point to neuronal signaling and synaptic remodeling: Rho-mediated signal transduction, MAPK/JUN phosphorylation, and dendritic spine morphogenesis, plus a behavioral response to cocaine. Several terms also touch on muscle activity and development, suggesting broader neuromuscular and developmental roles, but the strongest enrichment centers on neuron-specific signaling and cytoskeleton dynamics. Taken together, this cluster appears to represent activity-dependent synaptic signaling and morphological changes in dendritic spines.","confidence":"High","size":23,"edges":31,"triangles":7,"max_degree":7,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0001525","count":11},{"id":"GO:0000187","count":11},{"id":"GO:0007258","count":10},{"id":"GO:0031532","count":10},{"id":"GO:0007275","count":10}]},{"hash":"1087734472091647287","title":"Actin cytoskeleton remodeling and cell migration","description":"The cluster is dominated by GO terms related to actin cytoskeleton organization, lamellipodium and filopodium assembly, and positive regulation of fibroblast migration and cell spreading, which together point to actin-driven protrusion dynamics and adhesion underpinning cell movement. While there are outliers related to platelet secretion and neural differentiation, the central theme ties to actin-based cytoskeletal remodeling driving motility and protrusion formation in various cell types. High confidence.","confidence":"","size":23,"edges":3,"triangles":0,"max_degree":2,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0010763","count":10},{"id":"GO:1900026","count":10},{"id":"GO:0030032","count":10},{"id":"GO:0070560","count":9},{"id":"GO:0030036","count":9}]},{"hash":"60770008126154431","title":"Developmental and immune differentiation","description":"The proteins in this cluster show enrichment for terms related to development (neural tube closure), hematopoiesis and immune differentiation (hemopoiesis, NK T cell differentiation, interleukin-7 response), along with broader cellular processes (mitotic cell cycle, peptidyl-threonine phosphorylation) and stress responses (ER stress\u2013related apoptosis, cadmium response). This pattern suggests a theme centered on development and immune cell differentiation with ancillary signaling and stress-related roles, rather than a single cohesive pathway. The mix is plausible but heterogeneous, supporting a moderate level of confidence in this label.","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070059","count":8},{"id":"GO:2001275","count":8},{"id":"GO:0001843","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0098761","count":7}]},{"hash":"1539698484105606824","title":"Neuronal development and morphogenesis","description":"The cluster is dominated by terms for CNS neuron development and dendritic spine morphogenesis, with supporting signals and cytoskeletal localization (Wnt pathway regulation, microtubule localization, HGF/peptide hormone responses), suggesting a core theme of neural development and structural morphogenesis rather than a single immune or metabolic function.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032495","count":9},{"id":"GO:0060997","count":8},{"id":"GO:0090090","count":8},{"id":"GO:0035372","count":8},{"id":"GO:0035729","count":8}]},{"hash":"1956887950234638892","title":"Unknown","description":"The GO terms are highly diverse, including sperm development (axoneme assembly, individualization), broad developmental processes (somitogenesis, paraxial mesoderm, circulatory system development), sensory system development (rhabdomere), immune signaling (interferon-beta production), and metabolism (glycolipid metabolism). There is no single cohesive function linking these terms, so the cluster cannot be confidently labeled with a specific, representative function.","confidence":"","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007288","count":2},{"id":"GO:0032608","count":1},{"id":"GO:0050910","count":1},{"id":"GO:0007291","count":1},{"id":"GO:0006664","count":1}]},{"hash":"1560910065390371726","title":"Organ development and systemic regulation","description":"The GO terms point to development-related processes (cell differentiation, multicellular organism development, exocrine pancreas development) as core themes, while additional terms indicate regulatory roles in organism-wide functions (heart rate, blood pressure, renal excretion, glomerular filtration, circadian rhythms, cholinergic synaptic transmission). This suggests a cluster tied to organ development with broader regulatory control over physiological homeostasis, rather than a single specific pathway. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030154","count":2},{"id":"GO:0031017","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0032224","count":1},{"id":"GO:0010841","count":1}]},{"hash":"1908591697899723552","title":"Ubiquitin-Proteasome Regulation of Cell Cycle and Spindle","description":"The cluster combines GO terms tied to ubiquitin-dependent proteolysis (SCF-dependent ubiquitin-protein ligase activity, ubiquitin-dependent protein catabolic process, proteasomal degradation) with core cell cycle controls (negative regulation of cell proliferation, G1/S transition, mitotic processes) and spindle/microtubule dynamics (microtubule polymerization, spindle assembly in meiosis). This coherence suggests proteins that regulate cell cycle progression through targeted degradation and coordinate spindle assembly.","confidence":"High","size":23,"edges":14,"triangles":5,"max_degree":7,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0008285","count":10},{"id":"GO:0000083","count":9},{"id":"GO:0031146","count":8},{"id":"GO:0046785","count":8},{"id":"GO:0021993","count":8}]},{"hash":"36176900979736016","title":"Collagen Matrix Remodeling and Angiogenesis Regulation","description":"The cluster center is ECM-related: collagen fibril organization, integrin signaling, cell-matrix adhesion, and regulators of angiogenesis and cell migration; BMP responsiveness also appears, indicating signaling cross-talk with the matrix. This suggests a cohesive ECM remodeling and angiogenesis regulatory module.","confidence":"High","size":23,"edges":17,"triangles":12,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030199","count":15},{"id":"GO:0007229","count":15},{"id":"GO:0051965","count":15},{"id":"GO:2001027","count":15},{"id":"GO:0010763","count":14}]},{"hash":"1360033306548992294","title":"Embryonic development and tissue morphogenesis","description":"This cluster is dominated by GO terms for developmental processes across multiple tissues, including endocrine system development, cartilage morphogenesis, and left-right pattern formation, as well as morphogenetic events like hair follicle and roof-of-mouth development, placental-related differentiation, and mesoderm formation. The shared theme is embryogenesis and tissue morphogenesis, indicating these proteins likely participate in general developmental patterning rather than a single specific pathway.","confidence":"High","size":23,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":18},{"id":"GO:0060536","count":18},{"id":"GO:0003198","count":18},{"id":"GO:0060806","count":18},{"id":"GO:0060972","count":18}]},{"hash":"2063807938800314663","title":"Wnt-driven development and epigenetic regulation","description":"The top GO terms point to developmental signaling (Wnt pathway and lung development) and a cell-cycle transition (G1 to G0), suggesting roles in developmental processes and differentiation. The presence of histone modification regulation terms, though labeled obsolete, supports a theme of epigenetic control of gene expression during development. Together, they indicate a cluster of proteins involved in development with chromatin-based regulation.","confidence":"Medium","size":23,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":3},{"id":"GO:0070314","count":3},{"id":"GO:0030324","count":3},{"id":"GO:0090309","count":2},{"id":"GO:1901674","count":2}]},{"hash":"20103449998943068","title":"Unknown","description":"The GO terms span lipid metabolism (brown fat differentiation, cholesterol homeostasis, prostaglandin biosynthesis) and endocrine signaling (insulin secretion regulation) but also include sensory perception (sound, taste, smell), GI epithelium maintenance, RA signaling, and acrosome assembly. This diverse mix does not point to a single coherent function for the cluster, so a clear, representative label cannot be assigned.","confidence":"","size":23,"edges":6,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050873","count":4},{"id":"GO:0042632","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0050909","count":3},{"id":"GO:0030277","count":3}]},{"hash":"223344978111307574","title":"Proinflammatory cytokine production and pyroptosis","description":"This cluster is enriched for innate immune responses: upregulation of cytokines such as IL-1\u03b2, IL-5, and IL-13, a response to LPS, dendritic cell migration, and pyroptotic inflammatory signaling, along with regulatory effects on NF-kB and ERK pathways. These terms point to a cohesive theme of proinflammatory signaling and inflammatory cell death rather than a single housekeeping process. ","confidence":"High","size":23,"edges":103,"triangles":226,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032736","count":18},{"id":"GO:0006915","count":18},{"id":"GO:0070373","count":18},{"id":"GO:0070269","count":18},{"id":"GO:0050718","count":18}]},{"hash":"835351100894826545","title":"Embryonic development and organ morphogenesis","description":"These proteins are enriched for broad developmental processes across multiple tissues, including endocrine development, cartilage morphogenesis, heart cushion EMT, placenta development, left-right patterning, mesoderm formation, and palate development. The shared theme is vertebrate embryogenesis and tissue morphogenesis rather than a single pathway. This label succinctly captures the dominant functional signal of the cluster.","confidence":"High","size":23,"edges":2,"triangles":0,"max_degree":1,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0035270","count":23},{"id":"GO:0060536","count":23},{"id":"GO:0003198","count":23},{"id":"GO:0060806","count":23},{"id":"GO:0060972","count":23}]},{"hash":"1341507220042493377","title":"Mammary gland development and PI3K/AKT signaling","description":"This cluster shows strong enrichment for mammary gland epithelial proliferation, positive regulation of angiogenesis, cell-matrix adhesion, and PI3K/AKT signaling terms, plus hormonal response (FSH). Taken together, these terms point to a coordinated module governing mammary gland growth and vascularization through PI3K/AKT\u2013mediated signaling, with hormone stimuli contributing to the development context.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045766","count":22},{"id":"GO:0007160","count":22},{"id":"GO:0033598","count":22},{"id":"GO:0051897","count":22},{"id":"GO:0045071","count":22}]},{"hash":"1511736625349346937","title":"Cell adhesion in heart valve and neural development","description":"The Top GO terms cluster around cell-cell adhesion and junction assembly, with explicit links to cardiac morphogenesis (endocardial cushion formation, mitral valve formation) and neural junctions (paranodal/juxtaparanodal assembly, synapse-related terms, neuronal stem cell maintenance). This suggests a cohesive theme of adhesion molecules guiding tissue development in heart and nervous system, hence the label.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":7},{"id":"GO:0003273","count":7},{"id":"GO:0043931","count":6},{"id":"GO:0051965","count":6},{"id":"GO:0007156","count":6}]},{"hash":"18521383296232285","title":"Organ and nervous system development","description":"Top GO terms cluster around nervous system and multiorgan development (brain/forebrain, heart, skeletal muscle, inner ear, spleen) with an overarching multicellular organism development term, plus regulatory transcription control. This suggests a cohesive developmental program with a neural emphasis across multiple tissues.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0048839","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0007626","count":5},{"id":"GO:0048536","count":5}]},{"hash":"533746231349082419","title":"Embryonic morphogenesis and cell fate regulation","description":"This cluster is enriched for GO terms tied to morphogenesis and developmental processes across multiple tissues (palatal shelf and foregut morphogenesis, endocardial cushion formation, somitogenesis, auditory receptor cell fate), plus epithelial differentiation and related signaling. The mix of tissue-specific morphogenetic events and cell fate commitments, with supporting signaling like PI3K/AKT and hormone-responsive processes, points to a common theme of embryonic tissue morphogenesis and lineage specification.","confidence":"High","size":23,"edges":47,"triangles":29,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1990134","count":21},{"id":"GO:0071372","count":21},{"id":"GO:0051897","count":20},{"id":"GO:0003273","count":19},{"id":"GO:0007440","count":19}]},{"hash":"2166889539085500480","title":"Actin-driven cell migration and immune signaling","description":"The cluster is dominated by GO terms for actin cytoskeleton organization, lamellipodium/filopodium assembly, and cell migration, all tied to Rho and Ras signaling, with concurrent immune-related activities such as interleukin-4/IL-7 responses and NK T cell differentiation, suggesting a cohesive module of actin-dynamics in immune cell motility and signaling.","confidence":"High","size":23,"edges":216,"triangles":1159,"max_degree":22,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030036","count":22},{"id":"GO:0035023","count":22},{"id":"GO:0032287","count":21},{"id":"GO:0046580","count":21},{"id":"GO:0098761","count":21}]},{"hash":"2143076771325970357","title":"Peripheral nerve development and myelination","description":"The cluster is dominated by terms related to the peripheral nervous system: Schwann cell\u2013driven myelination, regulation of Schwann cell migration, motor neuron differentiation, and neuromuscular control, with supporting terms on glutamate reuptake. Additional terms about collagen biosynthesis and spleen development are less central but may reflect tissue context or annotation noise; overall, the set represents PNS development and function.","confidence":"High","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0048536","count":4},{"id":"GO:0042552","count":4},{"id":"GO:0002238","count":4},{"id":"GO:0032964","count":4},{"id":"GO:0051935","count":4}]},{"hash":"9541836223821798","title":"Cardiac electrophysiology and ion transport","description":"This cluster is dominated by GO terms about heart electrical activity and ion handling, such as regulation of resting membrane potential, atrial muscle action potential repolarization, heart rate regulation via cardiac conduction, and cardiac muscle AP involvement in contraction, along with potassium and magnesium ion transport. Together these strongly suggest a coherent theme of cardiac electrophysiology and ion transport. Some ancillary terms (TNF response, insulin secretion regulation, nervous system process) are present but do not diminish the central cardiac/ion theme.","confidence":"High","size":23,"edges":89,"triangles":129,"max_degree":13,"top_function":"nervous system process","top_go_terms":[{"id":"GO:0060075","count":22},{"id":"GO:0098914","count":22},{"id":"GO:0086091","count":19},{"id":"GO:0086002","count":19},{"id":"GO:1990573","count":19}]},{"hash":"1828241050575585407","title":"Neural development and signaling","description":"The terms cluster around neural development and neuronal signaling, including retina morphogenesis, paranodal junction assembly, and migration of olfactory bulb interneurons, plus neuropeptide signaling and core signaling cascades (ERK, calcium, serine phosphorylation). While a few terms touch on other processes, the dominant pattern is neural development and neuronal communication.","confidence":"Medium","size":23,"edges":13,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015739","count":3},{"id":"GO:0070374","count":2},{"id":"GO:0090280","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0007218","count":2}]},{"hash":"471361298340670878","title":"Embryonic Organogenesis","description":"The proteins cluster around embryonic development and tissue morphogenesis across many organs (palate, cartilage, heart cushions, placenta, pancreas), with left-right patterning and EMT involvement. Spliceosome-related splicing appears, but the core signal is developmental morphogenesis, suggesting roles in early organ formation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0000398","count":16},{"id":"GO:0035270","count":16},{"id":"GO:0060021","count":16},{"id":"GO:0060536","count":16},{"id":"GO:0003198","count":16}]},{"hash":"1806690044334870772","title":"Axon guidance, synapse assembly, and myelination","description":"The top GO terms cluster around neuronal development: positive regulation of synapse assembly; axonal fasciculation; axon extension in axon guidance; myelination; receptor tyrosine kinase signaling; these point to neural connectivity and maturation. Additional terms like collagen fibril organization and cell surface RTK signaling hint at ECM and signaling context in nervous system. While innate immune response and otolith morphogenesis are present, they seem secondary to the main neuronal development theme. Therefore this cluster seems best summarized as neural development and axon connectivity.","confidence":"High","size":23,"edges":14,"triangles":3,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014068","count":14},{"id":"GO:0051965","count":13},{"id":"GO:0007413","count":12},{"id":"GO:0048846","count":11},{"id":"GO:0045087","count":11}]},{"hash":"1232980351596180452","title":"Auditory perception and locomotion cluster","description":"This cluster is strongly enriched for GO terms tied to hearing (sensory perception of sound; detection of mechanical stimulus involved in sensory perception of sound) and movement (locomotory behavior; adult walking behavior; neuromuscular process controlling posture) as well as neuronal signaling (excitatory postsynaptic potential), suggesting a neural module coordinating sound perception with motor control. Additional terms like optic nerve morphogenesis and drug responses (ethanol, cocaine) reflect broader sensory-neural development and neuronal responsiveness, but the core theme remains auditory sensing coupled with locomotion. ","confidence":"High","size":23,"edges":172,"triangles":969,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":22},{"id":"GO:0007626","count":21},{"id":"GO:0007628","count":21},{"id":"GO:0050884","count":21},{"id":"GO:0060079","count":21}]},{"hash":"1742281852971624598","title":"Visual and Auditory Sensory Signaling","description":"This cluster shows enrichment for visual perception and detection of sound, plus stereocilium organization and mechanosensation, indicating sensory transduction in eye and ear; additional terms for calcium-dependent exocytosis and transporter activity suggest linked membrane trafficking and ion transport in sensory cells.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":3},{"id":"GO:0050715","count":2},{"id":"GO:0045806","count":2},{"id":"GO:0045956","count":2},{"id":"GO:0043123","count":2}]},{"hash":"232359049748069221","title":"Neural adhesion and synapse formation","description":"The cluster is dominated by terms tied to nervous system development, neuron\u2013neuron and neuron\u2013cell adhesion, and positive regulation of synapse assembly, suggesting proteins involved in neural connectivity and synapse formation. Some terms also point to broader development (angiogenesis, ossification), but the central theme centers on neural adhesion and synaptogenesis.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007399","count":8},{"id":"GO:0007156","count":8},{"id":"GO:0051965","count":8},{"id":"GO:0007158","count":8},{"id":"GO:0007157","count":7}]},{"hash":"2198993839059009472","title":"Cardiovascular development and BMP/SMAD signaling","description":"The top GO terms converge on embryonic heart and vascular morphogenesis, including dorsal aorta morphogenesis, endocardial cushion formation, collagen organization, and BMP/SMAD signaling. This suggests the proteins cluster around BMP-driven cardiovascular development during embryogenesis.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0051965","count":4},{"id":"GO:1905007","count":4},{"id":"GO:0035912","count":4},{"id":"GO:0060389","count":4}]},{"hash":"574633548954336465","title":"Cholinergic and Dopaminergic Signaling with Immune and Vascular Regulation","description":"Top terms show a core of neurotransmitter signaling (acetylcholine GPCR pathway, dopamine uptake regulation) and responses to chemical stimuli, alongside effects on vasoconstriction and inflammatory regulation. Although there are a couple of less directly related terms (ovarian follicle growth, IgA isotype switching), the dominant theme ties neural signaling to immune and vascular modulation, justifying a label that emphasizes cholinergic/dopaminergic signaling with immune and vascular regulation.","confidence":"Medium","size":23,"edges":63,"triangles":44,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":23},{"id":"GO:0007497","count":23},{"id":"GO:0050728","count":23},{"id":"GO:1901652","count":23},{"id":"GO:0051586","count":23}]},{"hash":"317930592075785387","title":"Melanosome trafficking and lysosome dynamics","description":"The dominated terms include endosome to melanosome transport, protein localization to lysosome, receptor internalization, and cell surface receptor signaling, all pointing to endocytic trafficking to lysosome-related organelles (melanosomes) and related signaling processes. The presence of visual perception suggests involvement of pigment/retina-related tissues, which fits melanosome biology. Together, these terms suggest a cohesive function in lysosome-related organelle transport and associated signaling.","confidence":"Medium","size":23,"edges":93,"triangles":208,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:2001046","count":12},{"id":"GO:0007601","count":8},{"id":"GO:0007166","count":7},{"id":"GO:0061462","count":7},{"id":"GO:0035646","count":7}]},{"hash":"1604356482644284597","title":"Neurotransmission and GPCR signaling","description":"The GO terms show strong emphasis on neural communication: dopamine uptake regulation, acetylcholine metabolic regulation, GPCR signaling pathways, and responses to peptides and amphetamine, all pointing to neurotransmission and neuroendocrine signaling. Electron transport chain terms align with the energetic needs of neurons. Some developmental terms (midgut, ovarian follicle growth) may reflect pleiotropy or broader roles, but the dominant theme is neural signaling and its regulation.","confidence":"Medium","size":23,"edges":194,"triangles":835,"max_degree":22,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":23},{"id":"GO:0010579","count":23},{"id":"GO:0045777","count":23},{"id":"GO:0001975","count":22},{"id":"GO:0007497","count":22}]},{"hash":"1904873450151898206","title":"Embryonic Neurodevelopment and Organogenesis","description":"The top GO terms emphasize neural development (positive regulation of synapse assembly; transmission of nerve impulse) alongside a range of embryonic organogenesis processes (endocardial cushion EMT for heart development, cartilage morphogenesis, placenta development, endocrine system development, left-right patterning). This suggests a cluster of proteins involved in early development with a strong emphasis on nervous system formation, plus broader embryonic tissue differentiation, justifying the label Embryonic Neurodevelopment and Organogenesis.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0019226","count":3},{"id":"GO:0035162","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0035270","count":2}]},{"hash":"1300353028514178772","title":"Embryogenesis and ECM-adhesion remodeling","description":"This cluster centers on developmental processes (in utero embryonic development, endodermal differentiation) alongside cell adhesion and extracellular matrix remodeling signals (integrin-mediated signaling, metallopeptidase activity, cellular extravasation). Ubiquitin-dependent protein catabolic processes suggest proteostasis during development, and acute-phase/inflammatory cues may accompany tissue remodeling. The combination supports a theme of embryogenesis coupled with ECM/adhesion dynamics.","confidence":"Medium","size":22,"edges":111,"triangles":236,"max_degree":17,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001701","count":5},{"id":"GO:0006511","count":5},{"id":"GO:1905050","count":5},{"id":"GO:0045123","count":5},{"id":"GO:0050908","count":5}]},{"hash":"544560842301912639","title":"Innate Antiviral Response Signaling","description":"This cluster is dominated by GO terms tied to antiviral defense and innate immune sensing, including defense response to virus, RIG-I signaling, innate immune response, and NF-kappaB\u2013related regulation. The presence of viral entry/ release and DUBs of NF-kappaB points to coordinated antiviral signaling rather than normal metabolism, suggesting these proteins work together in sensing and mounting innate antiviral responses.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0043569","count":3},{"id":"GO:1900246","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0032897","count":3},{"id":"GO:0046598","count":3}]},{"hash":"1121016458085648841","title":"Circadian Regulation and Proteostasis","description":"The cluster shows strong enrichment for circadian-related GO terms (regulation of circadian rhythm; circadian sleep/wake cycle) and ubiquitin-dependent protein catabolic process, suggesting a core theme around circadian control and protein turnover. Additional terms like wybutosine biosynthetic process and protein homooligomerization hint at translation-related modification and complex assembly, while brassinosteroid signaling and distal tubule morphogenesis appear as broader annotation connections. Overall, the dominant circadian and proteolysis signals support labeling this cluster as circadian regulation and proteostasis.","confidence":"Medium","size":22,"edges":22,"triangles":10,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042752","count":14},{"id":"GO:0042787","count":14},{"id":"GO:0051260","count":9},{"id":"GO:0009742","count":9},{"id":"GO:0072156","count":9}]},{"hash":"1406381742473774953","title":"Telomere maintenance and telomerase regulation","description":"The top GO terms are dominated by telomere biology, including telomere maintenance via telomerase, telomere assembly, and telomeric D-loop disassembly, as well as protein localization to telomeres. Several terms reference regulation of telomerase activity, supporting a cohesive theme around telomere maintenance pathways. A few non-telomere terms appear but are sparse and do not define the cluster\u2019s core function.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001246","count":2},{"id":"GO:0046626","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0007004","count":2},{"id":"GO:0070200","count":2}]},{"hash":"1220437825956454348","title":"Immune-ECM remodeling in development and pregnancy","description":"This cluster centers on extracellular matrix organization (collagen fibrils) alongside innate immunity and complement activation, inflammatory regulation, and clearance of apoptotic cells, with EMT and pregnancy-related processes. The combination suggests coordinated remodeling of tissue architecture with immune activity in developmental and reproductive contexts, potentially affecting vascular regulation.","confidence":"Medium","size":22,"edges":43,"triangles":9,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":11},{"id":"GO:0045087","count":11},{"id":"GO:0006958","count":11},{"id":"GO:0035813","count":10},{"id":"GO:0003050","count":10}]},{"hash":"1131404719934493108","title":"Leukocyte activation and cytokine signaling","description":"The cluster shows strong representation of immune-related processes: T cell receptor signaling, IL-2 production, monocyte differentiation, and responses to GM-CSF and LPS, plus TGF-beta\u2013stimulated cellular responses. These indicate coordinated leukocyte activation and cytokine signaling. Transcriptional activity (DNA-templated transcription) and calcium signaling within these pathways suggest downstream gene regulation and signaling cascades accompanying immune activation. Confidence in this thematic label is high.","confidence":"High","size":22,"edges":112,"triangles":236,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071560","count":15},{"id":"GO:0050852","count":11},{"id":"GO:0097011","count":11},{"id":"GO:0071222","count":11},{"id":"GO:0006351","count":11}]},{"hash":"885757175033716443","title":"Developmental signaling and cytoskeletal dynamics","description":"This cluster combines developmental signaling terms (Wnt pathway, ascospore formation, nerve development) with cytoskeletal and muscle-related processes (actin cytoskeleton reorganization, smooth muscle chemotaxis, regulation of skeletal muscle contraction), plus a SMAD phosphorylation reference, suggesting proteins that coordinate signaling with cytoskeletal remodeling during development and tissue movement. Some terms are obsolete, but the overarching theme appears to be signaling intertwined with cytoskeletal dynamics in development.","confidence":"Medium","size":22,"edges":13,"triangles":1,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030437","count":7},{"id":"GO:0016055","count":7},{"id":"GO:0000743","count":7},{"id":"GO:0021563","count":6},{"id":"GO:0001951","count":6}]},{"hash":"1453294865174993642","title":"ECM adhesion and migration","description":"These proteins show strong enrichment for extracellular matrix interactions and adhesion: hyaluronan metabolism, integrin-mediated signaling, calcium-independent cell\u2013matrix and heterotypic cell\u2013cell adhesion, and remodeling via metallopeptidases, with associated migration and extravasation and links to coagulation. One visual perception term appears incidental. ","confidence":"High","size":22,"edges":227,"triangles":1466,"max_degree":21,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0030212","count":10},{"id":"GO:0006471","count":10},{"id":"GO:0050908","count":9},{"id":"GO:0007229","count":8},{"id":"GO:0006929","count":8}]},{"hash":"1122285344593250649","title":"Neural development and MAPK signaling","description":"The top terms converge on nervous system and hippocampus development, axonogenesis, and positive regulation of JNK/ERK cascades, pointing to neural differentiation and MAPK-driven signaling. Actin cytoskeleton reorganization and protein stability regulation fit neuronal growth and proteostasis, while mitotic cell cycle may reflect progenitor proliferation. Overall, this cluster appears to be about neural development coupled with MAPK pathway regulation.","confidence":"High","size":22,"edges":92,"triangles":291,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":20},{"id":"GO:0046330","count":19},{"id":"GO:0050771","count":19},{"id":"GO:0000278","count":19},{"id":"GO:0070374","count":19}]},{"hash":"1452934729690014570","title":"Amino acid transport across membranes","description":"The top GO terms predominantly describe import and transmembrane transport of amino acids and related compounds (arginine, leucine, lysine, D-alanine, GABA, carnitine, ammonium). A secondary theme is transepithelial transport and regulation of such transport. Together, these terms indicate a cluster of proteins functioning mainly in amino acid transport across membranes.","confidence":"High","size":22,"edges":15,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1902274","count":10},{"id":"GO:0006527","count":10},{"id":"GO:0097638","count":10},{"id":"GO:0002537","count":10},{"id":"GO:0015812","count":10}]},{"hash":"154118752336632791","title":"Hepatic energy metabolism and amino acid/lipid catabolism","description":"This cluster shows broad metabolic pathways tied to liver function, including fatty acid beta-oxidation, glycogen biosynthesis, steroid biosynthesis, and amino acid catabolism (leucine/valine). The presence of liver development and energy-stress responses (response to cold, starvation) suggests a liver-centered module for energy production and storage. The mix of lipid, carbohydrate, and amino acid metabolism supports a cohesive hepatic energy metabolism theme.","confidence":"High","size":22,"edges":138,"triangles":507,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":14},{"id":"GO:0009409","count":11},{"id":"GO:0006552","count":11},{"id":"GO:0006574","count":11},{"id":"GO:0001889","count":9}]},{"hash":"491254490315738355","title":"Integrin signaling and actin cytoskeleton remodeling","description":"Top GO terms point to actin cytoskeleton dynamics (stress fiber assembly, cortical actin organization, cytoskeleton reorganization) and integrin\u2011mediated signaling with cell adhesion regulation. Additional terms reference chemotaxis, signal complex assembly, growth hormone receptor signaling, and regulation of proliferation, all of which can be connected through coordinated cytoskeletal remodeling in response to adhesion and signaling cues. These collectively suggest a cohesive module centered on actin remodeling driven by integrin signaling and cell adhesion, relevant to movement and growth control.","confidence":"High","size":22,"edges":30,"triangles":0,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006935","count":4},{"id":"GO:0051492","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0007229","count":3},{"id":"GO:0030500","count":3}]},{"hash":"44918220761944943","title":"Embryonic organogenesis and neural differentiation","description":"The terms point to broad developmental processes across multiple organs (roof of mouth, pancreas, bronchiole, cochlea, digits) and neural lineage specification (spinal cord neuron/fate, motor neuron fate, GABAergic interneuron differentiation). The common thread is embryonic tissue morphogenesis and cell fate decisions, with transcription by RNA polymerase II reflecting general gene expression during development. This cluster does not map to a single pathway but to overarching developmental and neural differentiation themes.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":4},{"id":"GO:0021530","count":4},{"id":"GO:0031018","count":4},{"id":"GO:0060435","count":4},{"id":"GO:0060163","count":4}]},{"hash":"821674347152907944","title":"Prokaryotic translation and RNA processing","description":"The top GO terms are dominated by translation (including mitochondrial translation), rRNA processing, and tRNA methylation, with associated translation termination and RNA polymerase II\u2013related transcription regulation. This points to a cohesive theme centered on protein synthesis and RNA metabolism, i.e., the cellular machinery for gene expression in prokaryotes. Some terms (e.g., MAPK activation, multicellular development) are less related and appear sparsely, but do not override the core signal.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0034605","count":2},{"id":"GO:0000187","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0007275","count":2}]},{"hash":"2157743984850256923","title":"TLR/NF-kB inflammatory signaling","description":"This cluster is enriched for GO terms tied to innate immune pathways and NF-kB signaling (MyD88-dependent TLR signaling, TNF signaling, inflammatory response, and LPS-mediated signaling), with some terms hinting at mechanotransduction or tissue context, but the dominant pattern is NF-kB\u2013driven inflammatory responses.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0038061","count":4},{"id":"GO:0032088","count":4},{"id":"GO:0071169","count":3},{"id":"GO:0031663","count":3}]},{"hash":"904972358465392767","title":"Rho GTPase signaling and cell motility","description":"This cluster is dominated by GO terms related to intracellular signaling and cytoskeletal dynamics, especially regulation of Rho protein signal transduction, positive regulation of GTPase activity, intracellular signal transduction, chemotaxis, and cell migration. While there are a few terms tied to transcription and differentiation, the strongest and most frequent themes point to signaling pathways that govern cytoskeletal rearrangements and cell movement, consistent with a Rho GTPase\u2013driven motility program and related proteostasis. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0045668","count":4},{"id":"GO:0035372","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0043547","count":4}]},{"hash":"148909785646673493","title":"Multitissue Developmental Signaling Regulation","description":"The proteins here show enrichment for a broad set of developmental and signaling-related processes across tissues, including angiogenesis and blood coagulation (vascular), synapse assembly and dendritic spine morphogenesis (neural), brown fat differentiation (adipose), inner ear development (sensory), ERK/MAPK cascade regulation, and oxidative stress detection. This pattern suggests a theme of coordinating developmental signals and signaling pathways across multiple tissues rather than a single, tissue-specific function. ","confidence":"Medium","size":22,"edges":43,"triangles":14,"max_degree":11,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0090051","count":17},{"id":"GO:0007596","count":17},{"id":"GO:0051965","count":17},{"id":"GO:0050873","count":17},{"id":"GO:0061003","count":16}]},{"hash":"513853161998095618","title":"Unknown","description":"The GO terms span vastly different biosynthetic and catabolic processes (xylan, lipid, menaquinone, biotin, chlorophyll, hyaluronan, antibiotic biosynthesis) plus a developmental term and glycosylation, with no clear organism-specific or shared functional theme. This suggests the cluster does not reflect a coherent, single biological module, but rather a mix of unrelated annotations or broad metabolic roles. ","confidence":"","size":22,"edges":50,"triangles":23,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0045493","count":3},{"id":"GO:0016042","count":3},{"id":"GO:0009234","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0015996","count":2}]},{"hash":"1161645871793792434","title":"mRNA processing and translation initiation regulation","description":"Proteins in this cluster cluster around post-transcriptional control: splicing (spliceosome), polyadenylation, mRNA stability, and alternative splicing, plus components involved in assembling the translation preinitiation complex and ncRNA-mediated silencing. This pattern suggests a cohesive role in coordinating mRNA maturation, stability, and initiation of translation, i.e., post-transcriptional gene regulation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":9},{"id":"GO:0048026","count":8},{"id":"GO:0006378","count":7},{"id":"GO:0045292","count":7},{"id":"GO:0048255","count":7}]},{"hash":"56776615603966375","title":"Developmental differentiation and endocrine signaling","description":"These proteins are linked to embryonic development across several tissues (neural tube closure, hair follicle and gonad development, chondrocyte differentiation) and involve key signaling pathways (BMP, ERK) as well as hormonal responses (FSH stimulus) and xenobiotic response. The common theme is developmental differentiation coordinated by signaling and hormonal cues, suggesting a role in developmental regulation and endocrine signaling.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0001843","count":16},{"id":"GO:0030308","count":16},{"id":"GO:0001942","count":16},{"id":"GO:0008584","count":16},{"id":"GO:0046676","count":15}]},{"hash":"2261361086723956152","title":"Amino acid and sugar catabolism with redox homeostasis","description":"This cluster is enriched for amino acid catabolism (leucine) and sugar/carbohydrate catabolic processes (fucose, arabinose, glucuronate), plus glycerol-3-phosphate biosynthesis and glutathione-related redox pathways, pointing to a metabolic module focused on breakdown of substrates and maintenance of redox balance. The centrosome localization term is less central to the core theme.","confidence":"High","size":22,"edges":23,"triangles":5,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006552","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0051642","count":3},{"id":"GO:0006749","count":2},{"id":"GO:0045454","count":2}]},{"hash":"677927790626764449","title":"Unknown","description":"Top terms span gastric acid secretion, photoperiodism, smooth muscle contraction regulation, cardiac muscle cell apoptotic process, defense response to virus, brown fat cell differentiation, cellular response to hypoxia, retina development in camera-type eye, sensory perception of taste, and skin development. This wide dispersion across tissues and processes indicates no single shared function or pathway tying the cluster together, so a precise functional label cannot be assigned. ","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001696","count":3},{"id":"GO:0009648","count":3},{"id":"GO:0045987","count":3},{"id":"GO:0010659","count":2},{"id":"GO:0051607","count":2}]},{"hash":"1910304907235555121","title":"Unknown","description":"The GO terms are highly diverse, spanning nuclear processes (DNA repair, CENP-A chromatin assembly, snoRNP assembly), cell division, vesicle transport, protein oligomerization, apoptosis, photosynthesis, and even virus-related pore formation, with no single cohesive function evident.","confidence":"","size":22,"edges":146,"triangles":480,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0039707","count":4},{"id":"GO:0006281","count":3},{"id":"GO:0051402","count":3}]},{"hash":"1708859129674890530","title":"Embryogenesis and organ morphogenesis","description":"The top GO terms cluster around embryonic development and tissue/organ formation (endocrine system development, cartilage morphogenesis, EMT in endocardial cushion formation, mesoderm development, left-right patterning, placental-related differentiation, roof of the mouth development, etc.), indicating a coherent theme of embryogenesis and organogenesis for this protein cluster. A ribosomal subunit export term appears incidental to the main developmental signal. This supports a label focused on developmental processes rather than a single cellular function.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":15},{"id":"GO:0060536","count":15},{"id":"GO:0003198","count":15},{"id":"GO:0060806","count":15},{"id":"GO:0060972","count":15}]},{"hash":"1527732026948602953","title":"Rab-Driven Neuronal Development","description":"This cluster is dominated by Rab protein signal transduction and several neuron-related terms (axonogenesis, dendritic spine development, neuron maturation, apical localization), indicating Rab GTPase\u2013mediated trafficking and signaling that shape neurite outgrowth and synapse formation. Other terms (phagophore localization, NF-kB regulation, T cell activation) are present but less central, suggesting auxiliary or cross-talk processes rather than core functions. Confidence: High","confidence":"","size":22,"edges":174,"triangles":768,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032482","count":22},{"id":"GO:0050771","count":22},{"id":"GO:0045176","count":21},{"id":"GO:0071260","count":21},{"id":"GO:0060999","count":21}]},{"hash":"390616707039428559","title":"Auditory synaptic development and plasticity","description":"The top GO terms point to cochlea morphogenesis and sensory perception of sound, coupled with actin cytoskeleton organization, Rho signaling, and GTPase activation, which drive dendritic spine morphogenesis and long-term synaptic depression. The retrograde nitric oxide signaling term also fits a synaptic communication role in the auditory system. Together, these indicate proteins involved in development and plastic remodeling of auditory synapses, including cochlear structures and their cytoskeletal dynamics.","confidence":"High","size":22,"edges":99,"triangles":200,"max_degree":18,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0090630","count":18},{"id":"GO:0030036","count":18},{"id":"GO:0006470","count":18},{"id":"GO:0035023","count":18},{"id":"GO:0007605","count":18}]},{"hash":"906915115387936508","title":"Ubiquitin-Proteasome\u2013Mediated Degradation","description":"The terms cluster around ubiquitin-dependent protein degradation (autoubiquitination, K48-linked ubiquitination, ERAD) and general protein turnover, plus receptor downregulation and peroxisomal import that involve ubiquitin cycles; other terms reflect broader ubiquitin-regulated regulatory pathways, supporting a cohesive theme.","confidence":"High","size":22,"edges":93,"triangles":148,"max_degree":16,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":13},{"id":"GO:0030433","count":12},{"id":"GO:0042787","count":12},{"id":"GO:0046621","count":11},{"id":"GO:0038018","count":11}]},{"hash":"1799612418035909129","title":"Cellular Stress Response and Apoptosis","description":"This cluster centers on GO terms for apoptosis and broad stress responses (peptide hormone and xenobiotic stimuli, cAMP signaling), alongside DNA metabolism and RNA regulation terms (recombination, catabolic processes, mRNA stability). Together these suggest proteins that coordinate stress signaling with nucleic acid processing and programmed cell death, with a possible tissue-specific angle reflected by corneocyte development. Confidence in this thematic label is Medium.","confidence":"Medium","size":22,"edges":123,"triangles":342,"max_degree":19,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006915","count":11},{"id":"GO:0071375","count":11},{"id":"GO:0006310","count":11},{"id":"GO:0006308","count":11},{"id":"GO:0090502","count":11}]},{"hash":"621600407583223078","title":"Innate Immune Signaling and NF-kappaB Regulation","description":"The GO terms cluster around innate immunity and inflammatory signaling: innate immune response; LPS signaling; NOD2 pathway; IL-1\u03b2 production; defense against virus; and regulation of NF-kappaB activity. Together these suggest a group of proteins involved in sensing pathogens and modulating NF-kappaB-driven inflammatory responses.","confidence":"High","size":22,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0032715","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0031663","count":2},{"id":"GO:0032611","count":2}]},{"hash":"441692374773777017","title":"Retroviral Entry, Integration, and Latency","description":"GO terms point to retroviral life-cycle steps such as viral penetration into the host nucleus, DNA integration, proviral latency, and RNA-templated DNA synthesis (reverse transcription). Additional terms reflect virus\u2013host interactions and genome maintenance during infection, including symbiont entry and regulation of RNA interference, plus general trafficking signals like microtubule-based movement. Overall, the strongest theme is retroviral entry, integration, and latency within host cells.","confidence":"Medium","size":22,"edges":33,"triangles":6,"max_degree":8,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007018","count":3},{"id":"GO:0021510","count":3},{"id":"GO:0031297","count":2},{"id":"GO:1903704","count":2},{"id":"GO:0046718","count":2}]},{"hash":"1981209004270882790","title":"Innate Immune Activation and Cytokine Production","description":"The top GO terms cluster around innate immunity and inflammatory signaling, including innate immune response, macrophage activation, NOD1 signaling, and positive regulation of cytokines such as IL-6, IL-8, and IFN-beta. While a few terms (brassinosteroid detection, axon guidance) are less related to immunity and may reflect annotation noise or pleiotropy, the prevailing signal points to immune activation and cytokine production as the cluster\u2019s core function.  ","confidence":"High","size":22,"edges":220,"triangles":1342,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0009729","count":21},{"id":"GO:0042116","count":21},{"id":"GO:0051770","count":21},{"id":"GO:0071260","count":21},{"id":"GO:0070430","count":21}]},{"hash":"2031248985452406190","title":"RNA Pol II/III transcription regulation","description":"The cluster is dominated by GO terms related to initiation and elongation by RNA polymerase II, plus transcription by RNA polymerase III (including tRNA transcription), and includes related aspects like transcriptional fidelity, RNA-templated transcription, and mRNA export regulation. This points to a cohesive function in regulating transcription across Pol II and Pol III. ","confidence":"High","size":22,"edges":27,"triangles":50,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0032968","count":13},{"id":"GO:0006367","count":13},{"id":"GO:0006386","count":11},{"id":"GO:0006379","count":11},{"id":"GO:0006368","count":11}]},{"hash":"1095750657904937013","title":"Ubiquitin-Dependent Proteolysis","description":"The top GO terms are dominated by ubiquitin-related processes (ubiquitin-dependent protein catabolic process, regulation of ubiquitination, and specific ubiquitin linkages), indicating the cluster centers on ubiquitin-proteasome\u2013mediated protein turnover. While there are tissue-specific development and signaling terms (muscle, kidney, B cell), these likely reflect broader roles of ubiquitination across biological contexts rather than a single tissue-specific function. Thus, a concise label focusing on ubiquitin-dependent proteolysis is appropriate.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0072156","count":2},{"id":"GO:0002467","count":2},{"id":"GO:2000312","count":2},{"id":"GO:0031397","count":2}]},{"hash":"931378412813717832","title":"Mitochondrial Apoptosis Regulation","description":"The top GO terms are dominated by apoptotic processes, especially regulation of mitochondrial membrane permeability involved in apoptosis and cytochrome c-heme linkage, suggesting a coherent theme around mitochondrial-mediated apoptosis signaling. A few other terms (developmental or structural) appear but are likely incidental annotations. Overall, the dominant pattern points to apoptosis regulation via mitochondrial pathways, with some noise from unrelated terms.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0018063","count":2},{"id":"GO:0007605","count":1},{"id":"GO:0030239","count":1},{"id":"GO:0007427","count":1}]},{"hash":"1816236040137858909","title":"Embryonic development and vascular ECM remodeling","description":"This cluster centers on embryonic development terms (in utero embryonic development, lung development, aorta development), angiogenesis, and extracellular matrix organization (collagen fibril organization, cell adhesion), indicating a theme of tissue morphogenesis and vascular remodeling during development. Complement activation terms appear as ancillary immune context rather than the core function. Therefore the label reflects the main function of the cluster.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001970","count":6},{"id":"GO:0006958","count":6},{"id":"GO:0006957","count":5},{"id":"GO:0045766","count":5},{"id":"GO:0001701","count":5}]},{"hash":"478649006284972663","title":"Embryogenesis and Organogenesis","description":"The set of terms points to broad embryonic development processes, including endocrine system development, cartilage morphogenesis, EMT in heart development, placenta/gestational tissue differentiation, left-right patterning, and organ-specific lineage formation (pancreas, trophoblast). This cohesive theme across multiple tissues and morphogenetic events supports labeling the cluster as embryogenesis and organogenesis rather than a single tissue or pathway. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0060972","count":4}]},{"hash":"1191597912166347183","title":"Embryonic Development and Organogenesis","description":"The top GO terms are dominated by developmental processes spanning endocrine system development, heart/valve formation via EMT, left-right patterning, placenta development, cartilage morphogenesis, pancreatic beta-cell development, and trophoblast differentiation, suggesting a cohesive cluster of genes involved in embryogenesis and tissue morphogenesis. Some terms refer to broad RNA processing, which may reflect general cellular roles, but the recurring developmental themes indicate a functionally related group in embryonic organ development.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0035270","count":19},{"id":"GO:0003198","count":19},{"id":"GO:0060972","count":19},{"id":"GO:0060806","count":19},{"id":"GO:0060536","count":19}]},{"hash":"448414782507010539","title":"Plant photoreception and circadian shade-avoidance","description":"The cluster is dominated by GO terms related to light sensing and circadian biology in plants (UV-A/blue light phototransduction, locomotor rhythm, regulation of circadian sleep/wake cycle, positive regulation of shade avoidance, leaf morphogenesis, and strigolactone signaling). This points to a cohesive module governing how plants perceive light and time growth patterns. Some terms (glucagon, magnetism) appear as outliers, likely annotation noise, but do not override the central plant light-regulation theme.","confidence":"High","size":22,"edges":20,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1902347","count":3},{"id":"GO:2000850","count":3},{"id":"GO:0042332","count":3},{"id":"GO:0009588","count":3},{"id":"GO:0045475","count":3}]},{"hash":"2141920839482213864","title":"Embryonic Development and Organ Morphogenesis","description":"Based on the top GO terms, the proteins cluster around developmental processes such as endocrine system development, cartilage morphogenesis, EMT in endocardial cushion formation, left-right pattern formation, placenta and pancreatic cell development, and trophoblast differentiation. While a few terms indicate general cellular processes (e.g., ribosomal export, transcription regulation), the dominant theme is embryonic tissue formation and organ morphogenesis, suggesting these proteins function together in developmental differentiation and patterning.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0060972","count":3}]},{"hash":"530093528902275500","title":"Neuronal adhesion and synapse formation","description":"The top terms are dominated by cell-cell adhesion (homophilic and heterophilic), nervous system development, and positive regulation of synapse assembly, indicating proteins involved in neural connectivity and synapse formation. Immune and ossification-related terms are present but less central, suggesting the primary theme is neural adhesion and synaptic organization.","confidence":"Medium","size":22,"edges":8,"triangles":4,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":17},{"id":"GO:0007157","count":17},{"id":"GO:0007399","count":17},{"id":"GO:0051965","count":15},{"id":"GO:0043931","count":14}]},{"hash":"2274390667142346472","title":"Neural sensory learning and behavior","description":"This cluster centers on neural processes underlying sensory perception (taste and olfaction) and learning, including conditioned taste aversion, olfactory learning, and long-term synaptic changes, plus related behaviors (suckling, locomotion) and neuronal excitability (sodium transport) with cerebellar development cues.","confidence":"Medium","size":22,"edges":142,"triangles":445,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0001975","count":19},{"id":"GO:0060292","count":19},{"id":"GO:0001661","count":19},{"id":"GO:0001967","count":19},{"id":"GO:0043056","count":19}]},{"hash":"1286983681699153687","title":"RNA Processing and Antiviral Defense","description":"It centers on RNA metabolism and translation control in the context of antiviral response, including mRNA processing and translation initiation in viral contexts, stress granule localization, and innate immune signaling, suggesting a module linking RNA processing with antiviral defense.","confidence":"Medium","size":22,"edges":13,"triangles":2,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006397","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0006378","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0031047","count":3}]},{"hash":"926583002936338747","title":"Heart morphogenesis and organismal growth","description":"This cluster shows strong enrichment for heart morphogenesis and multicellular organism growth, pointing to cardiovascular development and general growth processes. While additional terms cover cellular signaling (GTPase activity), gene expression (mRNA processing), and other proliferation-related processes (spindle assembly, telomere maintenance), the dominant theme is developmental biology with a focus on heart development and growth.","confidence":"Medium","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0035264","count":3},{"id":"GO:0003007","count":3},{"id":"GO:0033280","count":3},{"id":"GO:1904743","count":3}]},{"hash":"1921483029423630446","title":"Macrophage Innate Immune Signaling","description":"These proteins cluster around innate immune responses in macrophages, with strong enrichment for regulation of type I interferon production, NF-\u03baB and ERK signaling, and macrophage activation. Additional terms include regulation of cytokines like IL-18 and MIP-1 alpha, vitamin D response, nitric-oxide synthase biosynthesis, and plasma membrane repair, all consistent with macrophage-driven immune signaling and homeostasis. The cohesive theme is macrophage-centered innate immunity and its regulatory signaling programs.","confidence":"High","size":22,"edges":208,"triangles":1293,"max_degree":20,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032479","count":22},{"id":"GO:0070373","count":22},{"id":"GO:0042116","count":22},{"id":"GO:0051770","count":22},{"id":"GO:0033280","count":22}]},{"hash":"1786766726614267139","title":"Ion Transport and Sensory Perception Signaling","description":"The top GO terms show strong emphasis on membrane ion transport (potassium and sodium), membrane potential changes (hyperpolarization and repolarization), and sensory detection (touch and thermoception). Additional terms point to signaling pathways (cGMP) and immune signaling (chemokine production), suggesting a cluster of proteins that link membrane excitability with mechanosensory and thermo-sensory signaling, possibly modulating downstream immune responses. Overall, the theme centers on ion-channel\u2013driven membrane excitability tied to sensory transduction.","confidence":"High","size":22,"edges":57,"triangles":33,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071805","count":14},{"id":"GO:0060081","count":14},{"id":"GO:0050976","count":12},{"id":"GO:0098914","count":12},{"id":"GO:2000340","count":11}]},{"hash":"331371414294621021","title":"Cytoskeletal dynamics and morphogenesis","description":"The top GO terms cluster around cytoskeletal regulation and remodeling (microtubule polymerization, centrosome separation, actin cytoskeleton reorganization, Rho signaling) and mold cell shape and growth (dendritic spine morphogenesis, bud site selection, signaling for filamentous growth). Additional terms tied to movement and trafficking (locomotion, transcytosis) reflect functions that depend on cytoskeletal dynamics. Taken together, these proteins are best described by a shared role in cytoskeletal remodeling and morphogenesis across cell types. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031987","count":5},{"id":"GO:0051299","count":5},{"id":"GO:0046785","count":5},{"id":"GO:0007266","count":4},{"id":"GO:0031532","count":4}]},{"hash":"1838016267060888797","title":"Diverse Transmembrane Transporters","description":"The GO terms are centered on transmembrane transport of diverse substrates including nitrates, nitrites, salts, sugars, vitamins, and related assimilation steps, suggesting a cohesive cluster of membrane transporter proteins with broad substrate specificity.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":5},{"id":"GO:0035725","count":4},{"id":"GO:0015757","count":4},{"id":"GO:0042128","count":4},{"id":"GO:1900754","count":4}]},{"hash":"1777705826397541403","title":"Vascular Coagulation and ECM Remodeling","description":"Interpretation: The cluster's top GO terms converge on vascular and extracellular matrix processes: positive regulation of vasoconstriction, angiogenesis, collagen fibril organization, platelet activation, blood coagulation, and fibrinolysis, along with plasminogen activation. The presence of these terms across multiple proteins suggests a cohesive function in clot formation/dissolution and ECM remodeling that supports vascular integrity and growth. A few neural terms (synapse assembly/transmission) may reflect multi-functional proteins or annotation overlap, but the dominant signal is vascular/coagulation biology.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045907","count":6},{"id":"GO:0030199","count":6},{"id":"GO:0045766","count":6},{"id":"GO:0051965","count":6},{"id":"GO:0001867","count":6}]},{"hash":"461298706076058315","title":"RNA processing and translation initiation","description":"The top GO terms cluster around RNA maturation and processing (splicing, spliceosome regulation, mRNA export, polyadenylation) and the formation of the translation preinitiation complex, indicating these proteins are primarily involved in RNA processing and the early steps of translation. A single immune-related term (complement activation) appears but does not dominate, suggesting annotation noise or multifunctionality rather than a cohesive immune-focused group. Therefore, the label centered on RNA processing and translation initiation is representative, with Medium confidence.","confidence":"","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006958","count":4},{"id":"GO:0008380","count":3},{"id":"GO:0001731","count":3},{"id":"GO:1905663","count":3},{"id":"GO:1900363","count":3}]},{"hash":"1284651029792784058","title":"Developmental angiogenesis and tissue remodeling","description":"This cluster is enriched for positive regulation of angiogenesis and PI3K/AKT signaling, combined with cell-matrix adhesion, receptor clustering, cartilage condensation, embryo implantation, and multicellular development. These terms together suggest involvement in developmental programs that shape tissues and vessels, rather than a single pathway, making angiogenesis-and-remodeling a fitting high-level label.","confidence":"High","size":22,"edges":157,"triangles":576,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045766","count":12},{"id":"GO:0014068","count":11},{"id":"GO:0007160","count":10},{"id":"GO:0051897","count":10},{"id":"GO:0001502","count":10}]},{"hash":"837494665559527565","title":"Cardiac Electrophysiology and Ion Homeostasis","description":"Top GO terms point to cardiac electrical activity and ion handling: membrane repolarization and action potential in atrial/cardiac muscle, regulation of heart rate by conduction, and import/homeostasis of K+, Ca2+, and Mg2+. Although a couple terms (touch detection, CO response) are less related, the dominant signal describes heart-specific electrophysiology and ionic balance, which best labels this cluster.","confidence":"High","size":22,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0098914","count":7},{"id":"GO:0086091","count":6},{"id":"GO:0086002","count":6},{"id":"GO:1990573","count":6},{"id":"GO:0050976","count":6}]},{"hash":"127808748690939339","title":"Skeletal ECM Organization and Cell Adhesion","description":"The cluster centers on extracellular matrix interactions, with strong signals for collagen fibril organization, cell-matrix adhesion, and various cell-cell adhesion processes, plus developmental terms tied to skeletal tissues (bone trabecula formation, skeletal system development, roof of mouth development). This points to coordinated ECM remodeling and adhesion guiding connective tissue and skeletal patterning, despite one obsolete polarity term present. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030199","count":9},{"id":"GO:0007160","count":7},{"id":"GO:0043113","count":6},{"id":"GO:1904938","count":6},{"id":"GO:0007213","count":6}]},{"hash":"1477305414162094954","title":"Mitochondrial protein import and respiratory chain assembly","description":"The cluster\u2019s top GO terms center on mitochondrial processes: assembly of respiratory chain complexes I and IV, protein insertion into the inner membrane, and import into the mitochondrial matrix, alongside electron transport. There are additional hints of protein folding/quality control related to organelles, reinforcing a cohesive theme around mitochondrial protein targeting and assembly.","confidence":"High","size":22,"edges":175,"triangles":730,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0032981","count":3},{"id":"GO:0033617","count":3},{"id":"GO:0034975","count":2},{"id":"GO:0006626","count":2},{"id":"GO:0006260","count":2}]},{"hash":"1797054766408049220","title":"Ubiquitin-Mediated Signaling and Innate Immunity","description":"This cluster is enriched for ubiquitination-related GO terms (protein autoubiquitination, actin ubiquitination) and innate immune signaling processes (innate immune response, LPS-mediated signaling regulation, negative regulation of MIP-1 alpha production). The combination suggests a theme around ubiquitin-dependent regulation of signaling pathways that coordinate immune responses, with additional terms like plasma membrane repair and epigenetic programming that could be downstream effects.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":22},{"id":"GO:1900458","count":22},{"id":"GO:0007014","count":22},{"id":"GO:0007182","count":22},{"id":"GO:0045087","count":22}]},{"hash":"230057215881113928","title":"Cardiac development and conduction signaling","description":"The terms are dominated by heart development and cardiac electrophysiology (regulation of heart rate by conduction, AV node action potential, atrial/ventricular membrane depolarization/repolarization, heart development). There are also signaling pathway terms (ERK cascade) and neural/skeletal development terms (semaphorin signaling, myelination, ossification), suggesting a cluster centered on developmental signaling with a cardiac emphasis. ","confidence":"Medium","size":22,"edges":40,"triangles":13,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0086091","count":5},{"id":"GO:0060307","count":5},{"id":"GO:0060371","count":5},{"id":"GO:0042552","count":4},{"id":"GO:0070374","count":4}]},{"hash":"312463051996652707","title":"Neural development and synapse assembly","description":"The cluster is strongly enriched for nervous system development, dendrite self-avoidance, and positive regulation of synapse assembly, along with both homophilic and heterophilic cell-cell adhesion, which are key for neural connectivity and synapse formation. Smoothened signaling further supports Hedgehog-mediated neural development. A few terms like ossification and innate immune response are less directly tied to neural wiring and may reflect pleiotropy or annotation noise. Overall, the dominant theme is neural development and synaptic organization.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043931","count":8},{"id":"GO:0045087","count":8},{"id":"GO:0006936","count":7},{"id":"GO:0007157","count":7},{"id":"GO:0070593","count":6}]},{"hash":"560146266700569641","title":"Diverse Transmembrane Transporters","description":"Most top GO terms describe transmembrane transport of diverse substrates (vitamins, arabinose, fucose, sialic acid, nitrate, sodium, xenobiotics) and a vesicle-related step (neurotransmitter loading into synaptic vesicle), suggesting the proteins are membrane transporters with broad substrate specificity. This common theme supports labeling the cluster as membrane transporters with diverse substrates.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":8},{"id":"GO:0015751","count":8},{"id":"GO:0035435","count":8},{"id":"GO:0006004","count":8},{"id":"GO:0015739","count":8}]},{"hash":"2146060517919971458","title":"B cell activation and complement-mediated innate immunity","description":"The top GO terms indicate a cohesive immune-signaling cluster centered on innate immunity and B cell activity: innate immune response, classical complement activation, B cell receptor signaling, and phagocytosis-related processes, plus positive regulation of B cell activation and ERK signaling. While there are a few terms related to nervous system development and synapse assembly, the dominant theme is B cell\u2013driven innate immune signaling with complement involvement. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":12},{"id":"GO:0006958","count":12},{"id":"GO:0050853","count":11},{"id":"GO:0006910","count":11},{"id":"GO:0006911","count":10}]},{"hash":"1214172579321195367","title":"Neuronal GPCR-cAMP signaling and neurotransmitter regulation","description":"The cluster is dominated by GO terms tied to GPCR signaling that activates adenylate cyclase and the cAMP pathway (e.g., electron transport chain is also listed but less central), along with terms for dopamine uptake, acetylcholine metabolism, and responses to amphetamine. This points to monoaminergic and cholinergic neurotransmission and neural signaling pathways, with blood pressure regulation reflecting sympathetic modulation. Some terms like posterior midgut development are less directly related, but the cohesive theme is neuronal GPCR-cAMP signaling and neurotransmitter regulation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":21},{"id":"GO:0010579","count":21},{"id":"GO:0007190","count":21},{"id":"GO:0045777","count":21},{"id":"GO:0001975","count":17}]},{"hash":"2299075102870876181","title":"Immune and ECM Development Signaling","description":"The cluster includes immune-related processes (blood coagulation, activation of membrane attack complex, neutrophil clearance, hypersensitivity regulation) as well as extracellular matrix and developmental signals (collagen fibril organization, BMP signaling, synapse assembly, myelination). This mix suggests a coordinated module where immune signaling interfaces with ECM remodeling and neural development cues, justifying the label.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042517","count":4},{"id":"GO:0007596","count":3},{"id":"GO:0030514","count":3},{"id":"GO:0030513","count":3},{"id":"GO:0051965","count":3}]},{"hash":"2224578859256583897","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms cluster around embryonic development and tissue formation (cartilage morphogenesis, left-right patterning, EMT in endocardial cushion formation, placenta and pancreatic development), with accompanying regulation of transcription and RNA processing, suggesting a cohesive developmental program.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":21},{"id":"GO:0035270","count":21},{"id":"GO:0060536","count":21},{"id":"GO:0003198","count":21},{"id":"GO:0060806","count":21}]},{"hash":"1586298112459529339","title":"Neural development and synapse formation","description":"The cluster shows strong enrichment for neural-related processes: cell\u2013cell adhesion (homophilic/heterophilic), synapse assembly, axon extension/regeneration, and development of neural structures such as the retina and olfactory nerve. These terms collectively point to roles in neural connectivity and development. The presence of the symbiont entry term is likely an annotation artifact or reflects broader adhesion-related functions, but the dominant signal is neuronal development and synaptogenesis.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046718","count":15},{"id":"GO:0007156","count":15},{"id":"GO:0007157","count":15},{"id":"GO:0051963","count":15},{"id":"GO:0038091","count":14}]},{"hash":"2009461282961414359","title":"Broad developmental signaling across neural, immune, and skeletal tissues","description":"These proteins appear linked to multiple facets of signaling and development across tissues: neural connectivity (positive regulation of synapse assembly; retinal ganglion cell axon guidance), general receptor-mediated signaling (B cell receptor signaling; receptor clustering; MAPK-related signaling), and developmental processes (innate immune response; skeletal system development; mesodermal fate specification; parathyroid hormone secretion). The shared theme is intercellular signaling governing tissue development and connectivity, rather than a single, cohesive pathway, so a broad, multi-tissue development label is appropriate.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051965","count":12},{"id":"GO:0000187","count":11},{"id":"GO:0010765","count":11},{"id":"GO:0050853","count":11},{"id":"GO:0045087","count":11}]},{"hash":"936799272904045476","title":"Embryonic development and morphogenesis","description":"The top GO terms cluster around developmental processes: endocrine system development, cartilage morphogenesis, EMT in endocardial cushion formation, left-right pattern formation, placental development, and pancreatic cell development, all pointing to embryogenesis and tissue organization. A few terms on transcriptional regulation and ribosome export likely reflect broad gene-expression changes during development. Overall, the shared theme is formation and patterning of tissues during embryogenesis.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":11},{"id":"GO:0060536","count":11},{"id":"GO:0003198","count":11},{"id":"GO:0060806","count":11},{"id":"GO:0060972","count":11}]},{"hash":"550075561589604983","title":"Gut mucosal immunity and epithelial homeostasis","description":"The cluster shows strong representation of immune-related GO terms (complement activation via lectin pathway, defense response to bacterium, adaptive immune response, phagocytosis recognition, and negative regulation of macrophage activation) alongside terms related to GI epithelium maintenance and angiogenesis. This pattern suggests a module where mucosal immune defense and tissue remodeling/epithelial maintenance in the gastrointestinal tract are coordinated, rather than a purely generic immune or purely structural cluster.","confidence":"Medium","size":22,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":3},{"id":"GO:0001867","count":3},{"id":"GO:0006910","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0007156","count":3}]},{"hash":"889835604006095938","title":"Embryogenesis and Tissue Morphogenesis","description":"The terms are dominated by developmental processes, including endocrine development, cartilage formation, mesoderm and placental development, left-right patterning, and epithelial-to-mesenchymal transitions, pointing to embryogenesis and organ/tissue morphogenesis as the unifying theme; a ribosomal export term appears incidental.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035270","count":22},{"id":"GO:0060536","count":22},{"id":"GO:0003198","count":22},{"id":"GO:0060806","count":22},{"id":"GO:0060972","count":22}]},{"hash":"663577552807803508","title":"Neuromodulatory GPCR signaling (dopamine/acetylcholine)","description":"These terms cluster around neurotransmitter signaling and GPCR pathways that regulate monoaminergic and cholinergic activity, including dopamine uptake regulation, response to amphetamine, acetylcholine metabolism, and GPCR signaling linked to adenylate cyclase inhibition. Some terms in the list (e.g., midgut development, IgA isotype switching) seem less related, but the core signal appears to be neural and vascular modulation via GPCR/monoamine pathways.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":22},{"id":"GO:0007497","count":22},{"id":"GO:0050728","count":22},{"id":"GO:1901652","count":22},{"id":"GO:0051586","count":22}]},{"hash":"1681163165713755825","title":"Unknown","description":"Top GO terms are highly diverse across biological processes (circadian regulation, ubiquitin-dependent proteolysis, protein homooligomerization, muscle differentiation, plant hormone signaling, kidney morphogenesis, immune germinal center formation, tRNA modification, spindle midzone localization). The terms do not converge on a single function or pathway, suggesting multi-function or cross-species annotations; thus a cohesive label cannot be assigned.","confidence":"","size":21,"edges":43,"triangles":22,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0042752","count":15},{"id":"GO:0042787","count":15},{"id":"GO:0051260","count":14},{"id":"GO:0035914","count":14},{"id":"GO:0009742","count":13}]},{"hash":"1226711848670921584","title":"DNA Processing and Proteostasis","description":"The top terms are dominated by nuclear processes such as DNA replication, DNA-templated transcription, and cell division, suggesting a core focus on DNA metabolism and cell cycle. There are also proteins linked to proteostasis (aggresome assembly, ubiquitin-dependent ERAD) and other cellular maintenance activities (peroxisome protein import, vesicle transport, respiration regulation), indicating a broader, multifaceted set of functions rather than a single pathway. This leads to a label that reflects the strongest signals (DNA processing) while noting accompanying quality-control and metabolic roles. ","confidence":"Medium","size":21,"edges":125,"triangles":385,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070842","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0019079","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0001824","count":4}]},{"hash":"1763222644726622201","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":147,"triangles":602,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":15},{"id":"GO:0009432","count":15},{"id":"GO:0048701","count":14},{"id":"GO:0019079","count":13},{"id":"GO:0000472","count":12}]},{"hash":"1208628111315243784","title":"Neurodevelopmental Regulation and Ciliary Transport","description":"This cluster combines terms tied to neural development and stem cell differentiation (e.g., stem cell differentiation, sympathetic nervous system development, astrocyte differentiation, root development) with transcriptional and nuclear import control (negative regulation of transcription by RNA Pol II, NLS-bearing protein import into nucleus) and cilium-related processes (intraciliary transport involved in cilium assembly). Together, these suggest a theme of neurodevelopmental regulation coordinated with signaling and ciliary trafficking.","confidence":"Medium","size":21,"edges":98,"triangles":208,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0000122","count":2},{"id":"GO:0048863","count":2},{"id":"GO:0010972","count":2},{"id":"GO:0048485","count":2}]},{"hash":"1416307832353989444","title":"Unknown","description":"This cluster shows terms across neural signaling (cAMP biosynthesis, sodium transport, membrane depolarization), psychoactive response (response to cocaine), as well as broad immune responses (defense against Gram-negative bacteria and virus, T cell cytotoxicity) and developmental processes (planar orientation of body hair, osteoclast regulation). The terms are too diverse to derive a single cohesive function or pathway, so a concise, representative label cannot be confidently assigned.","confidence":"","size":21,"edges":35,"triangles":29,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":3},{"id":"GO:0006171","count":3},{"id":"GO:0048105","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0051899","count":3}]},{"hash":"256382973497932020","title":"TLR4-driven macrophage activation","description":"This cluster is enriched for GO terms related to toll-like receptor 4 signaling, macrophage activation, and defense against Gram-negative bacteria, with components of IL-1\u03b2 production and MyD88-independent TLR signaling. This points to an innate immune response axis centered on TLR4 recognition of Gram-negative pathogens and subsequent macrophage inflammatory activation.","confidence":"High","size":21,"edges":39,"triangles":22,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0043966","count":3},{"id":"GO:0010216","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0031146","count":1},{"id":"GO:0034142","count":1}]},{"hash":"135923424258606274","title":"Synaptic signaling and plasticity regulators","description":"The cluster shows strong representation of GO terms tied to neuronal communication, including regulation of synaptic vesicle exocytosis, long-term synaptic potentiation, calcium signaling, and GTPase/Rho regulation, which together point to a core function in synaptic transmission and plasticity, with supporting phosphoinositide signaling; only a few terms (like apoptotic pathways) are less central. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:2000300","count":7},{"id":"GO:0035023","count":7},{"id":"GO:0060291","count":6},{"id":"GO:0006915","count":5},{"id":"GO:0048015","count":5}]},{"hash":"1101437972433648327","title":"Embryonic vascular and organ morphogenesis","description":"This cluster is driven by development-related GO terms, especially angiogenesis and positive regulation of angiogenesis, plus various organ morphogenesis terms (heart, cranial skeleton, outer ear) and placenta development, all pointing to embryonic formation and vascular development. The presence of multicellular organism development and Wnt signaling regulation further supports a broad developmental theme. Cholesterol biosynthesis appears as a secondary metabolic tie but does not override the developmental signal.","confidence":"High","size":21,"edges":32,"triangles":19,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007275","count":14},{"id":"GO:0001525","count":12},{"id":"GO:0045766","count":11},{"id":"GO:0008285","count":10},{"id":"GO:0048701","count":10}]},{"hash":"2285233144030183543","title":"Cell morphogenesis and migration signaling","description":"This cluster centers on processes that shape cells and drive movement, including cell morphogenesis, Rho protein signaling, and positive regulation of fibroblast migration. It also features hyaluronan metabolism, which relates to extracellular matrix remodeling, and elements of signaling such as prostaglandin response and insulin receptor pathways, suggesting coordinated development and inflammatory signaling that influence cell shape and motility. Together, these terms point to a cohesive theme of morphogenesis together with migration and ECM-associated signaling during development and tissue remodeling.","confidence":"Medium","size":21,"edges":30,"triangles":4,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000902","count":7},{"id":"GO:0043552","count":7},{"id":"GO:0007266","count":7},{"id":"GO:0030212","count":6},{"id":"GO:0051965","count":6}]},{"hash":"1737131749870787908","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":177,"triangles":896,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000398","count":9},{"id":"GO:0000278","count":7},{"id":"GO:0030900","count":6},{"id":"GO:0000466","count":6},{"id":"GO:0061087","count":6}]},{"hash":"1789611402217509890","title":"Developmental Transcription Regulators and MAPK Modulators","description":"These proteins cluster around DNA-templated transcription and regulation of signaling pathways, notably negative regulation of ERK1/2 and JNK cascades, with links to neuronal differentiation and immune signaling modulation. The shared GO terms suggest a set of transcriptional regulators that also modulate MAPK signaling and developmental processes, making this a cohesive functional theme.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0070373","count":3},{"id":"GO:0043508","count":3},{"id":"GO:2000346","count":3},{"id":"GO:0016348","count":3}]},{"hash":"1303691990101652747","title":"Craniofacial and immune system development","description":"The top GO terms point to morphogenesis and organogenesis in craniofacial-related tissues (roof of mouth, hair follicle morphogenesis, odontogenesis, salivary gland branching, lung mesenchyme) along with immune lineage processes (lymphoid progenitor differentiation, immunoglobulin production) and phagocytosis. This suggests a developmental cluster spanning facial/glandular structures and immune system maturation rather than a single cohesive pathway. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006911","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0031069","count":2},{"id":"GO:0060445","count":2},{"id":"GO:0002320","count":2}]},{"hash":"1733308112972395653","title":"Neural development and brain region specification","description":"Dominant GO terms center on neuronal fate specification and brain region development, including spinal cord motor neuron and oligodendrocyte fate, cortical interneuron differentiation, subpallium fate commitment, cerebellum and cerebral cortex development, and inner ear development. This points to a coherent theme of neural development and regional patterning for the cluster, with a few non-neural development terms as peripheral context. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021530","count":14},{"id":"GO:0031018","count":14},{"id":"GO:0060435","count":14},{"id":"GO:0060163","count":14},{"id":"GO:0006366","count":14}]},{"hash":"2000560587067680988","title":"Methylation Machinery: Protein and RNA methylation","description":"The GO terms are dominated by various methylation processes, including N-terminal methylation (peptidyl-glycine/alanine), peptidyl-lysine methylation (mono- and dimethylation), and RNA methylation (tRNA, rRNA) as well as histone methylation. This pattern suggests a cluster of methyltransferases acting on both proteins and nucleic acids. Some unrelated terms (cardiac muscle contraction, ubiquinone/menaquinone biosynthesis) appear, but the core signal is strongly methylation-centered.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018013","count":3},{"id":"GO:0018027","count":3},{"id":"GO:0031167","count":3},{"id":"GO:0060048","count":2},{"id":"GO:0043985","count":2}]},{"hash":"1104249571737058530","title":"Wnt-driven synaptic maturation and axon regeneration","description":"These proteins cluster around synaptic function (receptor clustering, glutamatergic transmission, excitatory postsynaptic potential) and Wnt signaling (canonical pathway regulation). The presence of axon regeneration and angiogenesis terms suggests involvement in developmental and regenerative processes where Wnt signaling modulates synapse formation and neuronal growth. The mix of neuronal and developmental cues supports a label focused on Wnt-regulated synaptic development and axon regeneration.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0043113","count":13},{"id":"GO:0090263","count":13},{"id":"GO:0060079","count":13},{"id":"GO:0097011","count":13},{"id":"GO:0035249","count":13}]},{"hash":"731400881519425220","title":"Neuronal synaptic signaling proteins","description":"The cluster is dominated by GO terms related to synapse organization and chemical neurotransmission, including GABA and glutamate secretion and synaptic signaling, pointing to a core function in neuronal communication. Additional terms reference regulation of signaling pathways (JNK cascade, GTPase activity) that modulate synaptic function. Despite zero edges, the prevalent themes clearly align with synaptic transmission and neuronal signaling.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0046328","count":5},{"id":"GO:0050808","count":4},{"id":"GO:0014051","count":4},{"id":"GO:2000009","count":4},{"id":"GO:0071625","count":4}]},{"hash":"2262893009481274416","title":"Embryonic Morphogenesis Across Tissues","description":"These terms cluster around embryonic development and morphogenesis across multiple tissues, including palate, cochlea, digits, neural crest migration, forebrain neuron commitment, forelimb morphogenesis, cerebral cortex regionalization, endocrine pancreas development, ureteric bud branching, and motor neuron differentiation. The common thread is patterning and formation during embryogenesis across diverse tissues, justifying a broad embryonic morphogenesis label.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":17},{"id":"GO:0090103","count":16},{"id":"GO:0042733","count":16},{"id":"GO:0001755","count":16},{"id":"GO:0021902","count":16}]},{"hash":"1794623455939615822","title":"Mitochondrial transport, membrane dynamics, and apoptosis","description":"The cluster is dominated by GO terms tied to mitochondria, including various mitochondrial membrane transport processes (ADP and other metabolites), mitochondrial membrane fission and permeability regulation, and apoptotic mitochondrial changes, along with oxidative stress response. Although a few terms are obscure or outliers, the overall pattern points to mitochondrial function and dynamics as the unifying theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":8},{"id":"GO:0097274","count":7},{"id":"GO:0015709","count":6},{"id":"GO:0015866","count":6},{"id":"GO:0007565","count":6}]},{"hash":"237221832943723800","title":"Neuroimmune signaling and synaptic development","description":"The cluster shows both neural development functions (axonogenesis, synapse assembly) and innate immune responses (LPS/dsRNA sensing, interferon-\u03b2 production), plus dopaminergic signaling and pain-related behavior. This combination aligns with neuroimmune cross-talk, where immune activation modulates synaptic development and dopamine signaling relevant to pain processing.","confidence":"Medium","size":21,"edges":110,"triangles":266,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051965","count":8},{"id":"GO:0045087","count":7},{"id":"GO:0045359","count":7},{"id":"GO:0061368","count":7},{"id":"GO:0043330","count":7}]},{"hash":"769666893428253626","title":"Cell Cycle and Septin-Mediated Cytokinesis","description":"Dominant GO terms point to DNA replication and chromosome cohesion during meiosis, plus septin ring organization and disassembly\u2014hallmarks of cell cycle progression and cytokinesis. A less-connected P granule assembly term is present but does not dominate.","confidence":"High","size":21,"edges":199,"triangles":1138,"max_degree":20,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051754","count":4},{"id":"GO:0032508","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0090219","count":3},{"id":"GO:1903863","count":3}]},{"hash":"365594947591953175","title":"Embryonic organogenesis and patterning","description":"This cluster is dominated by GO terms tied to embryonic development and tissue patterning: endocrine system development, placenta-related differentiation, epithelial-to-mesenchymal transitions in heart development, left-right pattern formation, cartilage morphogenesis, pancreas development, and roof-of-mouth formation. While a couple of terms relate to general cellular machinery (spliceosome-mediated splicing and ribosomal subunit export), the prevailing signal is coordinated development and morphogenesis during embryogenesis, suggesting these proteins work together in organogenesis and patterning processes.","confidence":"High","size":21,"edges":67,"triangles":75,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":15},{"id":"GO:0060707","count":15},{"id":"GO:0003198","count":15},{"id":"GO:0060972","count":15},{"id":"GO:0060806","count":15}]},{"hash":"2304644788472163642","title":"Neural development and nociception with innate immunity","description":"The set shows strong signals for innate immune response and several brain-related processes (forebrain development, neural tube closure, visual learning) as well as a behavioral pain term (behavioral response to formalin). A few terms also touch on apoptosis and cell cycle, which may reflect general cellular regulation. Taken together, the proteins likely function in neural development and nociceptive signaling with an innate immune component, with possible involvement of microtubule-associated localization in neurons.","confidence":"Medium","size":21,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045087","count":8},{"id":"GO:0035372","count":7},{"id":"GO:0014068","count":7},{"id":"GO:0051092","count":7},{"id":"GO:0006915","count":6}]},{"hash":"1513600684577150844","title":"Retina development and phototransduction","description":"The cluster is dominated by vision-related terms such as visual perception and retina layer formation, plus a specific emphasis on opsin-based GPCR signaling and phototransduction. While a few signaling pathways (EGFR/MAPK, GPCR signaling) appear more general, the strongest signals point to eye development and photoreceptor signaling, supporting a retina/visual system-focused interpretation. Confidence reflects clear alignment to vision biology with minor broader signaling associations.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0070431","count":2},{"id":"GO:0016056","count":1},{"id":"GO:0000187","count":1}]},{"hash":"1857718041645418815","title":"Ubiquitin-mediated proteostasis and stress response","description":"The cluster\u2019s top GO terms emphasize protein ubiquitination and ER-associated degradation of misfolded proteins, along with apoptotic signaling and innate immune defense, which collectively point to proteostasis under stress. Although nuclear processes like DNA replication and transcription appear, they can be linked to ubiquitin-regulated cell cycle control, suggesting broader coordination between proteostasis and cell fate decisions. Overall, the theme is proteostasis via ubiquitin pathways with stress- and immune-related responses.","confidence":"Medium","size":21,"edges":81,"triangles":162,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051260","count":7},{"id":"GO:0006260","count":7},{"id":"GO:0071712","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0030433","count":5}]},{"hash":"58382368694717110","title":"Brain development and neuronal differentiation","description":"The cluster is enriched for terms pointing to brain development (cerebral cortex, hippocampus, substantia nigra) and neuronal differentiation, along with related regulatory processes (cell growth, cyclin-dependent kinase activity). This suggests a cohesive theme around neural development and maturation, despite a few non-neural terms present. ","confidence":"High","size":21,"edges":155,"triangles":688,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006977","count":13},{"id":"GO:0046827","count":13},{"id":"GO:0021987","count":12},{"id":"GO:0021766","count":12},{"id":"GO:0030216","count":12}]},{"hash":"165699996612654762","title":"Neuronal cytoskeleton remodeling and migration","description":"The cluster is dominated by GO terms tied to actin cytoskeleton dynamics, Rho signaling, dendritic spine morphogenesis, axon regeneration, and related cell-mmigration processes, indicating a common theme of cytoskeletal remodeling in neural development and connectivity. Some developmental terms for thyroid and thymus appear as outliers, but the core signal centers on neuronal cytoskeleton and migration.","confidence":"Medium","size":21,"edges":39,"triangles":38,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016477","count":16},{"id":"GO:0031532","count":16},{"id":"GO:0043552","count":16},{"id":"GO:0007266","count":16},{"id":"GO:0060997","count":15}]},{"hash":"1973051772691680309","title":"Endomembrane trafficking and COPII transport","description":"This cluster is defined by GO terms detailing intracellular transport, endosome-to-Golgi recycling, and COPII-coated vesicle cargo loading, pointing to a shared role in the secretory/endomembrane trafficking system. Some terms relate to regulatory or mitotic processes that are less central, but do not outweigh the strong signal for vesicle transport. ","confidence":"Medium","size":21,"edges":14,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032486","count":3},{"id":"GO:0048227","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0071955","count":2},{"id":"GO:0031030","count":2}]},{"hash":"350404832004403338","title":"Signaling and Development Regulation","description":"The cluster includes GO terms tied to multiple signaling pathways (Notch, MAPK, NF-kappaB) and immune-endothelial activation, alongside processes in development and differentiation (hemopoiesis, neuron projection morphogenesis, spermatid development) and cell-cycle/stress responses. The terms point to a broad regulatory module rather than a single cohesive function, justifying a label that reflects signaling and developmental regulation rather than a narrowly defined process.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002264","count":1},{"id":"GO:1902806","count":1},{"id":"GO:0034605","count":1},{"id":"GO:0045746","count":1},{"id":"GO:0000187","count":1}]},{"hash":"1076885889029355147","title":"Neuronal adhesion and paranodal axon organization","description":"This cluster is dominated by terms about neuronal cell-cell adhesion (homophilic and heterophilic) and nervous system development, with strong emphasis on protein localization and assembly at paranodal and juxtaparanodal regions of axons, plus Roundabout signaling for axon guidance. An outlier term related to ossification likely reflects broader representation, but the core theme is adhesion-mediated neural connectivity and paranodal/juxtaparanodal axon organization, suggesting a module involved in myelinated-axon structure and synapse-related dynamics.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":7},{"id":"GO:0043931","count":6},{"id":"GO:0051965","count":6},{"id":"GO:0002175","count":5},{"id":"GO:0007157","count":5}]},{"hash":"252622718769416131","title":"Aromatic compound catabolism and xenobiotic detox","description":"The top GO terms cluster around catabolic pathways for aromatic and plant-derived compounds (beta-ketoadipate, 3-phenylpropionate, alkaloid and glucuronoside catabolic processes) and a general response to toxic substances, indicating a common theme of detoxification and breakdown of xenobiotics. The presence of nitrogen utilization and secondary shoot formation suggests a plant context where these metabolic routes intersect with growth processes. Overall, the cluster appears to reflect detoxification and catabolism of aromatic/secondary metabolites.","confidence":"High","size":21,"edges":92,"triangles":170,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":16},{"id":"GO:0042952","count":16},{"id":"GO:0019433","count":15},{"id":"GO:0006212","count":15},{"id":"GO:1905344","count":15}]},{"hash":"131840342660005260","title":"Embryonic organogenesis and neural differentiation","description":"The top GO terms point to broad embryonic development across organs (thyroid, pancreas, inner ear) plus neural lineage specification and CNS regionalization (spinal cord motor neuron fate, forebrain neuron types, cerebral cortex patterning). This combination supports a cohesive theme of early development with emphasis on neural differentiation and organogenesis.","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":12},{"id":"GO:0030878","count":11},{"id":"GO:0048701","count":11},{"id":"GO:0021912","count":10},{"id":"GO:0021527","count":10}]},{"hash":"2118539595299438573","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":23,"triangles":16,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":10},{"id":"GO:0042853","count":6},{"id":"GO:0046392","count":5},{"id":"GO:0009099","count":5},{"id":"GO:0009097","count":5}]},{"hash":"1922460496558289261","title":"Cytoskeleton remodeling and cell cycle regulation","description":"This cluster is dominated by GO terms tied to actin cytoskeleton reorganization, Rho signaling, cell spreading/adhesion, centrosome maintenance, and mitotic cell cycle, suggesting proteins coordinating cytoskeleton dynamics with cell division and signaling. A few terms about innate immunity and adipogenesis are present but less central, so the core theme remains cytoskeletal regulation during growth and division.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031532","count":5},{"id":"GO:0035994","count":4},{"id":"GO:0045736","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0031914","count":4}]},{"hash":"1217300723016343184","title":"Embryonic development and morphogenesis","description":"The top GO terms cluster around developmental processes across tissues (endocrine system development, cartilage morphogenesis, left-right pattern formation, pancreatic cell development, EMT in heart cushion formation, placenta-related differentiation). A few terms touch on cellular organization (endoplasmic reticulum and nuclear envelope organization), but the common thread is embryonic development and tissue morphogenesis, justifying this label as representative of the cluster.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007029","count":1},{"id":"GO:0090435","count":1},{"id":"GO:0071763","count":1},{"id":"GO:0032781","count":1},{"id":"GO:0035270","count":1}]},{"hash":"329855196823272772","title":"Cell cycle regulation and growth control","description":"The cluster\u2019s top GO terms center on regulating the cell cycle, including mitotic cytokinesis and negative regulation of proliferation, plus regulation of signaling pathways like Wnt. While there are a few terms touching on RNA processing and translation control and a distant hint of cytoskeletal processes, the predominant theme is coordination of cell division and growth. This suggests the proteins collectively function in cell cycle control and growth signaling, with ancillary roles in related regulatory processes.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030239","count":1},{"id":"GO:0043065","count":1},{"id":"GO:0000281","count":1},{"id":"GO:0007050","count":1},{"id":"GO:0008285","count":1}]},{"hash":"222638369197519675","title":"Mitochondrial transport, dynamics, and stress response","description":"The top GO terms cluster around mitochondria: ADP and other metabolite transport, mitochondrial membrane fission and permeability regulation, apoptotic mitochondrial changes, and response to superoxide, plus manganese and ornithine transport within mitochondria. This points to a cohesive module of mitochondrial transport and remodeling under oxidative stress and metabolic contexts; insulin secretion and pregnancy terms likely reflect broader physiological associations rather than separate functional modules.","confidence":"High","size":21,"edges":190,"triangles":1022,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0061179","count":21},{"id":"GO:0015709","count":19},{"id":"GO:0015866","count":19},{"id":"GO:0007565","count":19},{"id":"GO:0000066","count":19}]},{"hash":"1281925647165324691","title":"GPCR-cAMP Signaling and Growth Factor Responses","description":"This cluster centers on GPCR-mediated cAMP production and signaling (GO:0006171, GO:0007189) and includes growth factor\u2013related responses (positive regulation of angiogenesis, response to fibroblast growth factor, adenosine signaling), suggesting a signaling module tied to growth factor pathways. The presence of broader stimulus-response terms (ethanol, pain, amino acids) and digestion indicates additional signals but the core appears to be GPCR/cAMP signaling linked to growth factor\u2013driven responses.  ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006171","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0060168","count":2},{"id":"GO:0045471","count":2}]},{"hash":"2039417378038319895","title":"Endocrine development and developmental signaling","description":"The top GO terms point to endocrine system and pancreatic cell development, along with broad developmental processes like cartilage morphogenesis and Wnt signaling, suggesting a cluster tied to developmental signaling and endocrine formation. Some terms (e.g., xenobiotic response, ribosomal export) are peripheral, but the core theme is embryonic development and signaling pathways. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":3},{"id":"GO:0050732","count":2},{"id":"GO:0007223","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0035019","count":2}]},{"hash":"807711815383187508","title":"Embryonic morphogenesis and mesoderm development","description":"Based on the top GO terms, the proteins cluster around embryonic tissue formation and morphogenesis, especially mesoderm-derived structures and craniofacial features (palate, cartilage, hair follicle morphogenesis, and EMT in heart formation). A few terms are more general cellular processes (RNA processing, DNA repair), but the dominant pattern points to embryonic development and morphogenesis.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":5},{"id":"GO:0031069","count":5},{"id":"GO:0035270","count":4},{"id":"GO:0060021","count":4},{"id":"GO:0060536","count":4}]},{"hash":"1081994113510149949","title":"Membrane remodeling and cytoskeletal dynamics","description":"The top GO terms point to membrane-related processes and cytoskeletal control, including plasma membrane repair, regulation of GTPase activity, filopodium assembly, membrane addition during cytokinesis, and cell migration. These collectively suggest vesicle trafficking and membrane remodeling coupled with actin dynamics. Some terms (developmental, balance perception, sperm binding) are less directly connected but may reflect broader roles in cell signaling and morphology. Overall, a cohesive theme around membrane dynamics and cytoskeletal organization justifies this label.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001778","count":4},{"id":"GO:0043087","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0000011","count":3},{"id":"GO:0021592","count":3}]},{"hash":"866586205244185613","title":"Developmental Patterning and Organogenesis","description":"The GO terms are dominated by embryonic development processes\u2014left-right pattern formation, cartilage morphogenesis, endocardial EMT, endocrine system development, and organogenesis-related patterns\u2014indicating a cohesive theme around developmental patterning and tissue formation. Additional terms on RNA processing and transcriptional regulation may reflect coordinated gene expression control during development. Overall, the cluster appears to group proteins involved in developmental patterning and organ formation rather than a single tissue type. ","confidence":"High","size":21,"edges":2,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0000055","count":17},{"id":"GO:0035270","count":17},{"id":"GO:0060536","count":17},{"id":"GO:0003198","count":17},{"id":"GO:0060806","count":17}]},{"hash":"1967041176945444510","title":"Rho GTPase signaling regulation","description":"This cluster is dominated by GO terms about regulation and activation of Rho family GTPases (Rho/Rac) and GTPase activity, indicating a core function in modulating cytoskeletal dynamics and related signaling. The SNARE-related term fits with vesicle trafficking regulation, while IGF receptor signaling, thrombin receptor signaling, and differentiation terms likely reflect broader signaling contexts connected to these pathways.","confidence":"Medium","size":21,"edges":9,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0035544","count":3},{"id":"GO:0035024","count":3},{"id":"GO:0035021","count":3}]},{"hash":"1072578556259017300","title":"Presynaptic Glutamatergic Vesicle Trafficking","description":"This cluster centers on presynaptic processes for glutamatergic transmission, including vesicle docking, maturation, and exocytosis, as well as overall synaptic vesicle cycling. The presence of intracellular signaling and actin remodeling terms (Rho signaling, lamellipodium assembly) suggests cytoskeletal changes that facilitate vesicle trafficking and synaptic plasticity, reinforcing a presynaptic vesicle trafficking theme. Face development is an outlier but does not dominate the set.","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035249","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0031914","count":5},{"id":"GO:0060324","count":5},{"id":"GO:0099525","count":4}]},{"hash":"1966898823023172428","title":"GPCR-Driven Migration and Cytoskeletal Signaling","description":"This cluster is dominated by GO terms centered on GPCR signaling (GO:0007205), thrombin-activated receptor signaling, PI3K/AKT pathway, integrin activation, and filopodium assembly/regulation, all of which are key players in cytoskeletal remodeling and cell migration. The convergence on receptor-mediated signaling leading to actin-based structures and adhesion supports a coherent theme of migration and cytoskeletal dynamics, despite some obsolete terms appearing in the list.","confidence":"High","size":21,"edges":3,"triangles":0,"max_degree":1,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007205","count":14},{"id":"GO:0007605","count":14},{"id":"GO:0051262","count":13},{"id":"GO:2001275","count":12},{"id":"GO:0016477","count":12}]},{"hash":"309925484101154457","title":"Innate Immune Activation and Pyroptosis","description":"The cluster shows strong enrichment for innate immune response, pyroptotic inflammatory response, IL-1\u03b2 production, and defense against virus, indicating a coherent group of antiviral innate signaling and inflammatory pathways. While mitotic spindle assembly appears among the terms, the dominant signals are inflammatory/antiviral functions linked to cytokine production and cell death pathways, suggesting these proteins work together in innate immune activation and pyroptosis.","confidence":"High","size":21,"edges":24,"triangles":9,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090307","count":20},{"id":"GO:0045087","count":19},{"id":"GO:0070269","count":19},{"id":"GO:0050718","count":19},{"id":"GO:0006919","count":19}]},{"hash":"1570833644540019208","title":"Neural development, synapse assembly, and ECM adhesion","description":"Top terms indicate a cohesive theme of neural circuit formation, combining synapse assembly, axon guidance, and corpus callosum development with extracellular matrix and adhesion processes (collagen fibril organization, cell-matrix and heterophilic adhesion). This suggests proteins that coordinate neural connectivity through ECM interactions and adhesion during development.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051965","count":12},{"id":"GO:0030199","count":11},{"id":"GO:0016525","count":9},{"id":"GO:0071372","count":9},{"id":"GO:0007160","count":8}]},{"hash":"882373845134095795","title":"Hair follicle and sebaceous gland development","description":"The top GO terms point to skin appendage formation, especially hair follicle morphogenesis and sebaceous gland development, with related craniofacial and mesoderm/endocrine developmental processes and vitamin D regulation, suggesting the cluster represents a developmental program for skin and its appendages. Confidence: Medium","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042144","count":3},{"id":"GO:0018230","count":3},{"id":"GO:0048733","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0060021","count":2}]},{"hash":"2156664883356159238","title":"Axon guidance signaling and neural development","description":"Top GO terms point to axon guidance and neural development, including semaphorin-plexin signaling, regulation of axon extension, sensory and branchiomotor axon guidance, and facial nerve organization, with supporting SHH pathway and cell-ECM adhesion signals. This suggests a cohesive role in neuronal pathfinding and nervous system structuring.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0048010","count":7},{"id":"GO:1902287","count":6},{"id":"GO:0048843","count":6},{"id":"GO:0045880","count":6},{"id":"GO:0048842","count":6}]},{"hash":"1499651069075407959","title":"Glutamatergic-GABAergic Synaptic Transmission","description":"This cluster is dominated by neuronal synaptic signaling terms, especially glutamatergic (excitatory) transmission and GABAergic signaling, along with regulation of presynaptic vesicle fusion and intracellular signaling. The core theme points to synaptic communication and plasticity at the neural synapse, with a few behavior-related terms reflecting related phenotypes.","confidence":"High","size":21,"edges":41,"triangles":17,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":7},{"id":"GO:0060992","count":7},{"id":"GO:0055114","count":7},{"id":"GO:0097011","count":6},{"id":"GO:0035249","count":6}]},{"hash":"1537167323806971505","title":"Neuronal mitochondrial dynamics and microtubule organization","description":"GO terms emphasize mitochondrial localization, membrane potential regulation, and intracellular distribution, together with microtubule bundle formation and polymerization, and neuron projection development. They also include calcium signaling regulation and ROS generation, suggesting a network coordinating mitochondrial dynamics with microtubule-based transport during neurite outgrowth.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":5},{"id":"GO:1903748","count":4},{"id":"GO:0048312","count":4},{"id":"GO:0010917","count":4},{"id":"GO:1900034","count":4}]},{"hash":"856362336932299852","title":"Skeletal Muscle Calcium and Ion Transport","description":"The cluster is dominated by GO terms for calcium ion homeostasis and calcium transmembrane transport, along with sodium, potassium, and zinc ion transport, highlighting ion gradients and Ca2+ signaling essential for muscle excitability and contraction. The presence of fast-twitch muscle contraction regulation and testosterone response further ties these transport and signaling processes to skeletal muscle function, with serine biosynthesis likely reflecting broader metabolic context. Overall, the group appears to center on calcium/ion transport supporting skeletal muscle physiology.","confidence":"High","size":21,"edges":92,"triangles":166,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006874","count":19},{"id":"GO:0031448","count":19},{"id":"GO:0099132","count":19},{"id":"GO:0070588","count":19},{"id":"GO:0033574","count":19}]},{"hash":"1193888112699002448","title":"Cardiac morphogenesis and electrical signaling","description":"The cluster\u2019s top GO terms are dominated by heart-related development and function, including left ventricular morphogenesis, outflow tract morphogenesis, and multicellular development, as well as regulation of atrial and SA node action potentials, Purkinje signaling, and Ca2+ release from the sarcoplasmic reticulum, pointing to a cohesive theme of cardiac development and electrophysiology. Some terms like bone and skin development appear but do not define the primary function of the cluster.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0003220","count":20},{"id":"GO:0043931","count":20},{"id":"GO:0098910","count":20},{"id":"GO:0014808","count":20},{"id":"GO:0007275","count":20}]},{"hash":"1124809424844379722","title":"Adhesion and junction dynamics","description":"The top terms emphasize cell\u2013cell adhesion and barrier organization (integrin signaling, bicellular tight junction assembly, endothelial migration) and cytoskeletal remodeling (bleb assembly) linked to movement. While viral release and T cell cytotoxicity are less central, the dominant signal points to adhesion, junctions, and endothelial movement. Therefore, a label focusing on adhesion/junction dynamics best represents this cluster with moderate confidence.","confidence":"Medium","size":21,"edges":2,"triangles":0,"max_degree":1,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:2001046","count":11},{"id":"GO:0070830","count":10},{"id":"GO:0043534","count":9},{"id":"GO:0019076","count":9},{"id":"GO:1903348","count":9}]},{"hash":"1860928806496146628","title":"Multisystem Organogenesis","description":"The GO terms cluster around development and proliferative/differentiation processes across multiple tissues (gonad, palate, lung, bone, cartilage, kidney, heart), indicating a general organogenesis/growth program rather than a single tissue-specific pathway.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0008584","count":9},{"id":"GO:0048146","count":9},{"id":"GO:0002062","count":9},{"id":"GO:0060021","count":8},{"id":"GO:0045669","count":7}]},{"hash":"1809905420422008229","title":"Calcium signaling in muscle and neural systems","description":"The cluster is dominated by calcium-related terms (calcium import and response) along with neuronal action potential and skeletal muscle development, pointing to calcium-dependent signaling in muscle and nervous tissues. Immune-related terms (IL-6 production, T cell homeostasis) appear alongside defense-related terms, suggesting an additional immune-modulated facet to these pathways. Overall, a calcium-centered theme linking muscle, neural activity, and immune context.","confidence":"Medium","size":21,"edges":32,"triangles":18,"max_degree":13,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0001666","count":8},{"id":"GO:0048741","count":7},{"id":"GO:0051260","count":7},{"id":"GO:0043029","count":7},{"id":"GO:0048266","count":7}]},{"hash":"1401678314463142840","title":"Sensory Perception and Organ Development","description":"The top GO terms emphasize sensory and organ development functions, notably locomotory behavior, retina development, and visual perception, along with heart development, suggesting a cluster tied to development of sensory/motor systems and organs. There are additional signaling and stimulus-response terms (ERK cascade, prostaglandin response, xenobiotic response) that indicate broader environmental responsiveness intertwined with development. Because the terms span both sensory/organ development and general stress responses, the label focuses on the most cohesive theme: sensory perception and organ development, with recognition of broader signaling context.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007626","count":11},{"id":"GO:0007507","count":9},{"id":"GO:0060041","count":8},{"id":"GO:0007601","count":8},{"id":"GO:0042742","count":6}]},{"hash":"2142909280088216542","title":"Innate Immune Signaling and Interferon Response","description":"Most GO terms are related to innate immunity and signaling: innate immune response, TLR9 signaling, and type II interferon production, along with host-mediated suppression of symbiont invasion and iron ion response, with ERK cascade involvement. A couple of terms (cutin biosynthetic process, bone resorption) appear less connected and may reflect annotation noise. Overall, the cluster centers on immune defense signaling.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0046597","count":3},{"id":"GO:0072643","count":3},{"id":"GO:0010143","count":2},{"id":"GO:0010039","count":2}]},{"hash":"737793509878125196","title":"Neural development and synapse formation","description":"The cluster is dominated by GO terms related to nervous system development, neurogenesis, neuron\u2013cell\u2013cell adhesion (both homophilic and heterophilic), and positive regulation of synapse assembly, with sensory perception of sound also represented. This points to a cohesive theme of neural development and synaptogenesis, with a possible minor outlier related to heart-associated migration sharing adhesion machinery. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0007156","count":8},{"id":"GO:0043931","count":8},{"id":"GO:0051965","count":8},{"id":"GO:0007158","count":7}]},{"hash":"253470346443816839","title":"Embryonic Development and Morphogenesis","description":"The GO terms cluster around developmental biology and tissue morphogenesis\u2014encompassing endocrine system development, cartilage morphogenesis, EMT in heart cushion formation, placenta-related differentiation, left-right patterning, mesoderm and organ development (e.g., hair follicle, palate). This points to a cohesive theme of embryogenesis and tissue morphogenesis across multiple lineages.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035270","count":21},{"id":"GO:0060536","count":21},{"id":"GO:0003198","count":21},{"id":"GO:0060806","count":21},{"id":"GO:0060972","count":21}]},{"hash":"103585617927445751","title":"Receptor Internalization and Endolysosomal Trafficking","description":"This cluster centers on cell surface receptor signaling and receptor internalization, with strong ties to endolysosomal transport and lysosome localization (including endosome-to-melanosome transport), suggesting a cohesive role in endocytic trafficking that modulates integrin and VEGF signaling.","confidence":"High","size":21,"edges":118,"triangles":355,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:2001046","count":14},{"id":"GO:0007166","count":13},{"id":"GO:0061462","count":13},{"id":"GO:0035646","count":13},{"id":"GO:0090528","count":13}]},{"hash":"1653180150728849623","title":"Neural development and cadherin cell adhesion","description":"The cluster is dominated by GO terms related to nervous system development, synapse assembly, and neuron-to-neuron adhesion, especially cadherin-mediated adhesion. This strongly suggests a neural-development module focused on synaptic connectivity. Some terms (ossification, blood vessel maturation) reflect broader developmental processes but do not outweigh the neural/adherence signal.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0051965","count":10},{"id":"GO:0007399","count":10},{"id":"GO:0007156","count":9},{"id":"GO:0043931","count":8},{"id":"GO:0007157","count":8}]},{"hash":"1328091158777229663","title":"TLR4-driven innate immune signaling","description":"This cluster is enriched for innate immune and inflammatory terms: innate immune response, response to exogenous dsRNA, inflammatory response, LPS-mediated signaling, TLR4 signaling, and cytokine production (IL-1\u03b2, IL-8). The prominent themes point to innate immune activation and downstream inflammatory signaling, with xenophagy regulation suggesting pathogen handling; outlier terms like mitotic spindle assembly and nervous system development appear less central to the core function.","confidence":"High","size":20,"edges":52,"triangles":46,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":6},{"id":"GO:0043330","count":5},{"id":"GO:0006954","count":5},{"id":"GO:1904417","count":5},{"id":"GO:0031663","count":5}]},{"hash":"972389299318123528","title":"Sensory perception and signaling cluster","description":"The terms point to sensory modalities (smell, pain) and intracellular signaling via small GTPases, plus related gene regulation processes (transcription, nuclear export) and development. This suggests a cohesive set of proteins involved in sensing cues and propagating signals that regulate gene expression and cellular development.","confidence":"Medium","size":20,"edges":68,"triangles":85,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003031","count":15},{"id":"GO:0006351","count":14},{"id":"GO:0046827","count":14},{"id":"GO:0071805","count":14},{"id":"GO:0007608","count":13}]},{"hash":"947188642874583312","title":"Developmental cell migration and chondrocyte differentiation","description":"The cluster\u2019s GO terms point to processes in development and tissue morphogenesis, especially cell movement (cell migration, substrate adhesion-dependent spreading) and differentiation of chondrocytes, along with regulation of growth and signaling (DNA replication/transcription, negative regulation of Wnt signaling, proliferation). While immune and dopamine-response terms are present, the strongest recurring themes are cytoskeletal dynamics, adhesion, and cartilage-related differentiation, suggesting a developmental/morphogenesis-focused group.","confidence":"Medium","size":20,"edges":60,"triangles":63,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:2000251","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0090090","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0002062","count":3}]},{"hash":"2214462669896891930","title":"Cell growth, differentiation, and telomere regulation","description":"This cluster includes terms tied to growth signaling (growth hormone receptor pathway), adipocyte differentiation, and neural layer formation, as well as components of cell-cycle and telomere control (telomere maintenance via telomerase, telomere capping, and regulation of CDK activity). The presence of mRNA processing and proteasomal degradation suggests coordinated regulation of gene expression and protein turnover during development and proliferation, with telomere-related processes tying into genome stability. Therefore, a label that emphasizes growth and differentiation along with telomere regulation is most representative.","confidence":"Medium","size":20,"edges":46,"triangles":19,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2001275","count":7},{"id":"GO:0045444","count":6},{"id":"GO:0006397","count":5},{"id":"GO:0032212","count":5},{"id":"GO:0032436","count":5}]},{"hash":"1417573441551250459","title":"Oxidative stress response with membrane repair and cytoskeleton dynamics","description":"The top GO terms point to responses to oxidative stress (hydroperoxide, neuron death regulation) and processes tied to maintaining and remodeling the cell surface and internal framework (plasma membrane repair, microtubule localization, Rho signaling). While some terms relate to development and division, the cohesive theme across multiple terms is stress response coupled with cytoskeletal/membrane maintenance.","confidence":"Medium","size":20,"edges":24,"triangles":2,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:1902083","count":3},{"id":"GO:0071447","count":3},{"id":"GO:1903204","count":3},{"id":"GO:0001778","count":3},{"id":"GO:0035372","count":3}]},{"hash":"1137807028354516126","title":"Embryonic morphogenesis and transcriptional regulation","description":"The protein cluster is dominated by developmental GO terms spanning tissue morphogenesis and organ formation (cartilage morphogenesis, left-right pattern formation, endocardial cushion EMT, roof of the mouth, placenta, pancreatic endocrine development) and includes transcription-related terms (DNA-templated transcription, negative regulation of transcription by RNA Pol II), indicating a cohesive role in embryonic development with transcriptional control.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060536","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0060806","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0060707","count":5}]},{"hash":"961509532699158936","title":"Mitotic cell cycle and nuclear transport","description":"This cluster is driven by GO terms centered on mitosis and nuclear processes: mitotic cell cycle, mitotic nuclear membrane reassembly, centromeric cohesion, DNA-templated transcription, and positive regulation of protein export from the nucleus. While there are a few development-related terms (forebrain and lens fiber development), the dominant signals relate to nuclear events during cell division and nuclear transport, justifying a mitosis- and nucleus-focused label.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0051754","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0030900","count":3}]},{"hash":"1935306202490523116","title":"Neurodevelopment and cell cycle regulation","description":"The cluster mixes strong neural development signals (nervous system development, positive regulation of axon extension, in utero embryonic development) with robust mitotic cell cycle cues (mitotic cell cycle, G1/S and G2/M transitions, meiotic spindle elongation) and ubiquitin-dependent proteolysis. This pattern suggests proteins involved in neural development that are tightly coordinated with cell cycle control and protein turnover, justifying a label centered on neurodevelopment with cell cycle regulation.","confidence":"High","size":20,"edges":104,"triangles":300,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":11},{"id":"GO:0000082","count":10},{"id":"GO:0045773","count":10},{"id":"GO:0007399","count":10},{"id":"GO:0000086","count":10}]},{"hash":"1463964709480794504","title":"Spliceosome-Driven mRNA Processing and Export","description":"The cluster is dominated by GO terms for spliceosome-mediated mRNA splicing (cis/splicing, regulatory) and mRNA export, with additional hint of translation initiation complex formation. While some terms are obsolete, the prevailing theme ties together RNA processing and export with components that prepare transcripts for translation.","confidence":"High","size":20,"edges":26,"triangles":0,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":5},{"id":"GO:1905663","count":5},{"id":"GO:1900363","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0006406","count":5}]},{"hash":"1414601136770720255","title":"Developmental differentiation and endocytic trafficking","description":"The cluster\u2019s terms center on tissue and germ-layer differentiation (endodermal, mesodermal, smooth muscle development) and membrane dynamics (receptor clustering, clathrin-dependent exosome endocytosis), plus cell movement and survival processes (extravasation, anoikis) and lipid regulation. This points to a theme where developmental programs intersect with endocytic trafficking and cell\u2013cell/matrix interactions, common in tissue remodeling. ","confidence":"Medium","size":20,"edges":104,"triangles":240,"max_degree":18,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0048745","count":13},{"id":"GO:0045123","count":12},{"id":"GO:0010745","count":12},{"id":"GO:0010888","count":12},{"id":"GO:2000811","count":12}]},{"hash":"754775476241959553","title":"Innate immune signaling and pathogen recognition","description":"Top GO terms indicate activation of innate immune responses and pathogen-recognition pathways, including dsRNA response, LPS signaling, NOD2 signaling, defense against virus, and TNF production, with detection of muramyl dipeptide supporting bacterial peptidoglycan sensing. While a couple terms (e.g., cellular response to mechanical stimulus, neuron apoptotic process) suggest broader stress or damage responses, the prevailing theme is innate immunity and pathogen detection.","confidence":"High","size":20,"edges":27,"triangles":12,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0043330","count":4},{"id":"GO:0032088","count":4},{"id":"GO:0031663","count":4},{"id":"GO:0070431","count":4}]},{"hash":"1725052260049408530","title":"Immune-Driven Bone Remodeling","description":"The top GO terms cluster around innate immune signaling (lipopolysaccharide-mediated signaling, defense response to Gram-positive bacteria, IL-17 production regulation) and bone biology (bone development), with a mechanotransduction signal (cellular response to mechanical stimulus. This pattern supports a theme of immune pathways modulating bone development/remodeling, i.e., osteoimmunology.","confidence":"Medium","size":20,"edges":38,"triangles":38,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":11},{"id":"GO:0031663","count":11},{"id":"GO:0042552","count":11},{"id":"GO:0014068","count":9},{"id":"GO:0051092","count":8}]},{"hash":"1355501838220412623","title":"Hair Follicle Development and Ubiquitination","description":"This cluster is dominated by protein ubiquitination and autoubiquitination terms, and includes skin/hair-specific processes such as hair follicle morphogenesis and keratinization, as well as vitamin D response and Wnt signaling regulation, all pointing to skin/hair follicle differentiation with ubiquitin-dependent signaling. The adaptive immune response and RIG-I regulation suggest additional immune signaling context but do not override the skin/hair development theme. ","confidence":"Medium","size":20,"edges":22,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":11},{"id":"GO:0051865","count":8},{"id":"GO:0002250","count":8},{"id":"GO:0039536","count":8},{"id":"GO:0090263","count":8}]},{"hash":"1480452582156938135","title":"Heart development and cardiac muscle function","description":"This cluster centers on heart-related processes: heart development and ventricular morphogenesis, cardiac muscle contraction, and cardiomyocyte development, with supporting signals for cellular stress and regulation (hypoxia response, xenobiotic response, ubiquitination) that commonly accompany cardiac physiology. The dominant pattern is cardiac structure and function, making a concise, specific label: Heart development and cardiac muscle function.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071158","count":3},{"id":"GO:0043066","count":3},{"id":"GO:0055010","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1799765035178378895","title":"Embryogenesis and Morphogenesis","description":"Most terms describe embryonic development and tissue/organ formation (mesoderm, cartilage, heart structures, placenta, pancreatic cells, facial structures), indicating proteins involved in embryogenesis and morphogenesis. A ribosomal subunit export term appears less related and may be noise.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":7},{"id":"GO:0060536","count":7},{"id":"GO:0003198","count":7},{"id":"GO:0060806","count":7},{"id":"GO:0060972","count":7}]},{"hash":"1932651377387657369","title":"Embryonic Development and Morphogenesis","description":"The top GO terms cluster around developmental processes across tissues: mesoderm development, cartilage and palate morphogenesis, hair follicle morphogenesis, EMT in endocardial cushion formation, endocrine system development, and left-right pattern formation. While one term (ribosomal large subunit export) is a general cellular process, the collection overwhelmingly points to embryonic development and tissue formation, suggesting these proteins share roles in developmental morphogenesis despite the lack of measured interactions in this dataset.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":3},{"id":"GO:0035270","count":3},{"id":"GO:0060021","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0003198","count":3}]},{"hash":"1462747419541424582","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":19,"triangles":11,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007283","count":5},{"id":"GO:2000884","count":5},{"id":"GO:0045493","count":5},{"id":"GO:0016042","count":5},{"id":"GO:0016239","count":5}]},{"hash":"1923278042497022900","title":"Spliceosome-Mediated mRNA Processing and Export","description":"This cluster is dominated by GO terms related to mRNA splicing via the spliceosome (including alternative splicing and splicing regulation) and mRNA export, with additional signals of translation preinitiation complex formation. These themes point to a cohesive role in mRNA maturation and export, rather than other processes, justifying a single descriptive label.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000380","count":6},{"id":"GO:0055114","count":5},{"id":"GO:0071320","count":4},{"id":"GO:0001731","count":4},{"id":"GO:1905663","count":4}]},{"hash":"2111622483934268342","title":"RNA Processing, Transcription, and Cell Cycle","description":"The proteins show strong enrichment for RNA processing (splicing and polyadenylation), transcription (DNA-templated transcription and transcription regulation), and cell cycle/division terms. While there are a few development-related terms, the dominant pattern ties to gene expression control and cell proliferation, justifying a label around RNA processing, transcription, and cell cycle regulation.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0007283","count":2},{"id":"GO:0098789","count":2}]},{"hash":"1990746939431899356","title":"Embryonic organ morphogenesis","description":"Top GO terms indicate development and morphogenesis across multiple organs during embryogenesis (facial roof, digits, limbs, cortex, pancreas, heart outflow tract, visceral neurons). Since there isn\u2019t a single shared pathway but a unifying theme of embryonic tissue morphogenesis, this label succinctly captures the cluster\u2019s function.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":14},{"id":"GO:0042733","count":12},{"id":"GO:0021902","count":12},{"id":"GO:0035115","count":12},{"id":"GO:0021796","count":12}]},{"hash":"860773818683021358","title":"Developmental transcriptional regulation","description":"The top GO terms show strong enrichment for transcription (RNA polymerase II, DNA-templated transcription) together with diverse morphogenesis processes (eye, lung, brain, pancreas development, somitogenesis), suggesting these proteins coordinately regulate gene expression during embryonic development and organ formation.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0006351","count":12},{"id":"GO:0060441","count":10},{"id":"GO:0048048","count":9},{"id":"GO:0043010","count":9}]},{"hash":"465672413476052989","title":"Embryonic Development and Morphogenesis","description":"This cluster is dominated by GO terms describing morphogenesis and development across multiple embryonic tissues and organs (eye, pancreas, limbs, neural crest, forebrain, craniofacial structures). The common theme is embryonic organogenesis and tissue patterning, with one broad term for transcription by RNA polymerase II reflecting general gene expression during development. The connection is coherent and representative of a developmental morphogenesis program rather than a single tissue-specific function.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048048","count":12},{"id":"GO:0031018","count":12},{"id":"GO:0035116","count":12},{"id":"GO:0003148","count":12},{"id":"GO:0006366","count":12}]},{"hash":"137763062915784862","title":"Embryonic development and morphogenesis","description":"Proteins in this cluster are enriched for GO terms tied to embryogenesis and tissue morphogenesis, including male gonad development, neural tube closure and patterning, epithelial signaling, and branching morphogenesis (ureteric bud). The common thread is developmental signaling guiding organ formation and tissue differentiation during embryogenesis.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0008584","count":15},{"id":"GO:0060684","count":14},{"id":"GO:0001843","count":12},{"id":"GO:0045606","count":12},{"id":"GO:0030308","count":12}]},{"hash":"844765014644412477","title":"Actin Cytoskeleton Remodeling and Synaptic Plasticity","description":"The terms cluster around actin-driven processes: lamellipodium assembly, actin cytoskeleton organization, and Rho/small GTPase signaling, plus dendritic spine morphogenesis and synaptic plasticity (long-term depression, structural plasticity). These point to a core role in actin remodeling underlying synaptic changes, with additional hints of actin roles in vascular and immune contexts (endothelial barrier, immune response). ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030032","count":10},{"id":"GO:0035023","count":10},{"id":"GO:0060997","count":8},{"id":"GO:0030036","count":8},{"id":"GO:0002250","count":7}]},{"hash":"1323039545721495140","title":"Embryonic Craniofacial and Cardiac Morphogenesis","description":"The terms cluster around embryonic development with emphasis on craniofacial structures (palate, cranial skeleton, cartilage) and heart morphogenesis (endocardial cushion EMT, left-right patterning), plus broader organ development signals, indicating a cohesive group of proteins involved in early developmental morphogenesis.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0048701","count":5},{"id":"GO:0035270","count":4}]},{"hash":"584828715131219512","title":"Neuronal development and Rho-actin remodeling","description":"These proteins show a pattern dominated by CNS development and motor neuron differentiation, combined with regulation of synaptic transmission (GABAergic) and extensive cytoskeletal remodeling (Rho signaling, actin filament bundle assembly, actin crosslinking). This points to a module involved in neuronal development and neurite/cytoskeletal dynamics that support migration, differentiation, and synapse formation. Some non-neuronal terms (fibroblast proliferation, astrocyte differentiation) reflect broader developmental regulation but do not override the neuronal-cytoskeletal theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0031887","count":2},{"id":"GO:0048147","count":2},{"id":"GO:0032228","count":2},{"id":"GO:0048712","count":2}]},{"hash":"352077964683854172","title":"Transcriptional Regulation and Chromatin Modification","description":"Predominant signals are DNA-templated transcription, mRNA splicing, and histone acetylation/methylation, which together reflect transcriptional regulation and chromatin remodeling. A few terms like retina development and defense response are outliers and likely incidental.","confidence":"High","size":20,"edges":143,"triangles":510,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0000398","count":4},{"id":"GO:0061087","count":4},{"id":"GO:0043982","count":4},{"id":"GO:0060041","count":4}]},{"hash":"594843964542177095","title":"Chromatin assembly and mitosis","description":"GO terms indicate nucleosome assembly and histone modifications, coupled with spindle assembly and centrosome cycle, suggesting a core theme of chromatin organization linked to cell division; some development-related terms may reflect broader roles in growth. ","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006334","count":6},{"id":"GO:0060669","count":6},{"id":"GO:0098532","count":6},{"id":"GO:1901674","count":6},{"id":"GO:0080182","count":6}]},{"hash":"2037398791668818663","title":"Signaling and membrane trafficking","description":"Top GO terms point to multiple signaling pathways (SMAD phosphorylation, PI-mediated signaling, NF-kappaB activation, and Rho signaling) and transcriptional regulation, alongside trafficking/membrane maintenance processes (Golgi retention, plasma membrane repair). This suggests a cohesive cluster of signaling nodes linked to membrane dynamics.","confidence":"Medium","size":20,"edges":31,"triangles":15,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0007182","count":3},{"id":"GO:0048015","count":3},{"id":"GO:0007026","count":3},{"id":"GO:0045944","count":3},{"id":"GO:0043123","count":3}]},{"hash":"1328251447063986279","title":"Telomere maintenance and chromosome dynamics","description":"This cluster's terms cluster around telomere biology (positive/negative regulation of telomere maintenance via telomerase, telomere lengthening, localization to telomeres) and mitotic chromosome dynamics (spindle assembly, cohesion-related regulation, chromosome telomere localization), with PARP-related ADP-ribosylation, suggesting roles in chromatin remodeling and DNA damage response at telomeres. The presence of one outlier term (Wnt signaling) does not outweigh the core telomere/chromosome maintenance theme.","confidence":"Medium","size":20,"edges":34,"triangles":10,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":7},{"id":"GO:1904743","count":6},{"id":"GO:1904357","count":6},{"id":"GO:0051225","count":6},{"id":"GO:1900383","count":6}]},{"hash":"1132815220693274554","title":"Unknown","description":"The top GO terms cover a broad mix of immune regulation, chromatin modification, endosomal trafficking, receptor recycling, Rho signaling, transcription, glutamatergic synaptic activity, calcium-channel regulation, DNA transposition, and endothelial proliferation, with no single dominant function linking them. The lack of edges (0) and the diversity of terms suggest there isn\u2019t a cohesive shared role for these proteins, so a specific, representative label isn\u2019t evident. ","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042102","count":2},{"id":"GO:0034968","count":1},{"id":"GO:0051036","count":1},{"id":"GO:0001881","count":1},{"id":"GO:0035023","count":1}]},{"hash":"1121806721338398581","title":"Innate immune response and inflammation","description":"The most represented GO terms are defense response to Gram-positive bacterium, innate immune response, and interferon-beta production, pointing to innate immune signaling. Other terms (angiogenesis, axonogenesis, coagulation) reflect inflammation-driven tissue remodeling that often accompanies immune responses, so the cluster captures innate immunity with inflammatory remodeling.","confidence":"Medium","size":20,"edges":30,"triangles":14,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0014068","count":8},{"id":"GO:0050830","count":7},{"id":"GO:0045766","count":6},{"id":"GO:0007409","count":5},{"id":"GO:0043113","count":5}]},{"hash":"1690349220240898640","title":"Tissue development and maturation","description":"The proteins show enrichment across embryonic and tissue-specific development (in utero embryonic development, mammary gland alveolus development, skin development, neuron maturation) with supporting interactions in cell adhesion and signaling (cell adhesion, T cell costimulation), suggesting a general theme of developmental differentiation and tissue remodeling.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":2},{"id":"GO:0045994","count":2},{"id":"GO:0050796","count":2},{"id":"GO:0060749","count":2},{"id":"GO:0042551","count":2}]},{"hash":"2028409683218344386","title":"Neural development and embryogenesis","description":"The cluster shows strong enrichment for neural tube closure and forebrain development, along with broader embryonic development terms (multicellular organism development, skeletal system development). While stress- and apoptosis-related terms appear, the dominant signal is neural/embryonic developmental processes, with general transcription and cell cycle activity as supporting context.","confidence":"High","size":20,"edges":100,"triangles":282,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":11},{"id":"GO:0001843","count":9},{"id":"GO:0071276","count":9},{"id":"GO:0001501","count":9},{"id":"GO:0006349","count":9}]},{"hash":"1315944247582376680","title":"Spliceosome-Driven mRNA Processing and Export","description":"Dominated by spliceosome-mediated mRNA processing: splicing regulation, mRNA export, and related steps; the presence of ncRNA-mediated gene silencing suggests an additional RNA-level regulatory layer, with translation initiation context linked downstream.","confidence":"High","size":20,"edges":141,"triangles":517,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":15},{"id":"GO:0031047","count":15},{"id":"GO:0001731","count":14},{"id":"GO:1905663","count":14},{"id":"GO:1900363","count":14}]},{"hash":"2031955705641013311","title":"Stress- and immune-signaling regulators","description":"The top GO terms cluster around regulation of signaling pathways tied to cellular stress responses and immune signaling, including ER stress\u2013induced apoptosis, interferon-beta response, TNF production, ubiquitination, and modulation of ERK and NF-kB pathways, as well as IGF receptor signaling. These collectively point to a set of proteins that regulate diverse signaling and stress- or immune-related responses.","confidence":"Medium","size":20,"edges":7,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0032760","count":4},{"id":"GO:0070059","count":3},{"id":"GO:0035458","count":3},{"id":"GO:0016567","count":3}]},{"hash":"710803712220198365","title":"Embryogenesis and Tissue Morphogenesis","description":"The top GO terms cluster around embryo development, tissue differentiation, and morphogenesis, including epithelial-to-mesenchymal transition in heart development, cartilage morphogenesis, placental and trophoblast differentiation, left-right patterning, and pancreatic cell development, with signaling pathways (Rho, PI3K/AKT) that regulate differentiation and morphogenesis. This pattern suggests a coherent theme of proteins coordinating developmental processes and tissue formation rather than a single specific function.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":6},{"id":"GO:0035023","count":5},{"id":"GO:0035270","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0060806","count":4}]},{"hash":"2097638307269876827","title":"Cardiac insulin signaling and development","description":"The top GO terms cluster around insulin signaling (insulin receptor signaling pathway and its regulation) and heart development, with supporting hints from cell migration, apoptosis, and JNK pathway modulation. This pattern suggests proteins involved in metabolic signaling tied to cardiac development and related cell fate decisions, rather than a single immune or inflammatory pathway. Therefore, Cardiac insulin signaling and development is a concise, representative label.","confidence":"Medium","size":20,"edges":16,"triangles":0,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016477","count":6},{"id":"GO:2001275","count":6},{"id":"GO:0008286","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0046329","count":5}]},{"hash":"371179706324400199","title":"Innate antiviral defense and NF-kappaB signaling","description":"The cluster is dominated by GO terms for defense response to virus and innate immune response, with multiple entries involving NF-kappaB regulation, suggesting a core theme of antiviral immune signaling. Peripheral terms related to development and cardiac/neuronal processes may reflect pleiotropy or incidental annotations. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051607","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0007275","count":4},{"id":"GO:0098910","count":4},{"id":"GO:0051092","count":4}]},{"hash":"2230649200809529770","title":"Neurodevelopment and organogenesis","description":"This cluster is enriched for brain and nervous system development terms (brain development, nervous system development, neuroblast fate commitment) and includes additional organogenesis terms (cardiac chamber development, coronary artery morphogenesis, optic cup formation). The presence of epigenetic regulation terms and a transcriptional silencing complex component suggests these proteins act as regulators coordinating development across multiple tissues, with a strong emphasis on neural development. ","confidence":"Medium","size":20,"edges":21,"triangles":10,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0007399","count":2},{"id":"GO:0051574","count":2},{"id":"GO:0014017","count":2},{"id":"GO:0003205","count":2}]},{"hash":"1510363466069480664","title":"Embryogenesis and Tissue Morphogenesis","description":"The top GO terms cluster around endocrine system development, cartilage morphogenesis, EMT in endocardial cushion formation, placental development, and left-right patterning, indicating a broad developmental/morphogenetic program affecting multiple tissues. A few terms (mRNA splicing and cilium motility) are peripheral, but the dominant theme is embryogenesis and tissue organization, justifying this label.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0060972","count":3}]},{"hash":"36188593509473188","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":113,"triangles":293,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0018406","count":3},{"id":"GO:0007286","count":3},{"id":"GO:0032511","count":2},{"id":"GO:0045070","count":2},{"id":"GO:1901215","count":2}]},{"hash":"1178428578316265944","title":"Embryonic Development and Morphogenesis","description":"This cluster is dominated by GO terms related to embryogenesis, tissue morphogenesis, and patterning (e.g., mesoderm development, left-right patterning, cartilage and hair follicle morphogenesis, endocardial cushion EMT, and roof of mouth development), suggesting a cohesive developmental program rather than a single metabolic function. The ribosomal export and transcriptional regulation terms are peripheral but do not outweigh the developmental theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0060021","count":16},{"id":"GO:0000055","count":15},{"id":"GO:0035270","count":15},{"id":"GO:0060536","count":15},{"id":"GO:0003198","count":15}]},{"hash":"1260812855660406357","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":62,"triangles":70,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0000466","count":4},{"id":"GO:0000463","count":4},{"id":"GO:0000398","count":4},{"id":"GO:0070317","count":3},{"id":"GO:0000472","count":3}]},{"hash":"971096429994851226","title":"Rac-Mediated Cell Migration and Lamellipodium Assembly","description":"This cluster centers on Rac/Rho family GTPase signaling driving actin cytoskeleton remodeling and cell movement, evidenced by terms like small GTPase-mediated signal transduction, Rac signal transduction, lamellipodium assembly, and general cell migration, along with podosome-related assembly and PI3K activity regulation. While a few terms touch on broader or context-specific processes, the dominant theme is Rac-driven cytoskeletal dynamics enabling migration and protrusion formation.","confidence":"High","size":20,"edges":22,"triangles":13,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":11},{"id":"GO:0016477","count":10},{"id":"GO:2001275","count":10},{"id":"GO:0007264","count":10},{"id":"GO:0071803","count":9}]},{"hash":"1989542038087949668","title":"RNA and protein methyltransferases","description":"This cluster is dominated by GO terms for RNA methylation (rRNA, tRNA, guanine-N7 methylation, mRNA cap) and various protein methylations (peptidyl-lysine, arginine, N-terminal methylation). The pattern points to a group of methyltransferases that modify both nucleic acids and proteins, with some additional terms possibly reflecting related regulatory pathways. Overall, the common thread is methyltransferase activity across RNA and proteins, justifying this label.","confidence":"High","size":20,"edges":110,"triangles":298,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0031167","count":11},{"id":"GO:0018027","count":10},{"id":"GO:0030488","count":9},{"id":"GO:0036265","count":8},{"id":"GO:0006370","count":8}]},{"hash":"748158300209934141","title":"RNA processing and transcriptional regulation in epithelial morphogenesis","description":"Top GO terms point to nuclear RNA processing (mRNA splicing via spliceosome, regulation of alternative splicing, ribosomal subunit export) and transcriptional regulation, with additional terms related to epithelial tissue morphogenesis and ECM organization (collagen fibril organization) and mechanical signaling. This suggests a cohesive theme of RNA processing and gene expression control operant during epithelial morphogenesis, rather than a single metabolic pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":4},{"id":"GO:1903026","count":4},{"id":"GO:0032298","count":4},{"id":"GO:0000398","count":4},{"id":"GO:0002009","count":2}]},{"hash":"589997364408079219","title":"T Cell Activation and Adhesion Signaling","description":"The dominant GO terms relate to T cell costimulation, dendritic cell differentiation, Fc receptor signaling, and cell-cell adhesion, pointing to immune cell activation and intercellular communication. Other terms about heart/multicellular development are broader background signals; overall the cluster centers on adaptive immune signaling and adhesion.","confidence":"Medium","size":20,"edges":13,"triangles":2,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0031295","count":15},{"id":"GO:0007157","count":15},{"id":"GO:2001200","count":12},{"id":"GO:0045163","count":11},{"id":"GO:0007507","count":11}]},{"hash":"407888271786046006","title":"Developmental morphogenesis and cytoskeletal signaling","description":"These proteins cluster around processes of development and cellular architecture: lamellipodium assembly and Rho signaling point to actin remodeling and cell motility; cell morphogenesis and organogenesis terms (heart development, anterior midgut invagination) suggest tissue shaping; peripheral nerve myelination adds neural differentiation context, and negative regulation of synaptic plasticity hints at neural maturation dynamics. Taken together, the shared theme is developmental morphogenesis with cytoskeletal regulation.","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043552","count":6},{"id":"GO:0030032","count":5},{"id":"GO:0007266","count":5},{"id":"GO:0022011","count":5},{"id":"GO:0007375","count":5}]},{"hash":"242759255143408759","title":"Ribosome Biogenesis and Translation","description":"Dominated by ribosome-related processes: ribosome biogenesis, ribosomal subunit export from nucleus, tRNA modification, and cytoplasmic translation, with additional cell cycle/division terms, suggesting a module centered on ribosome assembly and protein synthesis coordinated with cell division.","confidence":"High","size":20,"edges":10,"triangles":10,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007049","count":13},{"id":"GO:0000747","count":12},{"id":"GO:0002181","count":12},{"id":"GO:1901001","count":12},{"id":"GO:0090529","count":12}]},{"hash":"2253819234034564150","title":"Cytosolic Translation Initiation and Ribosome Assembly","description":"The top GO terms cluster around the formation of translation preinitiation complexes, cytoplasmic translation initiation, and ribosome assembly, indicating the proteins mainly function as components of the translation machinery. Some developmental terms are present, likely from multifunctional proteins, but the strongest signal is initiation and assembly of the cytosolic translation apparatus.","confidence":"High","size":20,"edges":37,"triangles":24,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0001541","count":4},{"id":"GO:0043547","count":4},{"id":"GO:1905696","count":3},{"id":"GO:0042256","count":3}]},{"hash":"1093386797881040353","title":"T cell signaling and actin cytoskeleton dynamics","description":"The cluster is driven by actin-related processes such as lamellipodium assembly, actin cortical patch assembly, and cell spreading, alongside immune signaling terms like T cell receptor signaling and adaptive immune response, plus IL-2 production. The presence of peptidyl-tyrosine autophosphorylation and CDK-related activity suggests coordinated signaling cascades that regulate cytoskeletal remodeling during immune activation. Together, these terms point to a module of T cell signaling coupled to actin dynamics.","confidence":"High","size":20,"edges":158,"triangles":687,"max_degree":19,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030032","count":13},{"id":"GO:0045737","count":12},{"id":"GO:0060997","count":12},{"id":"GO:0000147","count":12},{"id":"GO:1900042","count":12}]},{"hash":"1089065935505112129","title":"Neural Development and Synaptic Signaling with Immune Regulation","description":"This cluster centers on neural development and synaptic function (peripheral nervous system development, transmission of nerve impulse, myelination, synapse assembly, hedgehog/smoothened signaling) and includes immune-regulatory GO terms (inhibition of NK cell cytotoxicity, suppression of T cell degranulation), suggesting a core theme of neural signaling with some immune modulation; the presence of symbiont entry into host cell hints at host interaction context.","confidence":"Medium","size":20,"edges":37,"triangles":5,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046718","count":10},{"id":"GO:0007422","count":10},{"id":"GO:0014068","count":10},{"id":"GO:0007224","count":10},{"id":"GO:0045663","count":10}]},{"hash":"788434926445705088","title":"Rho/Rac GTPase-Mediated Migration","description":"The top terms cluster around cytoskeletal remodeling and motility: filopodium assembly, Rac and Rho GTPase signaling, integrin activation, and direct cell migration, with activation of GTPase activity reinforcing the motif. While there is also a hint of vascular remodeling and neutrophil degranulation regulation, the cohesive theme is cytoskeletal dynamics driving cell movement, making a migration-focused label most representative.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0046847","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0060313","count":5},{"id":"GO:0016477","count":5},{"id":"GO:0043314","count":5}]},{"hash":"2260761558171693371","title":"Cardiac calcium signaling and ion transport","description":"Based on the GO terms, the cluster is dominated by calcium release into the cytosol, calcium homeostasis, and transmembrane ion transport (Na+, K+), with several heart-specific processes (relaxation of cardiac muscle, heart morphogenesis). This points to a cohesive theme of calcium-mediated signaling and ion transport governing cardiac function, despite a minor immune-related term that may be incidental. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0051209","count":3},{"id":"GO:0006955","count":3},{"id":"GO:0006874","count":3},{"id":"GO:1903281","count":3},{"id":"GO:1903288","count":3}]},{"hash":"2188000090440140813","title":"Unknown","description":"The top GO terms span several unrelated themes: several catabolic/proteolytic processes (cellulose, lactose via tagatose-6-phosphate, glucosinolate, vacuolar proteolysis, ER-to-cytosol proteolysis) and diverse signaling/developmental processes (brain development, cytokinin signaling, insulin receptor signaling, mitotic cell cycle, regulation of cell shape). The lack of a single cohesive function or pathway makes it inappropriate to assign a precise, representative label.","confidence":"","size":20,"edges":7,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904211","count":3},{"id":"GO:0007039","count":3},{"id":"GO:0007420","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0008360","count":2}]},{"hash":"1080326087131237807","title":"Actin Cytoskeleton Remodeling and Cell Migration Regulation","description":"The cluster\u2019s GO terms cluster around actin-based structures and signaling that control cell movement, including lamellipodium and microspike assembly, and regulation of Rho and Ras pathways. Additional terms point to cytoskeletal roles in neutrophil degranulation, vascular remodeling, and cytokine signaling, all of which reflect dynamic actin remodeling driving cell migration and related signaling processes.","confidence":"High","size":20,"edges":126,"triangles":448,"max_degree":17,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":16},{"id":"GO:0070493","count":14},{"id":"GO:0030032","count":14},{"id":"GO:0030035","count":10},{"id":"GO:0046580","count":9}]},{"hash":"502059581942671831","title":"Neuroimmune development and signaling","description":"This cluster centers on developmental gene regulation (transcription, RNA processing) and signaling (ERK cascade, apoptosis), with tissue-specific development cues for thyroid and thymus and differentiation of myeloid progenitors, plus neural regeneration and synaptic modulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":14},{"id":"GO:0048680","count":13},{"id":"GO:0030878","count":13},{"id":"GO:0048538","count":13},{"id":"GO:0002318","count":13}]},{"hash":"438801145668293336","title":"GABAergic Synapses and Neuronal Signaling","description":"The top GO terms cluster around neural communication and synapse formation, especially GABAergic synaptic transmission, synapse assembly, auditory sensing, and locomotor behavior. This suggests the proteins are involved in synaptic development and function within neural circuits, with Rho signaling and dendritic spine regulation supporting cytoskeletal changes at synapses. While a few terms are broader (e.g., heart development, protein tetramerization), the dominant theme is GABAergic synapse biology and neuronal signaling.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007605","count":9},{"id":"GO:0051932","count":8},{"id":"GO:0007416","count":8},{"id":"GO:0007626","count":8},{"id":"GO:0014068","count":7}]},{"hash":"1824812682955541493","title":"cGMP/cAMP Signaling and Ion Homeostasis","description":"The top terms show strong emphasis on cellular responses to cyclic nucleotides (cGMP, cAMP) and regulation of guanylyl cyclase signaling, alongside ion transport and homeostasis (sodium import, magnesium balance). While there are some development and nervous system terms, the core theme links cyclic-nucleotide signaling with ion regulation, suggesting a cohesive signaling-centered cluster.","confidence":"Medium","size":20,"edges":11,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071321","count":12},{"id":"GO:0098719","count":12},{"id":"GO:0009454","count":12},{"id":"GO:0010754","count":12},{"id":"GO:0071320","count":12}]},{"hash":"1519819737291398748","title":"Steroid and lipid biosynthesis","description":"The top GO terms point to multiple biosynthetic and metabolic processes, especially testosterone biosynthesis and androgen metabolism, along with sphingolipid, retinol, and mycolic acid biosynthesis. This pattern suggests a focus on lipid and steroid metabolism, with some outliers like lung development and an obsolete redox term, indicating a broader metabolic cluster rather than a single precise function. Therefore the label Steroid and lipid biosynthesis captures the central theme.","confidence":"Medium","size":20,"edges":99,"triangles":263,"max_degree":17,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0061370","count":15},{"id":"GO:0008209","count":15},{"id":"GO:0055114","count":13},{"id":"GO:0030324","count":12},{"id":"GO:0042619","count":12}]},{"hash":"1182243124016434278","title":"Vesicle trafficking and membrane transport","description":"The cluster shows strong signals for vesicle trafficking and membrane movement, including ER-to-Golgi vesicle transport, protein localization to endosome, regulation of vacuole organization, phospholipid translocation, and various transmembrane transport activities (xenobiotic, threonine, glutamate). Together these terms point to a cohesive theme of intracellular trafficking and membrane transport, common in eukaryotic systems such as yeast. ","confidence":"High","size":20,"edges":18,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0010570","count":2},{"id":"GO:0070863","count":2},{"id":"GO:0044088","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0045332","count":2}]},{"hash":"974275201371590543","title":"Neural Development and Synapse Organization","description":"Most terms point to nervous system formation and connectivity: neurogenesis, CNS/PNS development, retina morphogenesis, synapse organization, and clustering of voltage-gated sodium channels, together with related developmental terms. Some outliers like kidney development and neutrophil clearance appear but do not dominate. Overall, the cluster centers on neural development and synaptic maturation.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0022008","count":6},{"id":"GO:0045663","count":6},{"id":"GO:0006915","count":5},{"id":"GO:0060060","count":5},{"id":"GO:0007417","count":5}]},{"hash":"1273286780828367839","title":"Endosome-to-lysosome Transport and APP Regulation","description":"The cluster is dominated by GO terms describing transport between Golgi, plasma membrane, endosomes, and lysosomes, as well as protein targeting to lysosome and early endosome localization. There are also terms related to amyloid-beta formation and neurofibrillary tangle regulation, implying a functional theme around endosomal-lysosomal trafficking with relevance to APP processing and Alzheimer\u2019s disease pathology. This makes a cohesive, high-level label: endosome-to-lysosome transport with APP regulation.","confidence":"High","size":20,"edges":102,"triangles":225,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:1902430","count":15},{"id":"GO:0008333","count":8},{"id":"GO:0048227","count":8},{"id":"GO:1902955","count":8},{"id":"GO:1900452","count":8}]},{"hash":"895684516146223589","title":"Transmembrane Transporters","description":"The clustered proteins share a common theme of transporting a wide range of substrates across membranes, including ions (sodium, potassium, phosphate), sugars (sialic acid, arabinose, fucose), vitamins, and xenobiotics, with an additional note on vesicular neurotransmitter loading. This points to a coherent set of membrane transporter proteins rather than a single substrate class.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":8},{"id":"GO:0071805","count":8},{"id":"GO:0015739","count":8},{"id":"GO:0035461","count":7},{"id":"GO:0015751","count":7}]},{"hash":"1516736233576707913","title":"Basophil and Fc Receptor Signaling in Inflammation","description":"The cluster is dominated by GO terms related to basophil activation and Fc-gamma receptor signaling, both key components of immune activation and inflammatory responses. Additional terms point to inflammatory mediator production (arachidonate) and NK cell regulation, suggesting a cohesive theme of immune signaling and inflammation, despite a few developmental or stress-related terms that may be noise. ","confidence":"High","size":20,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045575","count":18},{"id":"GO:0038094","count":18},{"id":"GO:0090403","count":18},{"id":"GO:0071226","count":18},{"id":"GO:0072218","count":18}]},{"hash":"2290822395845710719","title":"Innate Immune Response and Inflammation","description":"GO terms center on phagocytosis recognition, Fc-gamma receptor signaling, basophil activation, and inflammatory responses (arachidonate secretion, response to fungal origin), indicating a shared function in innate immune activation and inflammation. While there are a couple developmental terms (cartilage condensation, metanephric limb development), the immune-related terms dominate the cluster's signature.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001502","count":18},{"id":"GO:0006910","count":18},{"id":"GO:0045575","count":17},{"id":"GO:0038094","count":17},{"id":"GO:0090403","count":17}]},{"hash":"838330637499569437","title":"Embryonic development and morphogenesis","description":"The top GO terms cluster around embryonic development and tissue morphogenesis, including endocrine system development, left-right patterning, mesoderm development, cartilage morphogenesis, palatal roof development, hair follicle morphogenesis, placental and pancreatic cell development. This suggests the proteins participate broadly in embryogenesis and organogenesis across multiple tissues, justifying the label Embryonic development and morphogenesis.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0035270","count":20},{"id":"GO:0003198","count":20},{"id":"GO:0060972","count":20},{"id":"GO:0060806","count":20},{"id":"GO:0060536","count":20}]},{"hash":"372244148884753705","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms cluster around developmental processes across multiple tissues: mesoderm formation, cartilage and hair follicle morphogenesis, heart cushion EMT, left-right patterning, endocrine and pancreatic cell development, and placental-related differentiation. The common theme is broad embryonic tissue morphogenesis and organogenesis rather than a single pathway, indicating this cluster represents general developmental programs.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0035270","count":19},{"id":"GO:0060021","count":19},{"id":"GO:0060536","count":19},{"id":"GO:0003198","count":19},{"id":"GO:0007498","count":19}]},{"hash":"695367895507623726","title":"Neural development and synapse organization","description":"These proteins are enriched for neural development and synaptic organization themes: nervous system development, neurogenesis, and peripheral nervous system development are prominent, along with synapse organization and cell adhesion, which together suggest roles in axon\u2013dendrite connections and synaptic assembly. The presence of terms related to paranode localization and voltage-gated sodium channel clustering points to axon initial segment/paranode\u2013node organization, while Roundabout and Smoothened signaling reflect broader neural patterning cues. Overall, the cluster represents neural development and synaptic/axonal organization functions.","confidence":"High","size":20,"edges":3,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":13},{"id":"GO:0007156","count":13},{"id":"GO:0007157","count":13},{"id":"GO:0050808","count":12},{"id":"GO:0045162","count":12}]},{"hash":"1192418744531984735","title":"Embryonic morphogenesis and organogenesis","description":"The top GO terms point to embryonic development and tissue morphogenesis across multiple organs (roof of mouth development, mesoderm development, hair follicle morphogenesis, endocardial cushion EMT, left-right pattern formation, endocrine system development). A few terms relate to DNA repair or replication, but the dominant function is developmental morphogenesis.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0060021","count":15},{"id":"GO:0007498","count":15},{"id":"GO:0031069","count":15},{"id":"GO:0010957","count":15},{"id":"GO:0035270","count":15}]},{"hash":"1502785786097444923","title":"Unknown","description":"The top GO terms span neuronal signaling (response to amphetamine, dopamine uptake, acetylcholine signaling) and GPCR pathways, but also include immune isotype switching and diverse developmental processes (midgut, ovarian follicle growth, vasoconstriction). The mix of neural signaling with unrelated development and immune terms prevents identifying a single cohesive function or theme for the cluster, so a clear, specific label cannot be assigned.","confidence":"","size":20,"edges":20,"triangles":6,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":20},{"id":"GO:0007497","count":20},{"id":"GO:0050728","count":20},{"id":"GO:1901652","count":20},{"id":"GO:0051586","count":20}]},{"hash":"198481577805245422","title":"Cholinergic and Dopaminergic GPCR Signaling","description":"The prominent GO terms cluster around GPCR-mediated pathways that regulate acetylcholine and dopamine signaling\u2014acetylcholine receptor signaling, acetylcholine metabolism regulation, and dopamine uptake regulation\u2014along with responses to monoamines (e.g., amphetamine). This suggests a coherent theme of neurotransmitter GPCR signaling, despite a few outlier terms that may reflect broader annotations rather than core functions. ","confidence":"High","size":20,"edges":7,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":20},{"id":"GO:0007497","count":20},{"id":"GO:0050728","count":20},{"id":"GO:1901652","count":20},{"id":"GO:0051586","count":20}]},{"hash":"1342467345347893761","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":74,"triangles":154,"max_degree":13,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000472","count":14},{"id":"GO:0000480","count":14},{"id":"GO:0008283","count":14},{"id":"GO:0001731","count":14},{"id":"GO:0002188","count":14}]},{"hash":"195805647184095063","title":"Ribosome biogenesis and translation","description":"The top GO terms are dominated by ribosome biogenesis and ribosomal subunit processes (ribosomal subunit export from nucleus, ribosomal small subunit biogenesis, ribosome biogenesis) along with cytoplasmic translation and tRNA modification, indicating a clear focus on ribosome assembly and protein synthesis. Additional terms relating to cell division and cell cycle likely reflect growth coordination with ribosome production but do not override the central theme of ribosome biogenesis and translation.","confidence":"High","size":19,"edges":44,"triangles":41,"max_degree":12,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":17},{"id":"GO:0000055","count":14},{"id":"GO:0090529","count":12},{"id":"GO:0007049","count":12},{"id":"GO:0002181","count":12}]},{"hash":"1472952500008129653","title":"Stress-Activated Apoptosis and Neural Development Signaling","description":"This cluster centers on stress-induced apoptotic pathways (ER stress, JNK cascade, apoptotic process, DNA damage checkpoints) and neural development processes (forebrain development, synapse assembly), suggesting a theme of how cellular stress signals influence neural development and survival. While mitotic cell cycle terms are present, the most representative terms point to stress-responsive apoptosis intertwined with neural development pathways.","confidence":"High","size":19,"edges":166,"triangles":890,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":15},{"id":"GO:0070059","count":15},{"id":"GO:0000086","count":13},{"id":"GO:0006915","count":13},{"id":"GO:0030900","count":13}]},{"hash":"1450904223794808249","title":"Unknown","description":"The top GO terms span diverse, non-overlapping biological areas (prostate gland development, organ identity maintenance, distal tubule morphogenesis, T cell differentiation, gravitropism, vacuole inheritance, proton transport, etc.), with no clear shared function or pathway tying the proteins together. This breadth suggests there is no cohesive biological theme for this cluster beyond general developmental and cellular processes, so a single representative label cannot be confidently assigned.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060769","count":4},{"id":"GO:0000011","count":3},{"id":"GO:0015991","count":3},{"id":"GO:0048496","count":3},{"id":"GO:0045497","count":3}]},{"hash":"1115319637664078618","title":"Cerebellar microtubule organization and dendritic transport","description":"This cluster is dominated by GO terms linking cerebellar structure (granular and Purkinje cell layer organization) with microtubule dynamics (plus-end depolymerization, spindle assembly/elongation, centrosome separation) and dendritic transport of neurotransmitter receptor complexes, plus adherens junction maintenance and microtubule-based process regulation. The common theme is microtubule-driven organization and transport in cerebellar neurons, with broader microtubule regulation reflected by spindle terms. ","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0070462","count":19},{"id":"GO:0021685","count":19},{"id":"GO:0000022","count":19},{"id":"GO:0090307","count":19},{"id":"GO:0021693","count":19}]},{"hash":"2229499687480336906","title":"Neural and cranial nerve development","description":"The top GO terms cluster around neural development: cerebellum development and brain development (most frequent), plus glossopharyngeal nerve morphogenesis and trigeminal ganglion development, and spinal cord oligodendrocyte cell fate specification. This pattern suggests the proteins in this cluster are involved in neural and cranial nerve formation. A few terms related to other organ development appear, but they seem to be less central to the cluster.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021549","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0060021","count":3},{"id":"GO:0060037","count":3},{"id":"GO:0003350","count":3}]},{"hash":"177646855948978606","title":"Embryonic development and neural differentiation","description":"These terms collectively point to early development and organogenesis, including endocrine and placental development, cartilage formation, heart EMT, left-right axis patterning, pancreatic cell development, and especially neural lineages (neurogenesis and motor neuron fate). The inclusion of lithium ion response aligns with neural signaling/differentiation. Thus, a cohesive label is embryonic development with a focus on neural differentiation.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0060972","count":4}]},{"hash":"1150222578477911678","title":"Ribosome biogenesis and translation","description":"The cluster is enriched for GO terms centered on ribosome assembly and function: ribosomal large subunit export from nucleus, cytoplasmic translation, ribosomal small subunit biogenesis, and tRNA modification. This points to a coherent theme of ribosome biogenesis and protein synthesis. Some cell-cycle and Golgi-related terms are present but appear secondary, so the ribosome-centric interpretation is most representative.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0051645","count":3},{"id":"GO:0090529","count":2}]},{"hash":"2222237803823900971","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by GO terms related to ribosome structure, rRNA maturation, and protein synthesis (translation, cytoplasmic translation, ribosomal subunit assembly/biogenesis, and maturation of 5.8S/LSU rRNA). While a few terms touch on apoptosis and mRNA decay, the strongest recurring themes are ribosome biogenesis and translation, indicating the cluster represents ribosome assembly/translation machinery.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":10},{"id":"GO:0000463","count":4},{"id":"GO:0042273","count":3},{"id":"GO:0006417","count":2},{"id":"GO:0032790","count":2}]},{"hash":"702437542510020360","title":"Embryonic organogenesis and morphogenesis","description":"The terms cluster around embryonic development and morphogenesis across diverse organs (pancreas, neural crest, ureteric bud branching, digestive tract, inner ear/cochlea, palate, cerebellum, forelimb). This points to a cohesive theme of embryonic organ formation and structural shaping, despite no interaction edges highlighted. The transcriptional regulation term likely reflects a common regulatory backdrop in development but does not define the main theme.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0031018","count":15},{"id":"GO:0001755","count":14},{"id":"GO:0090190","count":14},{"id":"GO:0000122","count":14},{"id":"GO:0048557","count":14}]},{"hash":"310998397989662592","title":"Transcriptional Regulation in Immune Differentiation","description":"This cluster is dominated by GO terms linked to DNA-templated transcription and regulation of T cell differentiation (pro-T cell differentiation, memory T cell differentiation, germinal center formation), suggesting proteins involved in transcriptional control during immune cell development; a few terms like circadian rhythm and gravitropism appear peripheral or broader annotations, so the central theme is transcriptional regulation in immune differentiation.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0045497","count":3},{"id":"GO:1900477","count":3},{"id":"GO:2000176","count":3},{"id":"GO:0009958","count":3}]},{"hash":"1702762377778267909","title":"Embryonic Development and Neural Differentiation","description":"This cluster contains GO terms across multiple organ systems (eye, lung, pancreas) and neural lineages (dopaminergic neuron differentiation, habenula development, spinal cord neuron differentiation), all centered on developmental processes and transcriptional regulation. The common theme is broad embryonic development with a focus on neural differentiation, rather than a single pathway or tissue.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043010","count":15},{"id":"GO:0048048","count":14},{"id":"GO:0006366","count":14},{"id":"GO:0060441","count":13},{"id":"GO:0031018","count":12}]},{"hash":"793108414341087825","title":"Neural development and axon guidance","description":"The cluster is enriched for neural development-related terms, including neural tube closure and motor neuron axon guidance, with supporting terms on neurite outgrowth-related processes (lamellipodium assembly, cell-matrix adhesion). While other terms touch on signaling and protein turnover, the neural development signals provide the most cohesive theme, suggesting the proteins collectively participate in neural development and axon guidance, possibly sharing roles in neuronal migration and neurite extension.-confidence: Medium","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000266","count":2},{"id":"GO:0008542","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0030579","count":2},{"id":"GO:0030032","count":2}]},{"hash":"2136680961515630297","title":"Calcium-dependent NFAT/NF-kB signaling and cell cycle regulation","description":"Based on the top GO terms, the cluster is enriched for calcium-dependent signaling pathways (regulation of calcineurin-NFAT signaling, regulation of calcium release from the sarcoplasmic reticulum) and transcription factor activation (NFAT, NF-kB), plus immune receptor signaling (Fc-epsilon receptor) and signals that govern small GTPase activity and mitotic progression (G2/M). This suggests a cohesive theme around calcium-dependent signaling that interfaces with immune signaling and cell cycle control.","confidence":"Medium","size":19,"edges":43,"triangles":34,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051531","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0000086","count":4},{"id":"GO:0038095","count":4}]},{"hash":"362082875221720381","title":"Tissue development and growth regulation","description":"The terms cluster around developmental processes across multiple tissues (lens, pancreas, endothelium, neurons) and include transcriptional regulation, signaling (TGF-beta), growth, and immune signaling. Although diverse, the common theme is tissue differentiation and modulation of growth and signaling pathways, rather than a single biochemical function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0070306","count":4},{"id":"GO:0031018","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0040018","count":4},{"id":"GO:0061028","count":4}]},{"hash":"310036762843631830","title":"Embryonic organogenesis and patterning","description":"The cluster\u2019s top GO terms cluster around embryonic development across multiple organs (placenta, heart, cartilage, pancreas) and patterning (left-right), with related differentiation processes. While some terms are general cellular machinery, the dominant signals indicate embryonic organogenesis and lineage specification.","confidence":"High","size":19,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":11},{"id":"GO:0060707","count":11},{"id":"GO:0003198","count":11},{"id":"GO:0060972","count":11},{"id":"GO:0060806","count":11}]},{"hash":"2160249164369289414","title":"Innate immune signaling and NF-kB regulation","description":"This cluster is dominated by innate immune terms: defense response to Gram-positive bacteria, TLR9 signaling, cellular response to lipopolysaccharide, and macrophage activation, plus negative regulation of canonical NF-kappaB and ERK cascades. The proteasome/ubiquitin-related terms fit NF-kB regulation via protein turnover, while spindle assembly terms may reflect general cell-cycle-linked proteostasis in activated cells. Overall, the proteins likely function in sensing microbes and propagating inflammatory signaling in macrophages.","confidence":"High","size":19,"edges":34,"triangles":23,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090307","count":9},{"id":"GO:0031146","count":9},{"id":"GO:0050830","count":9},{"id":"GO:0043124","count":8},{"id":"GO:0034162","count":8}]},{"hash":"1573110437297240729","title":"Development and cell cycle regulation","description":"The Top Terms include developmental processes (skeletal muscle fiber development, adenohypophysis morphogenesis, cuticle development) alongside cell cycle control (mitotic cell cycle, G2/M transition) and RNA processing (mRNA splicing). Additional signaling and oxidative stress terms (response to cAMP, hydrogen peroxide, superoxide generation) suggest coordinated growth, division, and gene expression regulation. This combination supports labeling as development and cell cycle regulation, though the diversity makes the connection somewhat broad.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0042554","count":2},{"id":"GO:0008365","count":2},{"id":"GO:0031284","count":2}]},{"hash":"5213351949867630","title":"Embryonic development and tissue morphogenesis","description":"Proteins in this cluster are enriched for developmental and morphogenetic processes, including embryonic development, cartilage and heart-related morphogenesis, left-right patterning, and lineage-specific differentiation (pancreatic, placental, trophoblast). While some vesicular/ transcription-related terms appear, the dominant pattern points to early development and tissue patterning as the overarching theme.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0060972","count":3}]},{"hash":"1057602626767940648","title":"Embryonic Development and Organ Morphogenesis","description":"The proteins cluster around diverse developmental and morphogenetic processes spanning multiple tissues (heart, hindlimb, eye, placenta, gonads, habenula, prostate), with transcription by RNA polymerase II suggesting transcriptional regulation during development. This indicates a cohesive theme of embryonic development and organ morphogenesis rather than a single tissue-specific function.","confidence":"High","size":19,"edges":70,"triangles":101,"max_degree":17,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":6},{"id":"GO:0008584","count":6},{"id":"GO:0048048","count":5},{"id":"GO:2000288","count":5},{"id":"GO:0035116","count":5}]},{"hash":"313439431561888122","title":"Developmental Gene Regulation Across Tissues","description":"The top GO terms cluster around broad developmental processes across multiple tissues (nerve, cerebellum, inner ear, thyroid, muscle, fat differentiation) and transcriptional control (DNA-templated transcription), suggesting proteins that regulate differentiation through transcriptional programs in diverse tissues.","confidence":"High","size":19,"edges":7,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008045","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0006351","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0045444","count":5}]},{"hash":"2175005548938543270","title":"CNS neuron development and axon guidance","description":"The cluster is dominated by GO terms tied to neural development and neurite/axon morphogenesis, including neural tube closure, motor neuron axon guidance, CNS neuron development, axon extension, and dendrite morphogenesis, suggesting a shared role in neuronal differentiation and axon pathfinding. Other terms like cell-matrix adhesion and telomere maintenance appear secondary but do not override the neuronal theme.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001843","count":5},{"id":"GO:0008045","count":5},{"id":"GO:0032436","count":5},{"id":"GO:0060396","count":5},{"id":"GO:0007160","count":5}]},{"hash":"1835135331075243675","title":"Unknown","description":"The top GO terms are highly diverse: DNA replication; T cell receptor signaling; VEGF receptor signaling; visual learning; regulation of telomere maintenance via telomerase and telomere capping; ERK1/ERK2 cascade; cellular response to cadmium; innate immune response; and an obsolete NF-kappaB regulatory term. This spread suggests no single dominant function linking the proteins; they appear to be involved in varied signaling, cell-cycle, immune, and stress responses. Therefore I label this cluster Unknown with no confidence in a shared theme.","confidence":"","size":19,"edges":15,"triangles":3,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0050852","count":5},{"id":"GO:0048010","count":5},{"id":"GO:0008542","count":5},{"id":"GO:0032212","count":5}]},{"hash":"1568471954590411799","title":"RNA silencing machinery and antiviral defense","description":"This cluster centers on RNA interference and small RNA pathways, with GO terms for mRNA processing, siRNA/miRNA processing, and regulation of translation and miRNA metabolism. It also includes innate immune and antiviral regulatory terms, suggesting a cohesive RNA silencing\u2013based gene regulation and antiviral defense function. A few terms like facial nerve morphogenesis may be incidental.","confidence":"High","size":19,"edges":65,"triangles":114,"max_degree":10,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0006397","count":6},{"id":"GO:0030423","count":5},{"id":"GO:0010998","count":5},{"id":"GO:2000628","count":5},{"id":"GO:0021610","count":5}]},{"hash":"404472879963558289","title":"Vertebrate Embryonic Development and Morphogenesis","description":"This cluster's top GO terms cluster around embryonic development and tissue morphogenesis, including heart-related endocardial cushion formation, mesoderm and palate development, hair follicle morphogenesis, and left-right patterning. A couple terms pertain to general cellular processes (ribosomal export, transcriptional regulation), but the dominant theme is vertebrate embryogenesis and morphogenesis.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":4},{"id":"GO:0060536","count":3},{"id":"GO:0000055","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0060021","count":2}]},{"hash":"239559908339634176","title":"Developmental Signaling and Cell Cycle Regulation","description":"The terms point to roles in development and signaling (neural tube closure; dendritic spine morphogenesis; VEGF signaling; Wnt signaling; leukocyte chemotaxis) and in cell cycle/DNA damage responses (spindle-kinetochore attachment; intra-S checkpoint). This mix suggests proteins coordinating developmental signaling with cell division and cellular stress responses.","confidence":"Medium","size":19,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051316","count":19},{"id":"GO:0001843","count":19},{"id":"GO:0060997","count":19},{"id":"GO:0002688","count":19},{"id":"GO:0048010","count":19}]},{"hash":"1557717619115876443","title":"Ribosome Biogenesis and Translation Initiation","description":"These proteins show strong enrichment for cytoplasmic translation and ribosome-related processes, including export of ribosomal subunits from the nucleus, small subunit biogenesis, formation of the translation preinitiation complex, and regulation of translational initiation. Additional cell-cycle terms exist but the core theme centers on ribosome assembly and translation control, reflecting a cohesive translational machinery cluster.","confidence":"High","size":19,"edges":127,"triangles":430,"max_degree":18,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0002181","count":4},{"id":"GO:0000055","count":3},{"id":"GO:0042274","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0006446","count":3}]},{"hash":"726935467618139832","title":"Neuronal actin remodeling and spine morphogenesis","description":"The cluster strongly emphasizes actin cytoskeleton dynamics (actin cortical patch assembly, actin filament organization), membrane remodeling (plasma membrane tubulation), and signaling via small GTPases (Rho pathways). These processes underpin dendritic spine morphogenesis and synaptic plasticity, including long-term synaptic depression, with hints of neuron-type specificity (striatial medium spiny neuron differentiation). Together, they point to neuronal actin remodeling driving spine formation and synaptic plasticity.","confidence":"High","size":19,"edges":160,"triangles":837,"max_degree":18,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0000147","count":18},{"id":"GO:0097320","count":18},{"id":"GO:0050731","count":18},{"id":"GO:0007015","count":18},{"id":"GO:0035023","count":18}]},{"hash":"1794976481202170355","title":"Stress-induced Autophagy and Apoptosis Regulation","description":"This cluster is dominated by GO terms pointing to autophagy activation and apoptotic signaling, including positive regulation of autophagy, autophagic cell death, and positive regulation of apoptotic signaling, alongside cellular stress responses to agents like methyl methanesulfonate, ethanol, and hydroperoxide. While a couple terms touch on differentiation, the common theme ties to how cells regulate autophagy and apoptosis under stress.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072703","count":1},{"id":"GO:1903828","count":1},{"id":"GO:2001235","count":1},{"id":"GO:0048102","count":1},{"id":"GO:0045893","count":1}]},{"hash":"573068626369956389","title":"Unknown","description":"The top GO terms span heart and salivary gland development, immune signaling, vision, epithelial transport, pH response, iron transport, and cell volume regulation, with almost no shared function linking them. The cluster also has very low connectivity (one edge, no triangles), suggesting a diffuse or heterogeneous set of proteins rather than a coherent, single-function group.","confidence":"","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0006958","count":5},{"id":"GO:0048168","count":4},{"id":"GO:0038095","count":4},{"id":"GO:0007601","count":4}]},{"hash":"2263429535887125982","title":"Craniofacial development and morphogenesis","description":"This cluster is enriched for embryonic craniofacial development terms, including roof of mouth development, cartilage morphogenesis, and viscerocranium morphogenesis, plus primitive streak formation. These shared functions indicate a coherent developmental program governing craniofacial structure formation, with some ancillary transcriptional regulation signals present.","confidence":"High","size":19,"edges":71,"triangles":106,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0060536","count":5},{"id":"GO:2000311","count":4},{"id":"GO:0090009","count":4},{"id":"GO:0048703","count":4}]},{"hash":"1092300087071791854","title":"Embryonic development and morphogenesis","description":"The cluster\u2019s GO terms converge on developmental processes (nervous system development, skeletal system development, lateral mesoderm fate, convergent extension) and processes involved in tissue patterning and morphogenesis (cell-matrix adhesion, synapse assembly, ERK signaling). While there is a broader endocrine term (parathyroid hormone secretion), the dominant theme is embryonic development and tissue formation, supported by signaling pathways that shape development.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:2000830","count":7},{"id":"GO:0048378","count":7},{"id":"GO:0007160","count":7},{"id":"GO:0060026","count":7},{"id":"GO:0007399","count":7}]},{"hash":"1848964460951269821","title":"Sphingolipid and Phospholipid Metabolism","description":"The cluster\u2019s top GO terms cluster around lipid metabolism and signaling, especially sphingolipid pathways (sphingosine and sphinganine-1-phosphate metabolism) and phospholipid turnover (phospholipid catabolic and dephosphorylation) along with very long-chain fatty acid biosynthesis. This pattern points to a cohesive function in lipid biosynthesis and lipid-mediated signaling, with some broader metabolic context suggested by glucose-6-phosphate transport and oxidative detoxification. High","confidence":"","size":19,"edges":163,"triangles":841,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0042761","count":6},{"id":"GO:0009395","count":4},{"id":"GO:1902068","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0015760","count":4}]},{"hash":"640288583498451062","title":"Rho/Rac-driven actin remodeling and cell migration","description":"Predominant terms center on Rho family GTPase signaling (Rho, Rac) controlling actin cytoskeleton organization, lamellipodium assembly, and cell migration. Additional signals for insulin receptor pathways and tissue development appear but are likely secondary, consistent with broader roles in cell adhesion and morphogenesis. Overall, this cluster reflects Rho/Rac-regulated cytoskeletal remodeling and motility.","confidence":"High","size":19,"edges":3,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":13},{"id":"GO:0030032","count":12},{"id":"GO:0007507","count":12},{"id":"GO:0007264","count":11},{"id":"GO:0032287","count":11}]},{"hash":"249479495302360972","title":"Neuronal development and endosomal trafficking","description":"The cluster\u2019s GO terms cluster around neural development and vesicle/endosome biology, including neuronal-glial adhesion and radial glial migration, synaptic transmission, and endosomal transport with vacuolar ATPase activity. While terms like angiogenesis and collagen metabolism appear, the strongest signals point to neural development coupled with vesicle trafficking and signaling pathways (e.g., JUN phosphorylation). Thus, a label emphasizing neuronal development aligned with endosomal/vesicle trafficking best captures the cluster\u2019s common theme.","confidence":"Medium","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":2},{"id":"GO:0007268","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0007035","count":1},{"id":"GO:0070072","count":1}]},{"hash":"2102754962489264319","title":"Retroviral Integration and Latency","description":"The cluster centers on retroviral activity: DNA-templated transcription, DNA integration, and establishment of integrated proviral latency, with accompanying viral release from host cells. Ubiquitin-dependent protein catabolic processes and negative regulation of JNK activity point to virus\u2013host interaction and modulation of host pathways, while some developmental terms appear as noise. Overall, the pattern is most consistent with retroviral lifecycle and latency processes.","confidence":"Medium","size":19,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0019076","count":3},{"id":"GO:0039651","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0015074","count":3}]},{"hash":"1494072255729388543","title":"Cardiac and skeletal muscle assembly and contraction","description":"GO terms in this cluster cluster around heart and muscle biology, including cardiac muscle contraction, cardiac myofibril assembly, adult heart development, T-tubule organization, and skeletal muscle thin filament assembly. While a few terms refer to other processes, the predominant theme is muscle assembly and contractile machinery in heart and skeletal muscle, justifying this label.","confidence":"Medium","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032608","count":1},{"id":"GO:0007288","count":1},{"id":"GO:0050910","count":1},{"id":"GO:0007291","count":1},{"id":"GO:0060048","count":1}]},{"hash":"1749845542258240829","title":"Embryonic Morphogenesis Across Tissues","description":"The top GO terms point to developmental morphogenesis and organ formation across diverse tissues (bone ossification, cartilage morphogenesis, corticospinal tract development, left-right patterning, endocrine organ formation, heart cushion EMT, placental and pancreatic development, and cell-cell junction organization). This suggests a cluster of proteins involved in broad embryonic development and tissue morphogenesis rather than a single pathway, hence the label.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021957","count":4},{"id":"GO:0043931","count":4},{"id":"GO:0035270","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0003198","count":3}]},{"hash":"262974004567571948","title":"Rab/Rap GTPase signaling and endosomal transport","description":"This cluster is enriched for GO terms on Rab and Rap GTPase signaling and vesicle trafficking between the plasma membrane, endosomes, and Golgi, indicating a module of endosomal transport regulation. A subset of terms also points to thymic development and T cell selection, suggesting possible immune-related roles or shared trafficking mechanisms. Overall, the dominant theme is Rab/Rap-mediated vesicular transport.","confidence":"Medium","size":19,"edges":22,"triangles":3,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0032483","count":4},{"id":"GO:0032486","count":4},{"id":"GO:0048227","count":3},{"id":"GO:0034499","count":3},{"id":"GO:0097536","count":2}]},{"hash":"2179900449680719711","title":"Embryonic and Organ Development","description":"These proteins are associated with diverse developmental processes across many tissues (cerebellum, forebrain, heart, skeletal muscle, placenta, inner ear, thyroid, embryonic skeleton). This suggests a general role in embryonic organ and tissue development (organogenesis) rather than a single tissue-specific function.","confidence":"High","size":19,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0021549","count":4},{"id":"GO:0048839","count":4},{"id":"GO:0030878","count":4},{"id":"GO:0008045","count":4},{"id":"GO:0007275","count":4}]},{"hash":"696557407835405346","title":"Neural development and axon guidance","description":"This cluster is dominated by GO terms tied to nervous system development and neural pathfinding, including nervous system development, smoothened signaling (Shh) pathway, myelination, various axon guidance signals (semaphorin-plexin, branchiomotor neuron guidance, sympathetic neuron guidance/extension), and neural crest cell migration, all pointing to coordinated neuronal development and circuit wiring. A single outlier term about symbiont entry into host cells appears but does not negate the central neural theme.","confidence":"High","size":19,"edges":114,"triangles":475,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":8},{"id":"GO:0007224","count":7},{"id":"GO:0001822","count":7},{"id":"GO:0042552","count":7},{"id":"GO:1902287","count":6}]},{"hash":"1140832292394302556","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":135,"triangles":530,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0061621","count":7},{"id":"GO:0005980","count":6},{"id":"GO:0046835","count":6},{"id":"GO:0006002","count":6},{"id":"GO:0093001","count":6}]},{"hash":"54055337054407449","title":"Diverse catabolic metabolism","description":"The cluster\u2019s GO terms cluster around various substrate degradation processes, including triglyceride, uracil, prostaglandin, glucuronoside, and alkaloid catabolism, as well as pathways like the beta-ketoadipate/aromatic compound degradation and nitrogen utilization. While a single cohesive pathway isn\u2019t evident, the common theme is broad catabolic metabolism across diverse chemical classes, with a few development-related terms present but not dominant. ","confidence":"Medium","size":19,"edges":54,"triangles":61,"max_degree":15,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0019433","count":13},{"id":"GO:0055114","count":9},{"id":"GO:0006212","count":7},{"id":"GO:1905344","count":7},{"id":"GO:0010223","count":7}]},{"hash":"401902328396988834","title":"Neuronal Synaptic Transmission and Plasticity","description":"GO terms in this cluster converge on neural neurotransmitter release, synaptic signaling regulation, and spine maintenance, including dense core granule maturation, monoamine transport, long-term synaptic depression, and actin-cytoskeleton remodeling via Arp2/3. Together these indicate functions centered on neuronal communication and synaptic plasticity.","confidence":"High","size":19,"edges":112,"triangles":321,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:1990502","count":3},{"id":"GO:0060292","count":3},{"id":"GO:0046928","count":3},{"id":"GO:0034316","count":3},{"id":"GO:0015844","count":3}]},{"hash":"2047294030174067852","title":"Teichoic acid biosynthesis and bacterial cell wall glycosylation","description":"The cluster is dominated by GO terms for cell wall organization, teichoic acid biosynthesis, arabinan/arabinose metabolism, and O-linked glycosylation, all pointing to a Gram-positive bacterial cell envelope program involving glycosylation and teichoic acid assembly.","confidence":"High","size":19,"edges":40,"triangles":31,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":13},{"id":"GO:0016266","count":13},{"id":"GO:0031221","count":12},{"id":"GO:0019350","count":12},{"id":"GO:0046373","count":12}]},{"hash":"127839882763081403","title":"Lung vascular development and ECM remodeling","description":"This cluster is enriched for GO terms tied to blood vessel formation and endothelial regulation (angiogenesis, negative regulation of endothelial chemotaxis), together with extracellular matrix organization (collagen fibril organization) and lung development. The inclusion of complement activation and membrane attack complex regulation suggests an immune-vascular remodeling context, aligning with tissue development and remodeling in the lung.","confidence":"High","size":19,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:2001027","count":12},{"id":"GO:0051965","count":12},{"id":"GO:0030324","count":11},{"id":"GO:0030199","count":11},{"id":"GO:0010751","count":11}]},{"hash":"1995737827329245065","title":"Unknown","description":"The top GO terms span erythrocyte differentiation, bone morphogenesis/mineralization, immune responses (interferon-beta, biotic stimulus), intracellular trafficking (endosome-to-plasma membrane transport), and other diverse processes like insulin-stimulated glucose uptake and synaptic vesicle clustering, with no single unifying function. This dispersion suggests the proteins do not share a coherent biological theme, so an Unknown label with no confidence is appropriate.","confidence":"","size":19,"edges":11,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030218","count":2},{"id":"GO:0055072","count":2},{"id":"GO:0044381","count":2},{"id":"GO:0099638","count":2},{"id":"GO:0097091","count":2}]},{"hash":"140362635669304864","title":"Neural Development and Synaptic Adhesion","description":"This cluster is dominated by terms for nervous system development, cell adhesion (homophilic and heterophilic), and positive regulation of synapse assembly, plus axon extension and retina morphogenesis, pointing to a module involved in neural wiring and synaptic connectivity. The adhesion and synapse-related terms together strongly support a neural development theme; an outlier term about virion attachment is likely incidental. ","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0007156","count":9},{"id":"GO:0051965","count":9},{"id":"GO:0007157","count":9},{"id":"GO:0038091","count":8}]},{"hash":"1473726101927015509","title":"Gut Mucosal Immunity and Epithelial Barrier","description":"The top GO terms cluster around innate immune defense, T cell signaling (proliferation, CCR7), and immunoglobulin transport at the intestinal epithelium, plus maintenance of GI epithelium and cell junction localization. Also present are host\u2013microbe interaction terms (virion attachment, symbiont entry) and ion transporter regulation, all pointing to a cohesive theme of mucosal immunity linked to epithelial barrier integrity in the gut.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:2000649","count":14},{"id":"GO:0030277","count":13},{"id":"GO:0046814","count":13},{"id":"GO:0042102","count":13},{"id":"GO:1903082","count":13}]},{"hash":"1578961346572037305","title":"Organogenesis Across Tissues","description":"The GO terms point to developmental and morphogenetic processes across different tissues (lung, skeletal cartilage, nervous system, heart, vasculature) and even insect wing patterning, indicating a shared theme of organogenesis and tissue differentiation rather than a single pathway.","confidence":"High","size":19,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030324","count":2},{"id":"GO:0060591","count":2},{"id":"GO:0001502","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0045879","count":1}]},{"hash":"786619543256128018","title":"Neural development and axon guidance","description":"Top GO terms cluster around nervous system development, synapse assembly, and cell\u2013cell adhesion (both homophilic and heterophilic), plus anterior/posterior axon guidance, indicating a cohesive theme of neural connectivity formation. Some terms relating to kidney development and immune regulation appear but are likely secondary or due to multifunctional genes. Overall, the cluster is best described by neural development and axon guidance.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":16},{"id":"GO:0051965","count":16},{"id":"GO:0007157","count":16},{"id":"GO:0007156","count":16},{"id":"GO:0033564","count":15}]},{"hash":"575526382880374213","title":"Fc\u03b3R-Driven Basophil Activation","description":"Based on the top GO terms, the cluster is dominated by basophil activation and Fc-gamma receptor signaling, indicating Fc receptor\u2013mediated immune activation. Other immune-related terms (NK cell regulation, fungal-origin responses) support an overall immune activation theme, with a few outliers in development or stress pathways.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045575","count":18},{"id":"GO:0038094","count":18},{"id":"GO:0090403","count":18},{"id":"GO:0071226","count":18},{"id":"GO:0072218","count":18}]},{"hash":"592785164425420058","title":"Neuronal development and signaling","description":"This cluster centers on neural-related processes: myelination, nerve impulse transmission, synaptic plasticity, sensory perception of sound, and substantia nigra development, pointing to neuronal development and signaling as the core theme. Some immune/apoptotic terms appear but do not dominate the set, so the neural theme remains primary. ","confidence":"Medium","size":19,"edges":93,"triangles":173,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042552","count":8},{"id":"GO:0070830","count":4},{"id":"GO:0019226","count":4},{"id":"GO:0001766","count":3},{"id":"GO:0035208","count":3}]},{"hash":"488068005647317830","title":"Vascular Endothelial Tight Junction and Ion Transport","description":"The cluster centers on endothelial barrier function, with strong signals for bicellular tight junction assembly and its positive regulation, plus multiple ion transmembrane transport terms (Na+, Ca2+, K+). This points to a shared role in maintaining vascular endothelial integrity and ion homeostasis, complemented by immune-related signals (T cell cytotoxicity) and virus-host interactions that may reflect immune context or infection-related processes. Overall, the core theme is endothelial barrier maintenance with associated ion transport.","confidence":"Medium","size":19,"edges":158,"triangles":776,"max_degree":18,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0070830","count":10},{"id":"GO:0035725","count":9},{"id":"GO:0070588","count":9},{"id":"GO:0071805","count":9},{"id":"GO:0043534","count":8}]},{"hash":"170863834753928566","title":"Mitochondrial transport and membrane dynamics","description":"This cluster is dominated by GO terms for mitochondrial transport (ADP, ornithine, manganese) and mitochondrial membrane processes (fission, permeability regulation, apoptotic changes) plus oxidative stress response, indicating a mitochondria-centric function. Some terms like female pregnancy and insulin secretion regulation appear incidental.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0015709","count":18},{"id":"GO:0015866","count":18},{"id":"GO:0007565","count":18},{"id":"GO:0000066","count":18},{"id":"GO:0000303","count":18}]},{"hash":"657195069622211804","title":"Developmental and motor-system proteins with microtubule localization","description":"The top GO terms cluster around developmental processes such as corticospinal tract morphogenesis, multicellular organism development, ossification, and muscle contraction, suggesting a broad role in development and motor function. The repeated reference to protein localization to microtubules points to a cytoskeletal connection, which commonly underpins cell shape, migration, and muscle/nervous system functions. While some transport-related terms appear, they are less central, so the dominant theme is developmental and motor biology with cytoskeletal involvement.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021957","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0035372","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0007275","count":3}]},{"hash":"1501412503675479100","title":"T Cell Activation and Immune Synapse Regulation","description":"This cluster is enriched for terms related to T cell signaling and activation (positive regulation of T cell proliferation, T cell costimulation) and modulation of cytotoxic functions (negative regulation of cytotoxic T cell degranulation, NK cell cytotoxicity), as well as cell adhesion and immune synapse assembly. Together, these terms point to proteins involved in T cell activation and the formation of immune synapses with other cells, reflecting coordinated immune communication. A couple of terms about symbiont entry and AV node adhesion are less central but do not outweigh the dominant immune activation theme.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042102","count":13},{"id":"GO:0046718","count":13},{"id":"GO:0043031","count":13},{"id":"GO:0002859","count":13},{"id":"GO:0043318","count":13}]},{"hash":"1387605489435687247","title":"Axon guidance and neural morphogenesis","description":"The top GO terms overwhelmingly point to neural development and connectivity, including axon extension/regeneration, semaphorin-plexin signaling for axon guidance, olfactory nerve formation, and retina morphogenesis. While a few terms touch broader morphogenesis or pigmentation-related processes, the core signal is neural patterning and axon pathfinding, making this label representative of the cluster\u2019s function.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0038091","count":18},{"id":"GO:0048691","count":18},{"id":"GO:0060445","count":18},{"id":"GO:0007610","count":18},{"id":"GO:0097326","count":18}]},{"hash":"1741739219430589742","title":"Craniofacial morphogenesis and secretory trafficking","description":"The cluster is enriched for developmental terms related to craniofacial structures (roof of mouth development, embryonic neurocranium morphogenesis, lung lobe morphogenesis) alongside secretory pathway processes (COPII vesicle coating, ER to Golgi vesicle-mediated transport) and extracellular matrix secretion. This suggests proteins that coordinate tissue morphogenesis with secretion and trafficking. The presence of an immune-related term (antigen processing and presentation via MHC II) is less central and may reflect annotation noise or broader secretory roles. Overall, the dominant theme is morphogenesis linked to secretory trafficking.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060021","count":19},{"id":"GO:0006886","count":19},{"id":"GO:0060463","count":19},{"id":"GO:0019886","count":19},{"id":"GO:0048081","count":19}]},{"hash":"2064816677873072148","title":"Dopamine and Acetylcholine GPCR Signaling","description":"The top GO terms emphasize neurotransmitter signaling through GPCRs, including dopamine uptake regulation and acetylcholine receptor signaling, along with related pathways like cAMP signaling and vasoconstriction. This points to a coherent theme of neuroendocrine signaling and modulation, despite a few outliers in development or immune terms. ","confidence":"Medium","size":19,"edges":81,"triangles":287,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":19},{"id":"GO:0007497","count":19},{"id":"GO:0050728","count":19},{"id":"GO:1901652","count":19},{"id":"GO:0051586","count":19}]},{"hash":"444822596965353454","title":"Rho GTPase\u2013driven cell migration and polarity","description":"This cluster is dominated by GO terms tied to cell movement and cytoskeletal regulation: cell migration, small GTPase\u2013mediated signaling, positive regulation of GTPase activity, podosome assembly, and establishment of epithelial cell polarity. The combination of GTPase signaling and actin-related processes (podosomes, dendritic spine development) plus trafficking-related terms (endosome\u2013lysosome transport, calcium-dependent exocytosis) suggests a cohesive role in actin remodeling and membrane dynamics during migration and polarity establishment. Therefore, a label emphasizing Rho-family GTPase\u2013driven migration and polarity fits well, with a reasonable but not absolute confidence given some peripheral terms.","confidence":"Medium","size":18,"edges":11,"triangles":4,"max_degree":4,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0016477","count":11},{"id":"GO:0007264","count":10},{"id":"GO:0071803","count":10},{"id":"GO:0045956","count":10},{"id":"GO:0043547","count":10}]},{"hash":"460037164436992453","title":"RNA Splicing Regulation and mRNA Processing","description":"Proteins in this cluster are enriched for spliceosome-based mRNA splicing (both positive and negative regulation), plus related steps like mRNA export and regulation of transcription by RNA Pol II, indicating a core theme of RNA processing and gene-expression control at the post-transcriptional level.","confidence":"Medium","size":18,"edges":20,"triangles":8,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":4},{"id":"GO:0006378","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0048025","count":4}]},{"hash":"140203172987655090","title":"Drosophila oogenesis and early embryogenesis","description":"The top GO terms strongly point to egg chamber development and germline organization (follicle cells, germarium-derived cyst encapsulation), as well as early embryonic events (syncytial nuclear migration, preblastoderm cell cycle regulation). While some hematopoietic differentiation terms appear, the dominant theme is oogenesis and early embryo formation in Drosophila, making this a specific and representative label.","confidence":"High","size":18,"edges":151,"triangles":785,"max_degree":17,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":11},{"id":"GO:0048635","count":9},{"id":"GO:0043249","count":9},{"id":"GO:0030713","count":9},{"id":"GO:0035190","count":9}]},{"hash":"1833471340554706353","title":"Ubiquitination-Driven Mitosis and Cytoskeleton Dynamics","description":"The cluster centers on ubiquitin-related processes (polyubiquitination, ERAD) alongside mitotic/cell division terms (mitotic cell cycle, spindle assembly) and cytoskeletal remodeling (actin depolymerization, cilium assembly), with regulators in GTPase signaling and TORC1 pathways. This suggests a cohesive theme where ubiquitin-mediated proteostasis intersects with cell division and cytoskeletal/ciliary dynamics.","confidence":"High","size":18,"edges":35,"triangles":12,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030433","count":7},{"id":"GO:0051260","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0043547","count":6}]},{"hash":"1151043017932700282","title":"Neurodevelopment and Cytoskeleton Dynamics","description":"The top GO terms show strong signals for neural development (neural tube closure, forebrain development) alongside cytoskeleton regulation (Rho signaling, microtubule severing, actin cytoskeleton reorganization). This suggests a coherent cluster of proteins involved in neuronal development in concert with cytoskeletal remodeling and signaling. While other terms indicate broader development and transcription, the dominant theme is neurodevelopment linked to cytoskeletal dynamics.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001843","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0045736","count":3},{"id":"GO:2000727","count":3},{"id":"GO:0031532","count":3}]},{"hash":"586819960428702788","title":"Epithelial Junctions and Neuronal Maturation","description":"The top GO terms point to epithelial polarity and cell-cell adhesion (apical junction assembly, epithelial cell\u2013cell adhesion, apical protein localization, Rab signaling) together with neuronal development and maturation (negative regulation of axonogenesis, positive regulation of dendritic spine development, regulation of neuron maturation). This suggests a shared theme around epithelial junctional machinery interfacing with neuronal development programs, with the liver development term possibly reflecting broader developmental roles in this protein set. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050771","count":12},{"id":"GO:0001889","count":12},{"id":"GO:0043297","count":12},{"id":"GO:0051291","count":12},{"id":"GO:0032482","count":12}]},{"hash":"393830606838257418","title":"Cardiac sarcomere organization and contraction","description":"The proteins in this cluster show strong enrichment for sarcomere organization and cardiac muscle contraction, with multiple terms such as GO:0045214 (sarcomere organization), GO:0060298 (positive regulation of sarcomere organization), and GO:0060048 (cardiac muscle contraction). Additional terms related to heart rate regulation by epinephrine and vascular smooth muscle cell dynamics support a cohesive role in heart muscle function and associated vascular control. A single outlier term (spicule insertion) may reflect annotation noise rather than a true biology signal. Overall, the cluster appears to represent cardiac muscle structural and contractile machinery. ","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0060298","count":18},{"id":"GO:0060048","count":18},{"id":"GO:1904706","count":18},{"id":"GO:0045214","count":18},{"id":"GO:0003065","count":18}]},{"hash":"352092473830624377","title":"Neurodevelopment and branching morphogenesis","description":"The top GO terms point to neural development (short-term memory, neuropeptide catabolic process, neural precursor proliferation, Wnt signaling) and to organ morphogenesis, especially lung epithelial tube branching and terminal unit subdivision. Some terms reflect broader developmental remodeling (ossification, decidualization) but the shared theme is developmental processes with a neural and branching/morphogenetic emphasis.","confidence":"Medium","size":18,"edges":38,"triangles":69,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007614","count":9},{"id":"GO:0060441","count":8},{"id":"GO:0010813","count":8},{"id":"GO:2000179","count":8},{"id":"GO:0060448","count":8}]},{"hash":"1533381550757355957","title":"Inflammatory and apoptotic stress signaling","description":"GO terms indicate immune/stress responses (TNF and LPS signaling, IFN production) combined with extrinsic/apoptotic pathways (extrinsic signaling, execution phase), plus DNA damage response and transcriptional changes (X-ray, transcription). This suggests a module where inflammatory signaling interfaces with programmed cell death under stress.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0010165","count":4},{"id":"GO:0034612","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0043029","count":3},{"id":"GO:0097192","count":3}]},{"hash":"1536950404814516295","title":"Multi-tissue Developmental Morphogenesis","description":"The GO terms point to morphogenesis and development across diverse tissues\u2014mammary gland branching, heart development, mesoderm formation, and neuron maturation/fasciculation\u2014plus general transcription and innate immunity. No single dominant function stands out, suggesting a cluster of genes involved in broad developmental regulation rather than a single pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060444","count":3},{"id":"GO:0097156","count":3},{"id":"GO:0045071","count":3},{"id":"GO:0060044","count":3},{"id":"GO:0014043","count":3}]},{"hash":"402691148254393107","title":"Cross-Tissue Developmental Processes","description":"The top GO terms point to broad developmental roles across different tissues and stages (e.g., brown fat differentiation, roof of mouth development, forelimb morphogenesis, uterus development, endocrine system development, forebrain proliferation, and visual perception), suggesting a general theme of developmental biology rather than a single, cohesive pathway. Some outliers (ribosomal export, pollen sperm differentiation) indicate heterogeneity, but the common thread is developmental processes in multiple tissues.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050873","count":4},{"id":"GO:0060021","count":3},{"id":"GO:0035115","count":3},{"id":"GO:0060065","count":3},{"id":"GO:0021846","count":3}]},{"hash":"250425262915510914","title":"Neural Development and Brain Region Specification","description":"The cluster's top GO terms are centered on neural development: oligodendrocyte and motor neuron fate specification in spinal cord, differentiation of GABAergic interneurons in the cerebral cortex, and development of cerebellum and other brain regions, indicating a shared function in CNS patterning and neuronal differentiation. A few terms relate to broader organogenesis (endocrine pancreas development, odontogenesis, cardiac neural crest migration), but these are less represented. Overall, the predominant theme is neural development and brain region specification.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021530","count":9},{"id":"GO:0031018","count":9},{"id":"GO:0060435","count":9},{"id":"GO:0060163","count":9},{"id":"GO:0006366","count":9}]},{"hash":"1413013217986980116","title":"Developmental Chromatin Regulation","description":"The terms cluster around chromatin and nuclear regulation (kinetochore assembly, chromatin binding regulation, desumoylation/deneddylation, DNA endoreduplication regulation) alongside development-related processes (placental layers like spongiotrophoblast and labyrinthine layer, erythrocyte differentiation, pronephric duct development). This suggests a set of proteins coordinating chromatin dynamics and cell cycle control during embryonic/placental development. ","confidence":"Medium","size":18,"edges":39,"triangles":29,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0032875","count":2},{"id":"GO:0060712","count":2},{"id":"GO:0090234","count":2},{"id":"GO:1904333","count":2},{"id":"GO:0016926","count":2}]},{"hash":"2116485572236946657","title":"Mitotic regulation and gene expression","description":"This cluster combines terms tied to cell cycle control (mitotic cell cycle, spindle checkpoint deactivation, SCF-dependent proteasomal degradation) with broad gene-expression processes (DNA-templated transcription, RNA polymerase III transcription regulation, mRNA splicing, rRNA maturation) and developmental growth signals, suggesting a cohesive role in coordinating cell division with transcriptional and RNA processing activities.","confidence":"Medium","size":18,"edges":69,"triangles":107,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0000466","count":3},{"id":"GO:0045945","count":3},{"id":"GO:0008584","count":3}]},{"hash":"1830453887735239341","title":"Ribosome biogenesis and translation","description":"This cluster centers on ribosome-related processes: translation in the cytoplasm, ribosome biogenesis, and maturation of rRNA, including SSU and LSU, plus initiation/termination steps, indicating a cohesive ribosomal machinery module.","confidence":"High","size":18,"edges":151,"triangles":784,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0000027","count":4},{"id":"GO:0006415","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0000462","count":2}]},{"hash":"1164154853255502131","title":"Actin Cytoskeleton Remodeling and Endocytosis","description":"This cluster is enriched for actin-related processes (actin cytoskeleton organization, Arp2/3 regulation, actin filament depolymerization, actin cortical patch assembly) and endocytic/vesicular trafficking terms (endocytosis, intracellular transport, protein targeting to vacuole, GTPase/Rho signaling). The convergence on actin dynamics and membrane trafficking suggests a cohesive role in remodeling the cytoskeleton to drive endocytosis and vesicle transport.","confidence":"High","size":18,"edges":64,"triangles":114,"max_degree":14,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006897","count":4},{"id":"GO:0006623","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0030836","count":4},{"id":"GO:0006886","count":3}]},{"hash":"1179148018454383615","title":"Rho-Regulated Synaptic Plasticity","description":"Most terms point to neuronal signaling and plasticity, notably negative regulation of synaptic plasticity, long-term potentiation, and glutamatergic transmission, together with regulation of Rho signaling and GTPase activity. This suggests a core theme of synaptic signaling and cytoskeletal remodeling driven by Rho-family GTPases. Some terms (B cell receptor signaling, mitotic cell cycle, abscisic acid\u2013activated signaling) are less directly connected and may reflect cross-annotation or broader signaling roles, but the dominant pattern supports a synaptic plasticity and Rho-regulated function. ","confidence":"Medium","size":18,"edges":62,"triangles":130,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031914","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0050853","count":5},{"id":"GO:0035249","count":5},{"id":"GO:0043547","count":5}]},{"hash":"2197054965225067528","title":"Neural development and myelination signaling","description":"This cluster is enriched for nervous system development, neurogenesis, myelination, and signaling pathways (Roundabout/Slit-Robo and Smoothened/Hedgehog), suggesting a shared role in neural development and differentiation with myelination as a key process; the presence of a few broader terms like blood coagulation and collagen catabolic process may reflect ancillary functions or background signals.","confidence":"High","size":18,"edges":52,"triangles":42,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0007422","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0035385","count":3},{"id":"GO:0007224","count":3},{"id":"GO:0022008","count":3}]},{"hash":"616016482026627692","title":"N-terminal and histone acetylation cluster","description":"The top GO terms are dominated by acetylation-related processes, including multiple N-terminal acetylation events and histone H4 acetylation, suggesting the proteins are enriched for acetyltransferase activity and chromatin modification roles. A couple of metabolism terms appear, but the acetylation theme is clearly central, justifying a label around acetylation-related functions.","confidence":"High","size":18,"edges":55,"triangles":85,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0017198","count":5},{"id":"GO:0045150","count":5},{"id":"GO:0018003","count":5},{"id":"GO:0006348","count":5},{"id":"GO:0001525","count":5}]},{"hash":"483491212529969747","title":"Synaptic Organization and Signaling Regulators","description":"The cluster is anchored by synaptic-related terms (negative regulation of synaptic vesicle clustering, postsynaptic density assembly) and broad regulation of major signaling pathways (PI3K/AKT, ERK, JNK, JAK-STAT), suggesting a group of proteins that modulate synaptic function and intracellular signaling; additional terms hint at cell-cycle and cytoskeletal regulation, indicating a broader regulatory module. Confidence: Medium","confidence":"","size":18,"edges":65,"triangles":107,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:2000808","count":16},{"id":"GO:0051898","count":16},{"id":"GO:1903984","count":16},{"id":"GO:0051895","count":16},{"id":"GO:0097107","count":16}]},{"hash":"1445254308500913102","title":"Neural development and innate immunity","description":"The cluster shows strong representation of neural development-related terms (nervous system development, visual perception, neural tube closure) alongside innate immune and antiviral signaling terms (innate immune response, defense against Gram-positive bacteria, response to dsRNA, JNK cascade). This pattern suggests proteins that participate in both neural development processes and innate immune/signaling pathways, possibly reflecting shared stress-responsive signaling. Therefore, the label Neural development and innate immunity captures the main themes observed.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0032298","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0001843","count":2}]},{"hash":"606080068691045193","title":"Unknown","description":"The terms span diverse processes (differentiation, sumoylation, DNA replication, mRNA decay, meiosis, X-ray response, and host\u2013symbiont interactions) with no single dominant function, so a coherent, specific label isn\u2019t supported.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045657","count":2},{"id":"GO:2000727","count":2},{"id":"GO:0016925","count":2},{"id":"GO:0071481","count":2},{"id":"GO:0046718","count":2}]},{"hash":"177455554090561622","title":"Ubiquitin-regulated immune signaling","description":"This cluster shows strong enrichment for ubiquitination-related terms (protein autoubiquitination, actin ubiquitination) and immune processes (innate immune response, B cell homeostasis, lymph node development, regulation of JNK cascade). The common theme appears to be ubiquitin-dependent regulation of signaling pathways in immune contexts, with some noise from non-immune signaling terms like vitamin D response and brassinosteroid signaling. ","confidence":"Medium","size":18,"edges":6,"triangles":0,"max_degree":4,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":18},{"id":"GO:0033280","count":18},{"id":"GO:1900458","count":18},{"id":"GO:0007014","count":18},{"id":"GO:0007182","count":18}]},{"hash":"1005492854249911287","title":"Unknown","description":"Top GO terms are highly diverse and several are marked obsolete, spanning erythrocyte differentiation, iron ion homeostasis, chromatin localization, thiamine biosynthesis regulation, glycolytic fermentation to ethanol, DNA transposition, endothelial proliferation, viral protein processing, and histone phosphorylation regulation. Such dispersion provides no coherent shared function or pathway, so the cluster cannot be assigned a specific biological theme beyond Unknown.","confidence":"","size":18,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030218","count":2},{"id":"GO:0055072","count":2},{"id":"GO:1903212","count":1},{"id":"GO:0090180","count":1},{"id":"GO:2001172","count":1}]},{"hash":"487732297204974455","title":"Unknown","description":"The GO terms are highly diverse, spanning neural development (synapse assembly), behavior (foraging), ubiquitination, innate immune signaling, Wnt signaling, and plant starch metabolism, with no single dominant function tying them together, suggesting no coherent cluster-specific function.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060756","count":2},{"id":"GO:0060386","count":2},{"id":"GO:0016567","count":1},{"id":"GO:0051865","count":1},{"id":"GO:0002250","count":1}]},{"hash":"704045796904796109","title":"Multi-lineage Differentiation with Stress Response","description":"The terms indicate involvement in diverse differentiation programs (skeletal muscle cell differentiation, megakaryocyte and spermatid development, neuron projection morphogenesis) along with stress/ DNA damage responses (hypoxia regulation, response to ionizing radiation, DNA repair) and transcriptional control. This suggests a cluster of proteins participating in general developmental signaling with cellular stress response rather than a single, cohesive pathway, hence a broad label that captures both aspects.","confidence":"Medium","size":18,"edges":11,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048642","count":2},{"id":"GO:1900037","count":2},{"id":"GO:2000271","count":2},{"id":"GO:0035914","count":2},{"id":"GO:0000122","count":2}]},{"hash":"2301086694830576259","title":"Innate immunity signaling and interferon/cytokine production","description":"The cluster is dominated by GO terms such as innate immune response (13), cytokine production (12), type II interferon production (12), and regulation of type I interferon production (11), pointing to core innate immune signaling and interferon/cytokine pathways. The SCF-dependent proteasomal ubiquitin-dependent protein catabolic process (13) aligns with antigen processing in immune responses. Host-mediated suppression of symbiont invasion further supports defense-related functions. Some terms like ossification and muscle contraction appear, but they are likely pleiotropic contexts; overall, the shared theme among these proteins is innate immune signaling and interferon/cytokine responses.","confidence":"High","size":18,"edges":55,"triangles":156,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":13},{"id":"GO:0031146","count":13},{"id":"GO:0043931","count":12},{"id":"GO:0007275","count":12},{"id":"GO:0051092","count":12}]},{"hash":"1664501757414476900","title":"Neuronal development and synaptic signaling","description":"The dominated GO terms point to nervous system development (including hippocampus development), dendrite morphogenesis, and excitatory synaptic activity, with associated MAPK cascade regulation and dopamine response, indicating a cluster of proteins involved in neuronal development, dendrite formation, and synaptic signaling.","confidence":"High","size":18,"edges":6,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046330","count":13},{"id":"GO:0000278","count":13},{"id":"GO:0060079","count":13},{"id":"GO:0007399","count":13},{"id":"GO:0070374","count":13}]},{"hash":"874215263866307332","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around nervous system development, visual perception, excitatory synaptic potentials, and signaling cascades (including JNK) with contextual responses to cocaine and metal stress, suggesting a coherent theme of neural development and synaptic function, despite some cell-cycle terms likely reflecting multifunctional regulators.","confidence":"High","size":18,"edges":30,"triangles":33,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042220","count":13},{"id":"GO:0000278","count":12},{"id":"GO:0007601","count":11},{"id":"GO:0046330","count":10},{"id":"GO:0050771","count":10}]},{"hash":"2114746533481467543","title":"Neuronal Morphogenesis and Mitochondrial Dynamics","description":"The top GO terms strongly indicate neural development and morphogenesis (central nervous system neuron development, dendrite morphogenesis, axon extension regulation). Coupled with terms on mitochondrial localization/distribution and regulation of mitochondrial membrane potential, plus calcium signaling regulation and heat response, this cluster appears to fuse neuronal growth/polarity with mitochondrial dynamics and signaling. Hence the label reflects both neuron-specific morphogenesis and mitochondrial regulation as a core theme.","confidence":"High","size":18,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021954","count":10},{"id":"GO:0048813","count":10},{"id":"GO:0045773","count":10},{"id":"GO:1903748","count":8},{"id":"GO:0048312","count":8}]},{"hash":"1146153408471001200","title":"Transporters and Stress Response","description":"These proteins show enrichment for transport-related GO terms (glycine betaine transport; long-chain fatty acid import into peroxisomes; bacteriocin transport) together with cellular stress-related responses (response to salt stress; cellular response to glucose starvation) and organelle maintenance processes (cytochrome complex assembly; negative regulation of ER calcium). The common thread suggests a cluster of transporters involved in osmotic/metabolic stress adaptation and energy maintenance, despite some divergent terms. ","confidence":"Medium","size":18,"edges":39,"triangles":41,"max_degree":8,"top_function":"cytokinesis","top_go_terms":[{"id":"GO:0031460","count":5},{"id":"GO:1902512","count":5},{"id":"GO:0032471","count":4},{"id":"GO:0060041","count":4},{"id":"GO:0042149","count":4}]},{"hash":"1641278359758494299","title":"Immune and neural signaling regulation","description":"GO terms indicate regulation of signaling pathways across immune, neural, and endocrine contexts (negative regulation of Ras signaling; T cell proliferation; B cell differentiation; synaptic transmission; insulin secretion; phagocytosis). The recurring theme is modulation of signaling and cellular communication rather than a single pathway, suggesting a cluster of proteins involved in coordinating intercellular signals across systems. The inclusion of both immune and neural terms, plus general transcription and protein transport, supports a broad but cohesive label focusing on signaling regulation.","confidence":"Medium","size":18,"edges":8,"triangles":2,"max_degree":6,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0046580","count":15},{"id":"GO:0021997","count":14},{"id":"GO:0002316","count":13},{"id":"GO:0006886","count":13},{"id":"GO:0030579","count":13}]},{"hash":"2210665608850452219","title":"Macrophage innate immune signaling and cytokine regulation","description":"This cluster is dominated by GO terms centered on macrophage activation, innate immune response, and regulation of signaling pathways (NF-kB and ERK), along with modulation of interferon production and cytokines such as IL-18 and MIP-1 alpha. The inclusion of vitamin D response and plasma membrane repair further supports a macrophage-focused immune regulation theme, encompassing both activation and negative regulatory processes.","confidence":"High","size":18,"edges":146,"triangles":711,"max_degree":17,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032479","count":18},{"id":"GO:0070373","count":18},{"id":"GO:0042116","count":18},{"id":"GO:0051770","count":18},{"id":"GO:0033280","count":18}]},{"hash":"1105188571375072571","title":"Actin-based cytoskeleton remodeling and cell migration","description":"The top terms are dominated by actin-related processes (lamellipodium morphogenesis, actin filament bundle assembly, actin filament reorganization) and events tied to cell movement and tissue remodeling (epidermal spreading, ECM secretion, wound healing). While other terms (spindle assembly, DNA biosynthesis) are broader, the strongest signal across the cluster points to actin dynamics driving motility and cytoskeletal organization, with supporting roles in transport and remodeling. Confidence: High","confidence":"","size":18,"edges":23,"triangles":9,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:2000394","count":2},{"id":"GO:0051225","count":2},{"id":"GO:0071897","count":2},{"id":"GO:0001951","count":1},{"id":"GO:0003331","count":1}]},{"hash":"1913308637812292072","title":"Unknown","description":"The top GO terms span immune differentiation (pro-T cell differentiation, memory T cell differentiation, germinal center formation), circadian rhythm (circadian sleep/wake cycle), and plant tropism (phototropism, gravitropism), among others, with no clear shared function tying all proteins together. The network shows zero edges, suggesting a heterogeneous or artifact cluster rather than a cohesive biological module. ","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045497","count":2},{"id":"GO:1900477","count":2},{"id":"GO:2000176","count":2},{"id":"GO:0009958","count":2},{"id":"GO:0043380","count":2}]},{"hash":"1219190770213510997","title":"Neural development and axon guidance","description":"This cluster is enriched with neural-related terms, especially Schwann cell development and motor neuron axon guidance/axon extension, along with broader developmental processes such as hair follicle and cardiac muscle development. The prominent neural lineage and axon guidance signals support naming it Neural development and axon guidance.","confidence":"High","size":18,"edges":14,"triangles":3,"max_degree":6,"top_function":"wound healing","top_go_terms":[{"id":"GO:0007275","count":8},{"id":"GO:0014044","count":8},{"id":"GO:0050999","count":7},{"id":"GO:0001942","count":7},{"id":"GO:0043066","count":6}]},{"hash":"400792361651040789","title":"Ubiquitination in ERAD and Innate Immunity","description":"The top GO terms cluster around ubiquitin-related processes (ubiquitin-dependent ERAD, autoubiquitination, actin ubiquitination) and innate immune functions (innate immune response, regulation of LPS signaling), with additional notes on membrane repair. This suggests a coherent theme of ubiquitin-driven protein quality control and regulation of innate immune signaling, rather than a purely signaling or metabolic module.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0030433","count":16},{"id":"GO:0051865","count":15},{"id":"GO:1900458","count":15},{"id":"GO:0007014","count":15},{"id":"GO:0007182","count":15}]},{"hash":"1651351443185717366","title":"ECM remodeling, integrin signaling, and immune cell migration","description":"This cluster is dominated by terms related to the extracellular matrix and cell adhesion (cell-matrix adhesion, integrin-mediated signaling, hyaluronan metabolic process) and ECM remodeling (metallopeptidase activity), combined with processes of cell movement and trafficking (substrate-dependent cell migration, cellular extravasation) and immune signaling (T cell activation via TCR with antigen-presenting cells). While some terms like dendrite regeneration or endodermal differentiation are broader, the core pattern points to coordinated ECM remodeling with leukocyte/immune cell migration and signaling.","confidence":"Medium","size":18,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031104","count":6},{"id":"GO:0007596","count":6},{"id":"GO:0007161","count":6},{"id":"GO:1905050","count":5},{"id":"GO:0045123","count":5}]},{"hash":"2120902107285811317","title":"Neuronal signaling and sensory processing","description":"The terms point to neuronal signaling and sensory processing: ion transport for excitability (K+ and Na+), presynaptic vesicle fusion regulation, olfactory learning, taste (umami) and pain perception, and a response to amphetamine. An outlier term about viral release is present but does not define the cluster's core theme.","confidence":"Medium","size":18,"edges":66,"triangles":158,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":17},{"id":"GO:0031631","count":16},{"id":"GO:0001975","count":16},{"id":"GO:0001661","count":16},{"id":"GO:0019076","count":16}]},{"hash":"2203612566043958905","title":"Embryonic Development and ECM Morphogenesis","description":"These terms cluster around organogenesis and tissue remodeling: embryonic and lung development, in utero development, collagen fibril organization, BMP-responsive signaling, and growth regulation. Although there are neural terms (sound perception, synapse assembly), they fit within developmental processes as the organism forms and shapes tissues. Overall, the common theme is development-driven morphogenesis with extracellular matrix remodeling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0030324","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0043569","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0001701","count":3}]},{"hash":"213617418623920699","title":"Integrin-mediated cell adhesion and ECM organization","description":"The cluster is enriched for GO terms centered on cell\u2013cell and cell\u2013matrix interactions, including integrin-mediated adhesion, heterophilic adhesion, and extracellular matrix organization, with related processes like leukocyte tethering/rolling; together these indicate a coherent theme of adhesion and ECM remodeling that underpins tissue structure and immune cell recruitment.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0033631","count":6},{"id":"GO:0007157","count":6},{"id":"GO:0010694","count":5},{"id":"GO:2000721","count":5},{"id":"GO:0043931","count":5}]},{"hash":"1337541209681540065","title":"Embryogenesis, BMP Signaling, and Complement Activation","description":"The cluster features strong signals for embryonic development (in utero embryonic development, ventral spinal cord development) and BMP signaling, alongside immune-related processes (complement activation via classical and alternative pathways, membrane attack complex activation) and neuronal development signals (presynaptic membrane assembly). This suggests proteins involved in developmental signaling with immune and neural context, justifying a label that blends these themes.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0034392","count":15},{"id":"GO:0006958","count":15},{"id":"GO:0021517","count":14},{"id":"GO:0001701","count":14},{"id":"GO:0006957","count":14}]},{"hash":"1885601424533713291","title":"Neural inflammation and axon development","description":"These terms converge on inflammatory signaling in neural tissue (TNF, IL-6, inflammatory response) and neural differentiation/structure (myelination, nerve branching, axonal fasciculation, keratan sulfate proteoglycan biosynthesis). The shared context points to proteins involved in neuroinflammation that also influence nerve development and ECM components supporting axon guidance.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006044","count":2},{"id":"GO:0032760","count":2},{"id":"GO:0050729","count":2},{"id":"GO:0032755","count":2},{"id":"GO:0006954","count":2}]},{"hash":"780518387557044098","title":"Inner ear balance and basement membrane components","description":"Top GO terms cluster around inner-ear functions (otolith tethering; sensory perception of sound; vestibular reflex) and extracellular matrix components (glomerular basement membrane development; cell-matrix adhesion; smooth septate junction assembly). This points to a set of basement-membrane/ECM\u2013associated proteins implicated in ear balance and tissue adhesion, with glycan processing terms reflecting secreted protein maturation. Overall, the cluster seems cohesive around ECM and auditory/balance roles rather than a single pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035889","count":4},{"id":"GO:0032836","count":4},{"id":"GO:0007160","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0090528","count":4}]},{"hash":"738321104380812573","title":"Mucosal Immune Defense and Epithelial Barrier","description":"The GO terms cluster around immune signaling and defense at mucosal surfaces, including Fc-epsilon receptor signaling, complement activation, innate and defense responses to bacteria, and Ig transcytosis via pIgR, along with maintenance of GI epithelium and T cell regulation. This points to a coherent theme of mucosal immunity coupled with epithelial barrier integrity.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0038095","count":13},{"id":"GO:0006958","count":13},{"id":"GO:0030277","count":12},{"id":"GO:0046814","count":12},{"id":"GO:0042102","count":12}]},{"hash":"1212381916545293849","title":"Endothelial angiogenesis signaling","description":"This cluster is enriched for terms related to promoting angiogenesis, endothelial cell migration/chemotaxis, and signaling pathways such as ERK and PKC, indicating a cohesive role in vascular development and endothelial signaling. While there are kidney-related branching terms, the dominant theme centers on angiogenic signaling in endothelial cells.","confidence":"High","size":18,"edges":45,"triangles":93,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0001658","count":8},{"id":"GO:0007596","count":7},{"id":"GO:0001657","count":7},{"id":"GO:0070528","count":7},{"id":"GO:1900086","count":7}]},{"hash":"1861288955052410445","title":"Innate immunity with phagocytosis and B cell signaling","description":"This cluster is dominated by terms tied to innate immune responses and phagocytic processes (phagocytosis, recognition, innate immune response, complement activation). It also includes signals for adaptive immunity, notably B cell activation and B cell receptor signaling, suggesting a link between innate defense and B cell\u2013mediated signaling. Some terms about virion attachment and host cell entry may reflect interactions at the immune interface or pathogen entry contexts, while negative regulation of macrophage activation points to regulatory layers within immune responses. Overall, the proteins appear cohesively related to immune activation, phagocytosis, and B cell signaling.","confidence":"High","size":18,"edges":22,"triangles":2,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006911","count":17},{"id":"GO:0045087","count":17},{"id":"GO:0050871","count":17},{"id":"GO:0050853","count":17},{"id":"GO:0006958","count":17}]},{"hash":"1483298754221021269","title":"Neural crest migration and axon guidance","description":"The cluster is enriched for neural development functions, especially neural crest cell migration and axon guidance. Semaphorin-plexin signaling, chemorepulsion in interneuron migration, anterior/posterior axon guidance, and ROBO pathway terms point to coordinated neural pathfinding and cell migration, with additional bone maturation terms reflecting craniofacial skeletal development linked to neural crest derivatives. This combination supports a coherent theme of neural crest\u2013driven development and axon guidance.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":5},{"id":"GO:1902287","count":4},{"id":"GO:0036486","count":4},{"id":"GO:0033564","count":4},{"id":"GO:0021836","count":4}]},{"hash":"881682972996920059","title":"Interferon-RIG-I antiviral response","description":"The cluster centers on antiviral immune signaling: regulation of type I interferon production, positive regulation of RIG-I signaling, defense response to virus, and negative regulation of viral transcription. While some terms relate to development or other processes, the strongest and most frequent GO terms clearly point to interferon-mediated antiviral defense, justifying this label.","confidence":"High","size":18,"edges":13,"triangles":1,"max_degree":5,"top_function":"autophagy","top_go_terms":[{"id":"GO:0032479","count":4},{"id":"GO:0043569","count":4},{"id":"GO:0055002","count":4},{"id":"GO:0003151","count":4},{"id":"GO:1900246","count":4}]},{"hash":"1293177361635161982","title":"Embryonic Development and Tissue Morphogenesis","description":"The top GO terms point to embryogenesis and tissue/organ morphogenesis across diverse lineages (endocrine system development, cartilage morphogenesis, EMT in heart cushion formation, placental and mesoderm development, palate formation, hair follicle morphogenesis, etc.), suggesting the cluster groups proteins involved in broad developmental programs rather than a single tissue.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":18},{"id":"GO:0060536","count":18},{"id":"GO:0003198","count":18},{"id":"GO:0060806","count":18},{"id":"GO:0060972","count":18}]},{"hash":"1407145234595039790","title":"Mucosal Immunity and Epithelial Barrier","description":"GO terms point to immune signaling and defense at mucosal surfaces (Fc-epsilon receptor signaling, innate immunity, T cell proliferation, CCR7 signaling) combined with epithelial barrier maintenance (GI epithelium maintenance, protein localization to cell junction) and IgA transport (polymeric immunoglobulin receptor\u2013mediated transcytosis). The inclusion of symbiont entry and virion attachment indicators suggests interactions with microbes at the epithelial interface, underscoring a cohesive theme of mucosal defense and barrier function.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0038095","count":10},{"id":"GO:0030277","count":9},{"id":"GO:0046814","count":9},{"id":"GO:0042102","count":9},{"id":"GO:1903082","count":9}]},{"hash":"1661010990934704500","title":"Secretory Pathway and Vesicle Trafficking","description":"Most terms cluster around secretion and vesicle trafficking: vacuole fusion, ER exit, and vacuole organization point to vesicle dynamics; saliva secretion and sebaceous gland development emphasize secretory processes; xenobiotic transport involves membrane transport; palmitoylation and phosphatidylinositol biosynthesis support membrane targeting and vesicle formation. Some items like visual perception and filamentous growth are less central but can be linked to membrane trafficking in certain contexts, making Secretory Pathway and Vesicle Trafficking the best overall fit.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042144","count":4},{"id":"GO:0018230","count":4},{"id":"GO:0048733","count":4},{"id":"GO:0010513","count":3},{"id":"GO:0046541","count":2}]},{"hash":"644403169857312129","title":"Embryonic Craniofacial and Cardiac Morphogenesis","description":"The top GO terms are dominated by developmental processes such as palate (roof of mouth) development, mesoderm development, hair follicle morphogenesis, epithelial-to-mesenchymal transition in endocardial cushion formation, left-right pattern formation, and endocrine system development. There is also evidence for developmental gene expression regulation (splicing) and replication initiation, which are essential during organogenesis. Together, these terms point to a coherent theme of embryonic morphogenesis and organ development, especially craniofacial and cardiac, with some supporting roles in broader developmental regulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060021","count":18},{"id":"GO:0007498","count":18},{"id":"GO:0031069","count":18},{"id":"GO:0010957","count":18},{"id":"GO:0035270","count":18}]},{"hash":"1500493528316509725","title":"Basophil activation and Fc receptor signaling","description":"The proteins cluster around GO terms for basophil activation and Fc-gamma receptor signaling, both indicating innate/adaptive immune cell signaling. Additional terms related to immune responses to fungi and NK cell regulation reinforce a cohesive immune activation/signaling theme centered on basophils and Fc receptor pathways, with a few outlier developmental terms likely representing annotation noise.","confidence":"High","size":18,"edges":8,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045575","count":18},{"id":"GO:0038094","count":18},{"id":"GO:0090403","count":18},{"id":"GO:0071226","count":18},{"id":"GO:0072218","count":18}]},{"hash":"151334087800417040","title":"Neural synapse assembly and plasticity","description":"The cluster is dominated by GO terms tied to synapse formation and maintenance (positive regulation of synapse assembly, maintenance of synapse structure) and neuronal connectivity processes (motor learning, response to cocaine, axon guidance), indicating a neural/synaptic function theme. Some outliers (angiogenesis, hair orientation) exist but do not override the core neuronal synapse focus.","confidence":"High","size":18,"edges":141,"triangles":656,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":5},{"id":"GO:0042220","count":4},{"id":"GO:0061743","count":4},{"id":"GO:1904938","count":4},{"id":"GO:0010573","count":4}]},{"hash":"134646874231188248","title":"Neural lineage specification","description":"The top GO terms predominantly describe development and differentiation of neural cell types, including spinal cord motor neurons, GABAergic interneurons, oligodendrocytes, and cortical neurons, suggesting a shared focus on neural lineage specification. Transcription by RNA polymerase II indicates a regulatory transcriptional program coordinating these fates; a few non-neural developmental terms appear but do not dominate the cluster.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021530","count":9},{"id":"GO:0031018","count":9},{"id":"GO:0060435","count":9},{"id":"GO:0060163","count":9},{"id":"GO:0006366","count":9}]},{"hash":"2160639722353508828","title":"Innate Immune Signaling and Macrophage Activation","description":"The cluster is strongly linked to innate immunity and inflammatory signaling: innate immune response, macrophage activation, Toll-like receptor 8 signaling, negative regulation of canonical NF-kappaB signaling, and cytokine production (IL-8, IFN-\u03b2). This points to pathogen sensing leading to cytokine responses in immune cells. The SCF-dependent proteasomal ubiquitin-dependent degradation term aligns with NF-kB pathway regulation via proteasomal turnover; one outlier term about brassinosteroid stimulus likely reflects annotation noise rather than a core function.","confidence":"High","size":17,"edges":57,"triangles":26,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0031146","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0009729","count":4},{"id":"GO:0042116","count":4},{"id":"GO:0051770","count":4}]},{"hash":"350668005424231730","title":"Dopaminergic GPCR Signaling and Neurite Morphogenesis","description":"The cluster is dominated by dopamine receptor (GPCR) signaling terms, small GTPase signaling, and neuronal morphogenesis (dendritic spine development, action potential) with supporting themes of cytoskeletal polarity and membrane localization, suggesting a core function in neural signaling and neurite shaping.","confidence":"Medium","size":17,"edges":107,"triangles":455,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0003380","count":15},{"id":"GO:0031684","count":15},{"id":"GO:0007191","count":15},{"id":"GO:0001508","count":14},{"id":"GO:0042733","count":12}]},{"hash":"1613856978950712497","title":"Epigenetic Regulation of Transcription","description":"The cluster is enriched for DNA-templated transcription and multiple histone modification terms (acetylation/deacetylation, methylation), pointing to chromatin remodeling as a core function. The TGF-beta\u2013related response term suggests transcriptional regulation by signaling pathways as well. Together, these indicate epigenetic control of gene expression as the central theme.","confidence":"High","size":17,"edges":121,"triangles":503,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0071560","count":7},{"id":"GO:0006349","count":7},{"id":"GO:0043982","count":7},{"id":"GO:0043984","count":7}]},{"hash":"401330995728615316","title":"Rho GTPase signaling and neuronal differentiation","description":"This cluster highlights Rho/GTPase signaling and cytoskeletal regulation, with neural differentiation signals (midbrain dopaminergic neuron differentiation, substantia nigra development) suggesting a theme of cytoskeleton-driven neuronal morphology, despite some noise terms like mitotic spindle assembly and cell wall biosynthesis.","confidence":"Medium","size":17,"edges":20,"triangles":20,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":9},{"id":"GO:0043087","count":9},{"id":"GO:0030579","count":8},{"id":"GO:0071320","count":7},{"id":"GO:0090334","count":7}]},{"hash":"971783811166270717","title":"NF-kappaB/IL-1 inflammatory signaling","description":"The top GO terms cluster around NF-kappaB signaling and interleukin-1\u2013mediated pathways, indicating a core theme of inflammatory transcriptional regulation. A handful of terms about organ and tissue development appear but are less represented, suggesting these proteins are primarily linked to inflammatory signaling with possible pleiotropic roles. Overall, the shared function seems to be activation and regulation of NF-kappaB\u2013mediated inflammatory responses.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":2},{"id":"GO:0070498","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0097276","count":1},{"id":"GO:0071281","count":1}]},{"hash":"354449925438999233","title":"Endomembrane Vesicle Trafficking","description":"GO terms indicate a cohesive theme of vesicle trafficking within the endomembrane system (ER\u2013Golgi, Golgi\u2013ER, endosome\u2013Golgi, endocytosis, synaptic vesicle transport) and pigment-related vesicles, with accompanying neuronal phenotypes. This points to a shared function in intracellular membrane trafficking, especially relevant in neural contexts.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":6},{"id":"GO:0006897","count":5},{"id":"GO:0006623","count":5},{"id":"GO:0006890","count":5},{"id":"GO:0090307","count":5}]},{"hash":"107434206530593402","title":"Craniofacial Neural Development and Synaptic Signaling","description":"Most frequent GO terms point to craniofacial development (roof of mouth, inner ear) and neural processes (cellular response to dopamine, positive regulation of synapse assembly) suggesting a theme of head/neuronal development with synaptic regulation. Some terms (innate immune response, xenophagy) are less cohesive with the main theme, indicating a mixed set but the dominant cluster centers on neural development and signaling. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060021","count":4},{"id":"GO:0030878","count":3},{"id":"GO:0061368","count":3},{"id":"GO:1903351","count":3},{"id":"GO:0045087","count":3}]},{"hash":"1783180372911783594","title":"Immune Signaling and Vascular Regulation","description":"The cluster is dominated by immune-related processes: T cell receptor signaling, regulation of IL-2 production, GM-CSF stimulation, and TGF-beta\u2013associated responses. These are complemented by terms tied to vascular and cardiac regulation (vascular permeability, cardiac muscle contraction) and intracellular signaling via cGMP/cAMP, suggesting a cohesive network where immune signaling interfaces with vascular and cardiac function. The presence of the smell term likely reflects broad GPCR/cGMP/cAMP\u2013related signaling common to multiple pathways rather than a smell-specific function.","confidence":"Medium","size":17,"edges":29,"triangles":21,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050852","count":8},{"id":"GO:0043116","count":8},{"id":"GO:0010754","count":7},{"id":"GO:0007608","count":6},{"id":"GO:0071321","count":6}]},{"hash":"574065577510948635","title":"Developmental gene regulation and chromatin modification","description":"This cluster centers on DNA-templated transcription and epigenetic processes (histone methylation, imprinting), with several development-related terms (uterus development, atrial septum morphogenesis, parathyroid/gland development). The inclusion of regulators of GTPase activity and CDK-like kinase activity suggests coordinated signaling and cell-cycle control during development, aligning with a theme of transcriptional control and chromatin state governing developmental gene expression.","confidence":"Medium","size":17,"edges":88,"triangles":197,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0090309","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0045737","count":4},{"id":"GO:0051567","count":3}]},{"hash":"2227015375222030195","title":"Developmental signaling and cell-cycle regulation","description":"The cluster features multiple development-related processes (multicellular organism development, neural tube closure, skeletal system development) alongside cell-cycle activities (mitotic cell cycle, cell division) and signaling/stress response pathways (TGF-beta stimulus, GTPase regulation, cadmium response, ER-stress\u2013induced apoptosis). This suggests proteins involved in coordinating development with cell-cycle control and stress signaling.","confidence":"Medium","size":17,"edges":32,"triangles":32,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071276","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0001843","count":5},{"id":"GO:0001501","count":5}]},{"hash":"2169193166551998895","title":"ER glycoprotein processing and UPR","description":"Most of the top GO terms center on endoplasmic reticulum\u2013related protein maturation: deglycosylation, N-glycan processing, ER-to-Golgi transport, and the unfolded protein response. This points to proteins involved in glycoprotein synthesis/processing and ER quality control, with some ancillary terms likely reflecting broader annotations.","confidence":"High","size":17,"edges":46,"triangles":72,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006517","count":2},{"id":"GO:0070236","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0030968","count":2},{"id":"GO:0006486","count":1}]},{"hash":"543912099708958380","title":"Neuronal development and transcription regulation","description":"The top GO terms center on CNS neuron development and dendritic spine morphogenesis, alongside DNA-templated transcription and mRNA processing, suggesting a core theme of neural development coupled with gene expression regulation. While there are additional signaling and epigenetic terms (Hippo signaling, insulin signaling, imprinting-related processes), the strongest cohesive signal points to neural development with transcriptional control, hence the label.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0070059","count":4},{"id":"GO:0007098","count":4},{"id":"GO:0060213","count":3},{"id":"GO:0043046","count":3}]},{"hash":"1557362224189685192","title":"Embryonic development and neural differentiation","description":"The top GO terms show diverse embryonic development processes across multiple tissues (spinal cord, cortex, cochlea, pancreas, bronchioles, digits) with neuronal fate specification (neuron/motor neuron, oligodendrocyte) and transcriptional regulation, indicating a cluster of proteins involved in broad development and neural lineage commitment rather than a single specific pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021530","count":15},{"id":"GO:0031018","count":15},{"id":"GO:0060435","count":15},{"id":"GO:0060163","count":15},{"id":"GO:0006366","count":15}]},{"hash":"1196960525126238971","title":"Ubiquitin-Dependent ERAD Components","description":"The top GO terms are dominated by ubiquitination-related processes (protein polyubiquitination and K11-linked ubiquitination) and the ubiquitin-dependent ERAD pathway, indicating the cluster centers on ubiquitin-mediated tagging and degradation via ER-associated degradation. Additional terms like cellular response to cadmium and mitotic cell cycle suggest broader stress-response and cell-cycle connections often coordinated by ubiquitin signaling. While some terms appear less directly relevant (rRNA maturation, histone methylation), the core theme is clear: ubiquitin-mediated proteostasis and ERAD. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000209","count":8},{"id":"GO:0071276","count":7},{"id":"GO:0070979","count":7},{"id":"GO:0030433","count":7},{"id":"GO:2000011","count":7}]},{"hash":"1900999679252319172","title":"Splicing and mRNA processing regulators","description":"This cluster is dominated by GO terms related to RNA splicing and processing (alternative splicing via spliceosome, positive regulation of splicing via spliceosome, mRNA export, translation preinitiation complex formation, and polyadenylation-related processes), indicating a cohesive role in post-transcriptional gene expression control. Developmental terms are present but secondary to the core splicing/mRNA maturation theme.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000380","count":6},{"id":"GO:0001701","count":4},{"id":"GO:0042551","count":4},{"id":"GO:0001731","count":4},{"id":"GO:1905663","count":4}]},{"hash":"1234704140862414853","title":"Embryonic Development and Morphogenesis","description":"The GO terms are dominated by embryonic morphogenesis across diverse tissues (palate, eye, hindlimb, outflow tract, adrenal, prostate, habenula, gonad) and by multicellular organism development, indicating a shared theme of developmental and morphogenetic processes rather than a single functional module.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":3},{"id":"GO:0048048","count":3},{"id":"GO:2000288","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0035116","count":3}]},{"hash":"62424943202692147","title":"IGF/Insulin signaling and cytoskeletal remodeling","description":"The top GO terms point to IGF/insulin receptor signaling, PI3K/AKT pathway activity, small GTPase signaling, and actin cytoskeleton organization, all of which together drive cytoskeletal remodeling and cell migration. While some terms touch on development, the dominant theme is signaling pathways that regulate cytoskeleton dynamics and migratory behavior.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016477","count":5},{"id":"GO:0046626","count":4},{"id":"GO:0043491","count":4},{"id":"GO:2001275","count":4},{"id":"GO:0007264","count":4}]},{"hash":"455883149648113909","title":"Developmental morphogenesis and cell cycle regulation","description":"This cluster includes GO terms pointing to broad developmental and morphogenetic processes (cerebellum development, motor neuron axon guidance, branching morphogenesis in mammary glands, cardiac muscle differentiation), suggesting a theme of development. It also contains cell cycle and DNA damage response terms (mitotic cell cycle, G2 checkpoint signaling, regulation of NHEJ repair), indicating a link between development and cell cycle control. Additional terms on immune signaling and epigenetic regulation are present but secondary to the overarching developmental/morphogenesis and cell cycle theme.","confidence":"Medium","size":17,"edges":8,"triangles":0,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097011","count":9},{"id":"GO:0044027","count":9},{"id":"GO:0008045","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0060444","count":6}]},{"hash":"2219579491502683219","title":"Neural development and signaling regulation","description":"The cluster centers on CNS development and neuron projection development, with multiple entries showing negative regulation of signaling pathways (BMP, activin receptor, PI3K/AKT) and transcription by RNA polymerase II, suggesting a cohesive role in neural differentiation tied to transcriptional and signaling control.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0010976","count":2},{"id":"GO:0030819","count":2},{"id":"GO:0030514","count":1},{"id":"GO:0007417","count":1}]},{"hash":"1143538343588697545","title":"Embryonic Development and Organ Morphogenesis","description":"This cluster centers on broad developmental programs across multiple tissues and organs, including endocrine system development, mesoderm formation, cartilage and hair follicle morphogenesis, endocardial cushion EMT, placenta and pancreatic development, and left-right patterning. The shared theme is embryonic development and patterning rather than a single specific pathway, making \u201cEmbryonic Development and Organ Morphogenesis\u201d a concise, representative label.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":11},{"id":"GO:0060021","count":11},{"id":"GO:0060536","count":11},{"id":"GO:0003198","count":11},{"id":"GO:0007498","count":11}]},{"hash":"1530438544735596926","title":"Mesodermal heart and adipose development","description":"The terms cluster around mesoderm-derived tissue differentiation, highlighted by heart development, fat cell differentiation, and mesoderm formation, with supporting signals related to cardiac hypertrophy regulation. While terms like GPCR desensitization and spindle organization indicate broader signaling and cell-cycle roles, the dominant theme is development toward cardiac and adipose lineages.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0018107","count":2},{"id":"GO:0010614","count":2},{"id":"GO:0002029","count":2}]},{"hash":"1858248006010160370","title":"Bacterial central carbon metabolism and energy production","description":"This cluster is dominated by core metabolic pathways (TCA cycle, glycolysis, glyoxylate shunt) and quinone biosynthesis (menaquinone/phylloquinone), plus mandelate catabolism, pointing to central carbon metabolism and energy generation. The presence of starvation response and sporulation terms suggests this metabolic state is linked to nutrient limitation and survival (sporulation) rather than a single specific pathway. Confidence: Medium","confidence":"","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":7},{"id":"GO:0055114","count":5},{"id":"GO:0019596","count":5},{"id":"GO:0009234","count":5},{"id":"GO:0042372","count":5}]},{"hash":"1209767616229244105","title":"Autophagy and organelle turnover","description":"This cluster is dominated by autophagy-related processes: mitochondrion autophagy, cytoplasm-to-vacuole targeting, and piecemeal microautophagy of the nucleus, plus responses to amino acid starvation and protein lipidation, all pointing to autophagic degradation of organelles under stress. While there are a few outliers (e.g., response to morphine), the core theme is selective/autophagic turnover of cellular components.","confidence":"High","size":17,"edges":115,"triangles":472,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0044805","count":7},{"id":"GO:0032258","count":7},{"id":"GO:0000422","count":7},{"id":"GO:0034727","count":7},{"id":"GO:0006501","count":6}]},{"hash":"1817612412307600094","title":"Craniofacial and ocular development","description":"The majority of top GO terms describe embryonic development of head structures and eyes\u2014brain segmentation, rhombomere formation, palate roof development, and eye morphogenesis/retinal axon guidance\u2014suggesting the cluster centers on craniofacial/visual system development. Some terms about transcription or bone differentiation appear, but they can be secondary processes within this developmental context.","confidence":"Medium","size":17,"edges":102,"triangles":326,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":8},{"id":"GO:0043922","count":7},{"id":"GO:0045672","count":7},{"id":"GO:0035284","count":7},{"id":"GO:0021571","count":7}]},{"hash":"1105804901483522904","title":"Neural development and axon extension","description":"The top GO terms are dominated by nervous system development and axon-related processes (nervous system development, multicellular organism development, positive regulation of axon extension, axon extension, compound eye morphogenesis), pointing to proteins involved in neuronal differentiation and axon outgrowth. A few terms relate to innate immunity, which may reflect secondary roles or annotation noise, but the core theme centers on neural development and axon guidance/extensio n.","confidence":"Medium","size":17,"edges":32,"triangles":14,"max_degree":7,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0045773","count":5},{"id":"GO:0097202","count":4},{"id":"GO:0030154","count":4}]},{"hash":"1643891999698098757","title":"Cardiac GPCR Signaling and Contraction Regulation","description":"This cluster clusters GPCR-related signaling terms (including acetylcholine receptor signaling, GPCR internalization/desensitization, and peptidyl-threonine phosphorylation) together with cardiac muscle contraction and its negative regulation, pointing to a module of heart-specific GPCR signaling that modulates cardiac contractile function.","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0070493","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0008286","count":4},{"id":"GO:0002031","count":4},{"id":"GO:0003108","count":4}]},{"hash":"2274993650417953606","title":"Amino acid and xenobiotic catabolism","description":"Proteins cluster around catabolic processes for L-phenylalanine and L-tyrosine, xenobiotics, and glutathione metabolism, with some links to antibiotic response. This points to a detoxification/metabolic theme rather than a single, cohesive biological pathway, and the absence of edges suggests limited direct coupling within the cluster. Developmental and transcription-regulatory terms appear but do not strongly unify the set. Overall, the label captures the dominant detox-related metabolism signal but should be treated cautiously.","confidence":"Low","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006559","count":1},{"id":"GO:0006572","count":1},{"id":"GO:0042178","count":1},{"id":"GO:0006357","count":1},{"id":"GO:0055114","count":1}]},{"hash":"1923175596241883708","title":"Embryonic development and tissue morphogenesis","description":"The terms cluster around morphogenesis and development across diverse tissues (heart cushion EMT, cartilage, tooth, hair follicle, pancreatic cell development, left-right patterning, placenta-related differentiation, endocrine system development), suggesting a cohesive theme of embryonic tissue formation. A single splicing term appears incidental to the core developmental theme.","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":5},{"id":"GO:0060707","count":4},{"id":"GO:0035270","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0060806","count":3}]},{"hash":"1010660955441098213","title":"Cell Polarity and Developmental Signaling","description":"The terms cluster around cell polarity (polarity maintenance, ER polarization, bud neck localization) and developmental processes (neuron projection development, spermatid development, myelination) with Hedgehog/Smoothened signaling. This suggests a module coordinating spatial cell organization during development across germline and neural contexts.","confidence":"Medium","size":17,"edges":58,"triangles":52,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0030011","count":3},{"id":"GO:0030382","count":3},{"id":"GO:0031175","count":3},{"id":"GO:0007224","count":3},{"id":"GO:0007286","count":2}]},{"hash":"1133756580668763662","title":"Neurovascular development and neuroinflammation","description":"The cluster centers on brain development and vascular control (brain development; negative regulation of angiogenesis; endothelial proliferation) with appreciable roles in neuronal/glial apoptosis regulation and immune signaling (chemokine-mediated signaling; monocyte chemotaxis) and sensory pain regulation, suggesting coordinated neurodevelopment, vascularization, and neuroimmune communication. ","confidence":"High","size":17,"edges":73,"triangles":208,"max_degree":12,"top_function":"wound healing","top_go_terms":[{"id":"GO:0043525","count":15},{"id":"GO:0034351","count":13},{"id":"GO:0007420","count":13},{"id":"GO:0016525","count":13},{"id":"GO:0031274","count":12}]},{"hash":"300582374818030461","title":"Cell Signaling and Transport","description":"The cluster is dominated by GO terms related to signaling pathways and intracellular transport, including Rap and Rho signaling, PKC signaling, VEGF receptor signaling, thrombin-activated receptor signaling, and intracellular protein transport. Cardiac muscle contraction terms also appear, suggesting links to signaling networks that regulate contractile function. A DNA repair term is present but represents a smaller, divergent function within the set. Overall, the proteins cluster around signal transduction and trafficking functions, with some variability.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":3},{"id":"GO:0032486","count":3},{"id":"GO:0070528","count":3},{"id":"GO:0006281","count":2},{"id":"GO:0035023","count":2}]},{"hash":"28679403187126614","title":"Embryonic Development and Morphogenesis","description":"The top GO terms cluster around embryonic development and tissue morphogenesis\u2014cartilage morphogenesis, EMT in endocardial cushion formation, placental and pancreatic cell development, left-right patterning, trophoblast differentiation, and cell-cell junction organization\u2014with NFAT signaling regulation linking developmental processes. These collectively indicate a coherent theme of embryogenesis and organ morphogenesis rather than a single tissue type.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060536","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0060806","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0060707","count":5}]},{"hash":"661995841969076784","title":"Developmental transcription and cell cycle control","description":"This cluster centers on DNA-templated transcription and cell division (with spinal cord development as a developmental context), plus regulatory features like protein homooligomerization and GTPase activity modulation, suggesting a theme of gene expression control during development and proliferation; some metabolic terms are less tightly connected.","confidence":"Medium","size":17,"edges":15,"triangles":1,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0021510","count":4},{"id":"GO:0043984","count":3},{"id":"GO:0007584","count":3},{"id":"GO:0043547","count":3}]},{"hash":"201231106128074530","title":"Synapse Assembly and Signaling","description":"Most of the top GO terms converge on neuronal communication and related signaling and trafficking: synapse assembly, long-term synaptic potentiation, IP3 biosynthesis (phospholipid signaling), regulation of Ras and Rho signaling, and intracellular protein transport. While a few terms relate to immune or endocrine processes, the dominant theme is synaptic signaling and vesicle trafficking, suggesting proteins involved in neuronal communication and intracellular transport. Confidence: Medium","confidence":"","size":17,"edges":38,"triangles":25,"max_degree":13,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0002316","count":16},{"id":"GO:0046580","count":16},{"id":"GO:0007416","count":16},{"id":"GO:0009395","count":16},{"id":"GO:0060291","count":16}]},{"hash":"568608593427713425","title":"Embryonic development and morphogenesis","description":"The terms cluster around developmental processes in embryogenesis: palate (roof of mouth) development, mesoderm development, left-right pattern formation, hair follicle morphogenesis, and placenta-related differentiation. While there are some general cellular processes (splicing, ribosomal export, transcription regulation) present, the dominant signal is tissue patterning and organ morphogenesis during development. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0060021","count":12},{"id":"GO:1903026","count":11},{"id":"GO:0010957","count":11},{"id":"GO:0032298","count":11},{"id":"GO:0060972","count":11}]},{"hash":"1035346518191204673","title":"Ribosome Biogenesis and rRNA Processing","description":"The prominent GO terms point to ribosome assembly and maturation, including 90S preribosome assembly, box C/D snoRNP assembly, and ITS1 cleavage upstream of rRNA\u2014indicating coordinated rRNA processing and ribosome biogenesis. Other terms like DNA transposition or endothelial proliferation appear as noise/outliers, but the ribosome-related terms provide a coherent core function for the cluster.","confidence":"High","size":17,"edges":22,"triangles":5,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006313","count":2},{"id":"GO:0031274","count":2},{"id":"GO:0007050","count":2},{"id":"GO:0001938","count":2},{"id":"GO:0060135","count":2}]},{"hash":"254164387988176215","title":"Mitotic Division and Endocytic Trafficking","description":"Most represented GO terms cluster around mitosis and spindle dynamics (cell division, mitotic spindle assembly, exit from mitosis, mitotic cell cycle) alongside vesicle trafficking processes (multivesicular body assembly/sorting and endocytic recycling). This suggests the proteins jointly participate in chromosome segregation and vesicular trafficking linked to cell division, making the label descriptive. Some terms like heart contraction and multicellular growth are broader or context-dependent but do not override the dominant themes.","confidence":"Medium","size":17,"edges":39,"triangles":48,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":11},{"id":"GO:0090307","count":10},{"id":"GO:0071985","count":10},{"id":"GO:0036258","count":10},{"id":"GO:0010458","count":10}]},{"hash":"222406839928616030","title":"Mitochondrial-Vacuolar Ion Transport and Energy Metabolism","description":"These proteins emphasize ion transport across membranes (sodium, proton transmembrane transport), vacuolar processes (vacuole organization and acidification), and mitochondrial-related energy activities (proton motive force-driven ATP synthesis, regulation of cellular respiration). They also include organelle targeting (protein targeting to vacuole/mitochondrion) and mitochondrial autophagy, plus copper ion homeostasis. Together, this points to a coordinated theme of organelle ion homeostasis and energy management involving mitochondria and vacuoles, with protein trafficking underpinning these functions.","confidence":"High","size":17,"edges":126,"triangles":553,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006814","count":3},{"id":"GO:0006623","count":3},{"id":"GO:0006878","count":3},{"id":"GO:0006626","count":3},{"id":"GO:0007033","count":3}]},{"hash":"346302424624682528","title":"Macrophage Innate Immunity and Inflammatory Signaling","description":"Most of the top GO terms describe innate immune responses centered on macrophages (innate immune response, macrophage activation, regulation of cytokines such as IL-18 and MIP-1\u03b1), with modulation of key signaling pathways (negative regulation of NF-kappaB, ERK1/2 cascade) and interferon production. The presence of response to vitamin D and plasma membrane repair suggests a broader macrophage-related immune activation and cellular stress context. Together these terms indicate a cluster enriched for macrophage-driven innate immunity and inflammatory signaling.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032479","count":17},{"id":"GO:0070373","count":17},{"id":"GO:0042116","count":17},{"id":"GO:0051770","count":17},{"id":"GO:0033280","count":17}]},{"hash":"291765105808675389","title":"Unknown","description":"The GO terms span learning, responses to stimuli, transcription and cell-cycle regulation, signaling, and development with no single dominant function. Because there is no cohesive theme uniting the terms, the cluster cannot be confidently assigned a specific biological role.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001975","count":1},{"id":"GO:0008542","count":1},{"id":"GO:0030307","count":1},{"id":"GO:0007621","count":1},{"id":"GO:1900087","count":1}]},{"hash":"1126340692454808094","title":"Embryonic Development and Morphogenesis","description":"The cluster is dominated by GO terms tied to developmental processes and tissue patterning, including embryonic development, left-right pattern formation, cartilage morphogenesis, endocardial cushion formation, endocrine system development, and pancreatic cell development. While a few terms relate to basic RNA processing, the prominent theme is developmental programs and organ morphogenesis, particularly heart and tissue patterning.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":6},{"id":"GO:0035270","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0003198","count":6},{"id":"GO:0060806","count":6}]},{"hash":"2201495904628113852","title":"Gametogenesis and meiotic regulation","description":"The cluster is dominated by germ cell development and meiotic terms (spermatogenesis, oogenesis, female meiosis chromosome segregation, oocyte growth, female germ-line stem cell maintenance) and post-transcriptional control (negative regulation of translation, mRNA deadenylation). A few neuron-related terms appear but are sparsely represented, suggesting the main theme is reproductive cell development and meiotic control. Confidence in this theme is Medium.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007283","count":1},{"id":"GO:0045835","count":1},{"id":"GO:1900153","count":1},{"id":"GO:0045886","count":1},{"id":"GO:0036099","count":1}]},{"hash":"1363628747906183108","title":"Embryonic development and organogenesis","description":"The top GO terms point to broad developmental processes across multiple tissues (eye, thyroid, cortex, skeletal muscle) along with DNA-templated transcription and signaling regulation. With no single shared pathway evident and diverse tissue mentions, the cluster likely represents general developmental regulation and organogenesis rather than a specific function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0061298","count":8},{"id":"GO:0030878","count":7},{"id":"GO:0006915","count":7},{"id":"GO:0050853","count":7}]},{"hash":"23805292386829197","title":"Cytoskeletal remodeling and morphogenesis","description":"The top GO terms cluster around actin cytoskeleton reorganization, spindle\u2013kinetochore attachment, neural tube closure, and dendritic spine morphogenesis, with signaling pathways (VEGF, Wnt) that regulate development. Together these points emphasize cytoskeletal dynamics driving morphogenetic processes across neural, vascular, and immune contexts.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:2000251","count":17},{"id":"GO:0051316","count":16},{"id":"GO:0001843","count":16},{"id":"GO:0060997","count":16},{"id":"GO:0002688","count":16}]},{"hash":"1890531371143763477","title":"Unknown","description":"The top GO terms span diverse processes\u2014including mitotic cell cycle, neural development (neural tube closure, dendritic spine morphogenesis), sensory function (visual perception), immune signaling (innate immune response, leukocyte chemotaxis), spindle attachment in meiosis, VEGF signaling, and autophagy regulation\u2014showing no single cohesive function that ties the cluster together. Therefore a specific, representative label cannot be assigned.","confidence":"","size":17,"edges":52,"triangles":51,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":17},{"id":"GO:0071276","count":16},{"id":"GO:0045087","count":16},{"id":"GO:0007601","count":15},{"id":"GO:0051316","count":14}]},{"hash":"1600334910461332881","title":"Macrophage Innate Immune Signaling","description":"This cluster centers on innate immune pathways in macrophages, including regulation of type I interferon production, NF-kappaB and ERK signaling, macrophage activation, and cytokine control (IL-18, MIP-1 alpha), with supporting signals from vitamin D\u2013related responses and plasma membrane repair, indicating coordinated macrophage-mediated innate immunity regulation.","confidence":"High","size":17,"edges":54,"triangles":62,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032479","count":17},{"id":"GO:0070373","count":17},{"id":"GO:0042116","count":17},{"id":"GO:0051770","count":17},{"id":"GO:0033280","count":17}]},{"hash":"220139465539918300","title":"Rab/Rap GTPase signaling and endosomal trafficking","description":"The cluster is enriched for Rap and Rab GTPase signaling terms (Rap signal transduction, activation of GTPase activity, regulation of Rab signaling) along with intracellular transport processes (plasma membrane to endosome transport, endosomal trafficking, recycling endosome to Golgi transport). This points to a cohesive function centered on small GTPase\u2013mediated control of vesicle trafficking and membrane signaling, particularly endosomal pathways, with GPCR-related signaling also represented. ","confidence":"High","size":17,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032486","count":4},{"id":"GO:0090630","count":3},{"id":"GO:0032483","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0048227","count":2}]},{"hash":"913499468246178499","title":"Embryonic development and organogenesis","description":"The top GO terms point to broad embryonic and organ formation processes (heart and cranial skeleton development, organ induction, neuron migration, multicellular organism development, and single fertilization). Regulatory activities like negative transcriptional regulation and autoubiquitination likely support developmental control, reinforcing a cohesive theme of embryonic development and morphogenesis.","confidence":"High","size":17,"edges":133,"triangles":638,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0048536","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0003350","count":3},{"id":"GO:0001759","count":3},{"id":"GO:0007275","count":3}]},{"hash":"863335971929416235","title":"Antiviral innate immunity and cytokine signaling","description":"The cluster shows multiple virus-defense and innate immune terms: defense response to virus, positive regulation of interferon-beta production, RIG-I signaling, and IL-1\u03b2 production, plus regulation of viral transcription and entry. This suggests a coordinated antiviral response and inflammatory signaling, with some membrane repair aspects during infection.","confidence":"High","size":17,"edges":61,"triangles":95,"max_degree":16,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051607","count":6},{"id":"GO:0001778","count":4},{"id":"GO:1901253","count":4},{"id":"GO:0050718","count":4},{"id":"GO:0002437","count":4}]},{"hash":"826971818517030859","title":"Central Carbon Metabolism","description":"Top GO terms cluster around energy-generating pathways (glycolysis, TCA cycle, gluconeogenesis) and nutrient/hypoxia responses, indicating a module focused on carbon flux and energy homeostasis rather than a single specific process. The inclusion of canonical glycolysis and tricarboxylic acid cycle terms supports a central metabolism interpretation, with related nutrient signaling. This name captures the shared functions of these proteins as a cohesive energy/metabolism module.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0007584","count":5},{"id":"GO:0006099","count":5},{"id":"GO:0006096","count":4},{"id":"GO:0001666","count":4}]},{"hash":"406418993468820468","title":"Metabolism and Protein Synthesis with Calcium and Angiogenesis","description":"This cluster features carbohydrate metabolic process, lipid storage, and various catabolic activities, indicating overall metabolic engagement. It also includes translation-related terms, including valyl-tRNA and mitochondrial tyrosyl-tRNA aminoacylation, pointing to protein synthesis machinery. The presence of intracellular calcium ion homeostasis and of angiogenesis/vasculogenesis terms suggests coordinated signaling for vascular development. Taken together, the proteins seem to connect metabolic energy processing with protein production and vascular formation.","confidence":"Medium","size":17,"edges":17,"triangles":8,"max_degree":5,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0005975","count":4},{"id":"GO:0006874","count":3},{"id":"GO:0019915","count":3},{"id":"GO:0019700","count":3},{"id":"GO:0019262","count":3}]},{"hash":"251609199092223061","title":"Embryonic Development and Neural Morphogenesis","description":"The cluster is enriched for DNA-templated transcription and multiple developmental processes (mesoderm formation, neural tube closure) plus neuronal differentiation features (dendritic spine morphogenesis). It also includes signaling pathways (VEGF receptor signaling, Wnt signaling) and cytoskeletal/mitotic components (kinetochore attachment), all pointing to coordinated embryonic development and neural maturation. Some terms (autophagy regulation, leukocyte chemotaxis) are ancillary but do not override the dominant developmental theme.","confidence":"High","size":17,"edges":58,"triangles":115,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":13},{"id":"GO:0001707","count":13},{"id":"GO:0046827","count":13},{"id":"GO:0051316","count":12},{"id":"GO:0001843","count":12}]},{"hash":"1132789350765690609","title":"Ribosome Biogenesis, Translation, and Cell Cycle","description":"The top GO terms cluster around ribosome assembly/biogenesis, subunit export, cytoplasmic translation, and tRNA modification, indicating a core focus on ribosome production and function. Additional terms about cell division and the cell cycle imply this ribosome-related activity is coordinated with cell proliferation, suggesting a cohesive module linking ribosome biogenesis/translation to cell cycle control.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0090529","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0002181","count":2}]},{"hash":"73541170388189919","title":"Rho-Mediated Cytoskeleton Remodeling and Synaptic Regulation","description":"The top GO terms center on Rho protein signaling and actin cytoskeleton remodeling, implying roles in cytoskeletal dynamics and cell movement. Additional terms touch on development (face development, multicellular growth) and neural signaling (glutamatergic synaptic transmission, regulation of synaptic plasticity, ephrin signaling), suggesting a cohesive theme where cytoskeletal remodeling interfaces with developmental and synaptic regulatory pathways. Overall, the cluster appears to group proteins coordinating cytoskeletal changes with signaling that influences migration and synaptic function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":4},{"id":"GO:0007266","count":4},{"id":"GO:0060324","count":3},{"id":"GO:0035249","count":3},{"id":"GO:0010761","count":3}]},{"hash":"1671881756528723023","title":"Endolysosomal Trafficking and Autophagy","description":"The set of GO terms centers on endosome transport, Golgi-to-lysosome trafficking, lysosome targeting, ER tubular network formation, and aggrephagy, all pointing to a cohesive role in the endolysosomal system and autophagic pathways. The presence of Rap signaling and actin-related microspike assembly further supports coordinated membrane trafficking and remodeling. Overall, these proteins likely participate in endolysosomal transport and autophagy processes.","confidence":"High","size":17,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048227","count":1},{"id":"GO:0071787","count":1},{"id":"GO:0007183","count":1},{"id":"GO:0030035","count":1},{"id":"GO:1904562","count":1}]},{"hash":"1080804596655442543","title":"Neuronal development and synaptic signaling","description":"Top GO terms point to neural development and synaptic function: neuron projection development, CNS development, nerve impulse transmission, and regulation of AMPA receptor activity, with additional hints of axon regeneration. A few terms (skeletal system development, GI epithelium maintenance, virion attachment) are tangential or broader. Overall, the cluster is best described as neuronal development with synaptic regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":3},{"id":"GO:0007417","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0006910","count":3},{"id":"GO:0019226","count":3}]},{"hash":"1574915487741773524","title":"Neural development and synaptic organization","description":"This cluster is dominated by GO terms related to nervous system development and components of synapses (axon guidance; neurotransmitter secretion; postsynaptic density clustering; postsynaptic membrane assembly), indicating roles in neural connectivity and synapse formation. Additional terms for neural tube closure and myoblast/muscle development appear but do not override the neural/synaptic theme; exosome assembly and wound healing may reflect ancillary signaling contexts in neural tissue.","confidence":"High","size":17,"edges":30,"triangles":25,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0007411","count":3},{"id":"GO:0007399","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0055002","count":2},{"id":"GO:1903553","count":2}]},{"hash":"227082691920232266","title":"Neural Cell Adhesion Molecules and Immune Regulation","description":"The cluster is dominated by cell-cell adhesion terms (homophilic and heterophilic) and nervous system development, pointing to neural adhesion molecules guiding neuron connections and tissue organization, with localization to cell junctions supporting this role. The presence of coreceptor-mediated virion attachment and symbiont entry terms suggests these adhesion-related receptors may also participate in pathogen interactions. Additionally, immune-modulatory terms (regulation of macrophage activation and NK cell cytotoxicity) imply these proteins may influence immune signaling at tissue interfaces, such as neural or barrier tissues. Overall, the set seems to reflect neural adhesion molecules with ancillary immunomodulatory and pathogen-interaction functions.","confidence":"High","size":17,"edges":3,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":14},{"id":"GO:0007157","count":14},{"id":"GO:0007399","count":13},{"id":"GO:0046814","count":12},{"id":"GO:1902414","count":12}]},{"hash":"886977286474834364","title":"GI mucosal immunity and epithelial barrier","description":"The cluster is enriched for immune signaling terms (Fc-epsilon receptor signaling, complement activation, innate immune response, T cell proliferation, CCR7 signaling) and barrier-related terms (maintenance of gastrointestinal epithelium, protein localization to cell junction). This combination suggests proteins functioning at the mucosal surface to coordinate immune responses with epithelial barrier integrity, including defense against bacteria and possible interactions with viruses. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0038095","count":5},{"id":"GO:0006958","count":5},{"id":"GO:0006855","count":4},{"id":"GO:0030277","count":4},{"id":"GO:0046814","count":4}]},{"hash":"2258586892773799645","title":"Diverse transmembrane transport","description":"These proteins are enriched for transmembrane transport activities across many substrates: vitamins, arabinose, phosphate, fucose, sialic acid, xenobiotics, nitrate, and sodium ions, plus a GO term for neurotransmitter loading into synaptic vesicles. The common theme is transporting a variety of molecules across membranes, rather than a single substrate or pathway, suggesting a family of broad-spectrum or vesicular transporters.","confidence":"High","size":17,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":10},{"id":"GO:0015751","count":10},{"id":"GO:0035435","count":10},{"id":"GO:0006004","count":10},{"id":"GO:0015739","count":10}]},{"hash":"1106295110368928081","title":"Dendrite Morphogenesis and Synapse Assembly","description":"The top GO terms are dominated by neuronal development, dendrite self-avoidance, dendritic spine morphogenesis, neuron\u2013cell adhesion, and synapse assembly, all pointing to proteins coordinating dendritic architecture and synaptic formation. Receptor tyrosine kinase signaling and cell\u2013cell adhesion terms further support a role in neuronal connectivity; a few ECM/development terms may reflect broader developmental contexts but do not alter the central neuronal theme.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":11},{"id":"GO:0007169","count":10},{"id":"GO:0070593","count":10},{"id":"GO:0001822","count":9},{"id":"GO:0030199","count":9}]},{"hash":"1050796549098196815","title":"Proteoglycan biosynthesis and cartilage ECM","description":"The cluster is dominated by GO terms for chondroitin sulfate and dermatan sulfate proteoglycan biosynthesis, along with UDP-N-acetylgalactosamine metabolism and sulfation, which together point to glycosaminoglycan production and extracellular matrix assembly. Related terms like chondrocyte development and semicircular canal formation further suggest roles in cartilage and inner-ear matrix development, making the proteoglycan/ECM biosynthesis theme clear despite a few outliers.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0050650","count":7},{"id":"GO:0050651","count":6},{"id":"GO:0019276","count":5},{"id":"GO:0075015","count":5},{"id":"GO:0071555","count":5}]},{"hash":"1630367895280002690","title":"Redox and Retinoid Metabolism with Endothelial Signaling","description":"The GO terms point to redox homeostasis and oxidation-reduction processes, combined with retinol/retinoic acid metabolism and regulation of endothelial cell migration, suggesting a cohesive theme around redox-regulated retinoid signaling influencing vascular behavior and signaling pathways. Some terms also reflect stress responses and respiration, which can tie into redox balance in tissues.","confidence":"Medium","size":17,"edges":42,"triangles":71,"max_degree":8,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0045454","count":7},{"id":"GO:0055114","count":6},{"id":"GO:0043535","count":6},{"id":"GO:0042572","count":4},{"id":"GO:1900116","count":4}]},{"hash":"662979914996787957","title":"N-glycan processing and glycosphingolipid biosynthesis","description":"The GO terms are dominated by N-glycosylation and glycan processing (N-glycan processing, N-linked glycosylation via asparagine, oligosaccharide metabolic process, sialylation) and by ganglioside/glycosylceramide biosynthesis, pointing to glycosylation pathways and glycosphingolipid metabolism as the shared theme. Some pollen/nerve-related terms appear but likely reflect broader roles of cell-surface glycans in development and signaling; core function centers on protein and lipid glycosylation. ","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006491","count":6},{"id":"GO:0021628","count":6},{"id":"GO:0009846","count":6},{"id":"GO:0018279","count":6},{"id":"GO:0009311","count":6}]},{"hash":"49644695577248109","title":"Unknown","description":"The GO terms are scattered across neuronal signaling (excitatory postsynaptic potential; clustering of voltage-gated sodium channels), immune signaling (Fc-epsilon receptor signaling; complement activation), and various catabolic/metabolic processes, plus an unrelated plant development term. The lack of a single, cohesive biological theme means a confident, specific label cannot be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0042220","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0045162","count":2},{"id":"GO:0038095","count":2}]},{"hash":"893798900846780223","title":"Lipid metabolism and signaling","description":"The GO terms cluster around phospholipid catabolism/dephosphorylation, regulation of sphingolipid signaling, and membrane-associated lipid processing (CAAX-box protein processing), indicating a theme of lipid remodeling and lipid-mediated signaling at membranes, with ancillary metabolic transport terms. Confidence: Medium","confidence":"","size":17,"edges":41,"triangles":51,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0071586","count":2},{"id":"GO:0030643","count":2},{"id":"GO:0035435","count":2},{"id":"GO:0048016","count":2},{"id":"GO:0009395","count":2}]},{"hash":"602029935018141847","title":"Vascular remodeling and coagulation","description":"The cluster is dominated by extracellular matrix organization and cell-matrix interactions (collagen fibril organization, cell-matrix adhesion), coupled with regulation of angiogenesis, vascular permeability, and endothelial migration, along with platelet activation, fibrinolysis, and complement activation. This combination points to coordinated vascular remodeling and hemostatic/coagulation processes rather than a single enzyme pathway.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030199","count":10},{"id":"GO:0016525","count":9},{"id":"GO:0007160","count":8},{"id":"GO:0043116","count":7},{"id":"GO:0045907","count":7}]},{"hash":"209194530363178378","title":"Developmental Signaling and Differentiation","description":"The cluster shows GO terms spanning development, differentiation, and signaling across tissues (e.g., synapse assembly, cell surface receptor signaling, angiogenesis, gonad and spermatid differentiation, keratinocyte differentiation, wing fate). This suggests a broad theme of developmental signaling and tissue differentiation rather than a single specific process.","confidence":"Medium","size":17,"edges":99,"triangles":286,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":5},{"id":"GO:0007166","count":3},{"id":"GO:0042220","count":3},{"id":"GO:0030216","count":3},{"id":"GO:2001027","count":3}]},{"hash":"582944918151418718","title":"Developmental morphogenesis and neuro-immune signaling","description":"The terms point to roles in broad developmental processes across multiple tissues (axon guidance and regeneration, pigmentation development, gland morphogenesis, embryonic hematopoiesis, dendritic cell differentiation) plus innate immune involvement, suggesting these proteins participate in tissue development with neural and immune context. This provides a cohesive theme beyond a single pathway.","confidence":"Medium","size":17,"edges":60,"triangles":96,"max_degree":11,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":16},{"id":"GO:0038091","count":15},{"id":"GO:0048691","count":15},{"id":"GO:0060445","count":15},{"id":"GO:0097326","count":15}]},{"hash":"1306949076277818916","title":"Embryonic morphogenesis and organ development","description":"The terms cluster around vertebrate embryonic development and morphogenesis\u2014mesoderm formation, left-right patterning, cartilage and facial morphogenesis, EMT in heart structures, hair follicle development, and endocrine system development\u2014indicating a cohesive theme of tissue differentiation and organogenesis. The ribosomal large subunit export term appears as a general cellular process and does not define the cluster\u2019s main function.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0000055","count":17},{"id":"GO:0035270","count":17},{"id":"GO:0060021","count":17},{"id":"GO:0060536","count":17},{"id":"GO:0003198","count":17}]},{"hash":"1407584237710741754","title":"Developmental Transcriptional Regulation and Patterning","description":"The top GO terms cluster around transcriptional control (RNA polymerase II\u2013mediated transcription and miRNA transcription) and developmental patterning (left/right pattern formation, anterior/posterior axis specification, imaginal disc fusion). This suggests the proteins function together in regulating gene expression during development and body axis organization. Immune-related terms (natural killer cell cytotoxicity, interferon production) and muscle stretch/locomotion hints are likely secondary or broader annotations, not defining the main theme. Overall, the dominant signal is transcriptional regulation linked to developmental patterning.","confidence":"Medium","size":16,"edges":105,"triangles":405,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0035470","count":7},{"id":"GO:0006366","count":7},{"id":"GO:0060972","count":6},{"id":"GO:0045078","count":5},{"id":"GO:0035994","count":5}]},{"hash":"436283656868369737","title":"Retroviral Entry, Integration, and Latency","description":"This cluster centers on processes typical of retroviral infection and proviral lifecycle: entry into host cells, nuclear penetration, RNA-templated DNA synthesis, and integration into the host genome to establish proviral latency. The presence of DNA replication and recombination terms, along with negative regulation of siRNA processing and apoptotic-related GO terms, supports a theme of viral genome integration and modulation of host defenses and apoptosis. Confidence: High","confidence":"","size":16,"edges":115,"triangles":497,"max_degree":15,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:1903704","count":14},{"id":"GO:0046718","count":14},{"id":"GO:0039651","count":14},{"id":"GO:0006278","count":14},{"id":"GO:0075732","count":14}]},{"hash":"1598178008746402915","title":"Unknown","description":"The top GO terms span mitochondria-related processes, memory, surfactant/homeostasis, lung development, peptide catabolism, and collagen/ossification, with no clear common function or enriched theme. The sparse connectivity (one edge, no triangles) and presence of obsolete terms suggest no coherent cluster function can be inferred.","confidence":"","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1903955","count":4},{"id":"GO:0007614","count":3},{"id":"GO:0043129","count":3},{"id":"GO:0010813","count":3},{"id":"GO:0060448","count":3}]},{"hash":"2297582417507099549","title":"Embryonic development and organogenesis","description":"The top GO terms cluster around early and organ-level development: gastrulation epiboly, heart tube patterning, aorta and bone ossification, inner ear differentiation, and neural axon fasciculation, all pointing to coordinated tissue morphogenesis and organ formation. The inclusion of multicellular development and cell\u2013cell adhesion supports a general theme of developmental processes that shape multiple organ systems during embryogenesis. Though diverse, these terms collectively describe a developmental program guiding patterning, differentiation, and morphogenesis across skeletal, cardiovascular, sensory, and nervous systems, with cell adhesion and signaling likely coordinating these events.","confidence":"High","size":16,"edges":66,"triangles":155,"max_degree":12,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0043931","count":12},{"id":"GO:0072218","count":12},{"id":"GO:0007275","count":12},{"id":"GO:0035904","count":12},{"id":"GO:0042491","count":12}]},{"hash":"1029339090555322946","title":"ER Folding and Secretory Pathway Quality Control","description":"The terms cluster around ER-based protein folding, targeting to membranes, misfolded protein transport, and redox homeostasis, all central to proteostasis and quality control in the secretory pathway. A DNA replication term appears among the top terms, but the dominant signal is protein folding/trafficking quality control.","confidence":"High","size":16,"edges":113,"triangles":472,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0031204","count":15},{"id":"GO:0034975","count":15},{"id":"GO:0090084","count":15},{"id":"GO:0006260","count":15},{"id":"GO:0070389","count":15}]},{"hash":"53806719445533125","title":"Ubiquitin-Proteasome Regulation and NF-kB Signaling","description":"The cluster is dominated by GO terms about ubiquitination (autoubiquitination, K6/K48/K63-linked), ubiquitin-dependent proteasomal degradation, and histone catabolism, plus regulatory effects on NF-kappaB and TNF signaling and transcription. This pattern points to a cohesive role in tagging proteins for degradation and modulating inflammatory signaling and transcription.","confidence":"High","size":16,"edges":55,"triangles":93,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0036205","count":7},{"id":"GO:0051865","count":7},{"id":"GO:1903265","count":7},{"id":"GO:0085020","count":7},{"id":"GO:0070936","count":7}]},{"hash":"2064433177042569085","title":"Inflammation, complement, and angiogenesis regulation","description":"The top GO terms point to inflammatory processes (inflammatory response), complement pathways (complement activation, alternative pathway and lectin pathway regulation), and vascular remodeling (angiogenesis and VEGF production), with supporting signals for macrophage chemotaxis, osteoclast fusion, and apoptotic cell clearance. This combination suggests a cluster centered on immune-mediated regulation of inflammation and tissue vascularization/remodeling, rather than a single narrow function.","confidence":"Medium","size":16,"edges":11,"triangles":3,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010760","count":5},{"id":"GO:0006957","count":5},{"id":"GO:0010575","count":5},{"id":"GO:0072675","count":5},{"id":"GO:2000427","count":5}]},{"hash":"737875761801450619","title":"Endomembrane vesicle trafficking and Golgi localization","description":"The top GO terms point to ER-to-Golgi vesicle transport, endosome-to-Golgi and endosome-to-late endosome trafficking, CVT pathway targeting, endocytosis, and vesicle sorting to MVBs, all central to the endomembrane secretory and trafficking system, plus establishment of Golgi localization. This cohesive set strongly suggests proteins involved in vesicle formation, trafficking, and localization within the Golgi/endosomal network, with a tangential link to cell wall biosynthesis regulation. Some terms are peripheral, but the core theme is vesicle trafficking and Golgi localization.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006888","count":10},{"id":"GO:0034498","count":9},{"id":"GO:1903078","count":8},{"id":"GO:0045022","count":8},{"id":"GO:0032258","count":8}]},{"hash":"2259519521743904677","title":"Neural RNA metabolism and brain development","description":"The cluster centers on RNA metabolism functions\u2014stability, splicing, and decay\u2014paired with neural-related processes such as regulation of neuronal action potential and forebrain pallium development, suggesting a link between RNA processing and neural function/development. Some terms appear as outliers (e.g., carotene biosynthesis, viral interactions), but the dominant theme ties RNA processing to neural biology. ","confidence":"Medium","size":16,"edges":98,"triangles":323,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0010610","count":14},{"id":"GO:0098908","count":8},{"id":"GO:0048024","count":8},{"id":"GO:0006402","count":8},{"id":"GO:0010738","count":8}]},{"hash":"1784339771023968157","title":"Developmental chromatin regulation and transcription control","description":"The cluster is enriched for chromatin-related terms (CENP-A chromatin assembly, histone H3 acetylation, histone methylation) and transcription regulation (negative regulation of transcription by RNA Pol II/I), along with developmental processes (brain development, spermatogenesis, osteoblast differentiation, gonadal development). This suggests proteins coordinating chromatin state with developmental gene expression.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0001649","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0061641","count":4},{"id":"GO:0043966","count":4}]},{"hash":"224867778384369053","title":"Innate immune signaling and transcription regulation","description":"The cluster\u2019s terms center on transcriptional control (DNA-templated transcription, transcription regulation) and innate immune processes (innate immune response, regulation of signaling cascades like JNK, NF-kappaB activity). Ubiquitination suggests post-translational regulation of these pathways, while microtubule localization and centrosome-related terms, along with hemopoiesis, align with immune cell development and cell-cycle context. Together, these proteins likely function in innate immune signaling with coordinated transcriptional regulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0046328","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0016567","count":2}]},{"hash":"691604178688033295","title":"Dendritic spine morphogenesis and Rho\u2013actin signaling","description":"This cluster is dominated by terms tied to regulation of Rho signaling and actin cytoskeleton organization, together with dendritic spine morphogenesis and related neuronal signaling (e.g., JNK cascade, cellular responses). While there are immune-related terms (T cell signaling, thymus development) present, the strongest and most coherent theme centers on cytoskeletal remodeling governing dendritic spine formation and neural signaling, driven by Rho GTPase pathways and actin dynamics.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":15},{"id":"GO:0060997","count":14},{"id":"GO:0046328","count":12},{"id":"GO:0071732","count":12},{"id":"GO:0008286","count":12}]},{"hash":"1384473831085630107","title":"Developmental transcription regulation and chromatin remodeling","description":"This cluster centers on transcriptional control (DNA-templated transcription, RNA guanine-N7-methylation, and negative regulation of transcription by RNA polymerase II) and chromatin remodeling, with developmental terms like neural tube closure and multicellular growth suggesting roles in organismal development. While a few terms (taste perception, certain signaling-related GO terms) are less directly tied to core transcriptional regulation, the prevalent themes point to gene expression control during development. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0036265","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0043044","count":2}]},{"hash":"1177954384698106955","title":"Neurovascular development signaling","description":"The top GO terms cluster around brain development and angiogenesis, with supporting GPCR signaling and ERK cascade activity, suggesting coordinated signaling for neurovascular growth; additional terms on leukocyte migration and metabolic response indicate broader regulatory context.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":3},{"id":"GO:0071333","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0002523","count":3},{"id":"GO:0007420","count":3}]},{"hash":"1084289548578181534","title":"Embryonic Eye Morphogenesis","description":"The cluster is dominated by GO terms related to eye development, including embryonic eye morphogenesis and camera-type eye development, indicating proteins involved in early eye formation. While there are additional developmental and transcription regulation terms, the strongest recurring theme centers on eye morphogenesis during embryogenesis.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":14},{"id":"GO:0048048","count":13},{"id":"GO:0060441","count":12},{"id":"GO:0043010","count":12},{"id":"GO:0060065","count":12}]},{"hash":"1454598048792586429","title":"Embryonic differentiation programs","description":"This cluster includes proteins linked to multiple lineage differentiation events across development: hemangioblast differentiation, endocardial cushion EMT for heart valve formation, somitogenesis, lung vasculature development, skeletal muscle differentiation, amacrine cell differentiation, and pigmentation, all suggesting broad embryonic tissue specification. The presence of transcription by RNA polymerase II supports active gene regulation during these development programs. While an outlier like oxidative stress-induced premature senescence appears, the strongest signal is coordinated developmental differentiation across multiple tissues, justifying a unified label focused on embryonic differentiation. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060217","count":5},{"id":"GO:0003199","count":5},{"id":"GO:0090403","count":5},{"id":"GO:0043433","count":5},{"id":"GO:0043473","count":5}]},{"hash":"2160088393122643783","title":"Immune Cell Migration and Cytoskeleton Dynamics","description":"The cluster centers on immune-related motility and cytoskeletal remodeling, with terms for cell migration and actin organization, plus immune signaling like B cell proliferation and NOD2 pathways. The presence of translation initiation and mRNA processing terms likely reflects general cellular machinery, but the dominant signals point to cytoskeletal regulation linked to immune cell movement.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":3},{"id":"GO:0002322","count":2},{"id":"GO:0030036","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0032088","count":2}]},{"hash":"1337612606013237088","title":"Androgen biosynthesis and prostate development","description":"The dominant GO terms are testosterone biosynthetic process, androgen metabolic process, prostate gland growth, and sex differentiation, pointing to a cluster centered on androgen signaling and male reproductive tissue development. While there are additional terms related to metabolism and immune or stress responses, they appear secondary to the androgen/sex-differentiation theme. ","confidence":"High","size":16,"edges":7,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010430","count":7},{"id":"GO:0061370","count":6},{"id":"GO:0008209","count":6},{"id":"GO:0060736","count":6},{"id":"GO:0010760","count":5}]},{"hash":"2213225715290613578","title":"RNA Processing and Ubiquitin-Proteasome Proteolysis","description":"The cluster is enriched for RNA processing activities (mRNA splicing and rRNA maturation) and ubiquitin-dependent protein turnover (polyubiquitination and SCF-mediated proteasomal degradation), suggesting a module linking RNA metabolism with proteostasis, possibly under stress such as cadmium exposure. Some other terms related to cell cycle and GTPase regulation are present but less central.","confidence":"Medium","size":16,"edges":39,"triangles":50,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":4},{"id":"GO:0000462","count":3},{"id":"GO:0031146","count":3},{"id":"GO:0030174","count":3},{"id":"GO:0000209","count":3}]},{"hash":"1674367893612457983","title":"Ribosome Biogenesis and Translation","description":"The top GO terms center on protein synthesis and ribosome assembly: translation, translational initiation and termination, ribosome biogenesis and small subunit assembly, positive regulation of cytoplasmic translation, and even selenocysteine incorporation. The antibiotic response term also fits as ribosome-targeting effects. Together, they point to a cluster of ribosome and translation machinery components.","confidence":"High","size":16,"edges":115,"triangles":497,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":14},{"id":"GO:0046677","count":6},{"id":"GO:0006413","count":6},{"id":"GO:0042254","count":5},{"id":"GO:0000028","count":4}]},{"hash":"1323383812611757386","title":"Unknown","description":"The top GO terms span multiple tissues and processes (heart development, visual perception, bone/cartilage formation, adipogenesis, neurosecretory signaling, muscle regulation, and cell cycle), with no single cohesive theme that reliably ties them together. ","confidence":"","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0001957","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0033605","count":4}]},{"hash":"758185140773250977","title":"MAPK regulation and mitosis control","description":"The top GO terms cluster around negative regulation of MAPK cascades (ERK/JNK), tyrosine dephosphorylation, and mitosis/cell cycle processes (exit from mitosis, sister chromatid bi-orientation, contractile ring maturation). This suggests a group of phosphatase- and signaling modulators that dampen MAPK activity to coordinate cell division, with some immune signaling connections (T cell receptor, JAK-STAT) and host interaction notes. Overall, the theme is MAPK pathway regulation linked to mitotic control.","confidence":"High","size":16,"edges":64,"triangles":110,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":13},{"id":"GO:0035335","count":13},{"id":"GO:0000200","count":13},{"id":"GO:0007049","count":13},{"id":"GO:0050860","count":13}]},{"hash":"890703383702686039","title":"Insect imaginal disc development and proliferation","description":"The cluster centers on transcriptional regulation and developmental processes tied to morphogenesis of imaginal structures such as the compound eye and antennae, along with mitotic cell cycle activity. This suggests proteins coordinating growth, proliferation, and organ development in an insect model (likely Drosophila). Some obsolete GO terms related to polyadenylation appear, likely annotation artifacts, but the core signal is developmental growth and tissue morphogenesis in insect imaginal discs.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0061053","count":3},{"id":"GO:0035736","count":3},{"id":"GO:0072756","count":3}]},{"hash":"1748772384046115188","title":"Glycolysis/PPP Regulation and Mitochondrial Stress","description":"This cluster is dominated by terms tied to energy metabolism and mitochondrial regulation: glycolysis and PPP flux control (glycolytic regulation, fructose 2,6-bisphosphate metabolism, PPP shunt), along with mitophagy regulation and respiratory burst, indicating a focus on metabolic flux and redox/mitochondrial quality control. Some development-related terms appear, but the core theme points to metabolic regulation and mitochondrial stress signaling.","confidence":"Medium","size":16,"edges":80,"triangles":219,"max_degree":13,"top_function":"autophagy","top_go_terms":[{"id":"GO:1902153","count":7},{"id":"GO:0046835","count":7},{"id":"GO:0007585","count":7},{"id":"GO:0006003","count":7},{"id":"GO:1901525","count":7}]},{"hash":"794599893958515277","title":"MAPK pathway regulators and stress response","description":"This cluster is dominated by GO terms indicating negative regulation of MAPK signaling (ERK1/2, JNK) and related kinase activity, with additional links to immune signaling regulation and osmotic stress response, suggesting a cohesive module of signaling inhibition and stress adaptation; a few terms like mRNA capping and kinetochore localization may reflect broader regulatory roles of the proteins.","confidence":"High","size":16,"edges":112,"triangles":464,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":14},{"id":"GO:0000200","count":14},{"id":"GO:0050860","count":14},{"id":"GO:0043508","count":12},{"id":"GO:1902310","count":12}]},{"hash":"1920500049923870483","title":"Developmental Signaling and Morphogenesis","description":"These proteins cluster around developmental signaling and shape-forming processes: neural tube closure, dendritic spine morphogenesis, and VEGF-related signaling, with regulation of Wnt signaling and other morphogenetic pathways. While a few terms touch on autophagy and cell-cycle checkpoints, the dominant theme is signaling pathways governing development and morphological remodeling. ","confidence":"High","size":16,"edges":104,"triangles":442,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051316","count":15},{"id":"GO:0001843","count":15},{"id":"GO:0060997","count":15},{"id":"GO:0002688","count":15},{"id":"GO:0048010","count":15}]},{"hash":"991995996534368711","title":"Cardiac muscle development and heart morphogenesis","description":"The strongest themes in the cluster are heart- and muscle-related: striated muscle cell development, outflow tract morphogenesis, and regulation of SA node cell action potential, along with related developmental terms (corticospinal tract morphogenesis). There are also signals related to vitamin D response, which can intersect cardiac and muscle physiology. A set of terms about antiviral defense appears but does not define the overall function of the cluster, which is best captured by cardiac/muscle development and heart morphogenesis. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0033280","count":4},{"id":"GO:0098907","count":4},{"id":"GO:0032479","count":3},{"id":"GO:0043569","count":3},{"id":"GO:0055002","count":3}]},{"hash":"1788904600518443668","title":"Synaptic plasticity and spine morphogenesis","description":"This cluster is dominated by terms tied to neuronal synapse remodeling and spine formation\u2014long-term synaptic depression, dendritic spine morphogenesis, and positive regulation of synapse structural plasticity, plus retrograde NO signaling at synapses\u2014pointing to roles in synaptic development and plasticity. Additional terms related to cochlear morphogenesis and membrane/polarity localization suggest broader neuronal development and cellular organization, which can accompany synaptic maturation. The carnitine transport term may reflect metabolic support for active synapses. Overall, the strongest shared theme is synaptic structural changes and plasticity in neural contexts.","confidence":"High","size":16,"edges":108,"triangles":458,"max_degree":15,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0060292","count":15},{"id":"GO:0090103","count":15},{"id":"GO:0060997","count":15},{"id":"GO:0045198","count":15},{"id":"GO:0098924","count":15}]},{"hash":"1287313158973522071","title":"NF-kappaB\u2013regulated mechanosensitive adipose signaling","description":"This cluster centers on NF-kappaB pathway regulation (negative regulation and cytoplasmic sequestration), with elements of mechanosensing (cellular and pain-related responses) and adipose biology (fat cell and brown fat differentiation) plus related signals like NOD2 and vitamin D response. Despite some obsolete GO terms, the common thread appears to be immune/ NF-kappaB\u2013linked signaling intertwined with mechanosensitive and adipose differentiation processes, rather than a single, unified function.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":11},{"id":"GO:0070431","count":11},{"id":"GO:0050966","count":11},{"id":"GO:0000083","count":11},{"id":"GO:0007253","count":10}]},{"hash":"241631765897431017","title":"Innate Immune Signaling and Interferon Regulation","description":"The GO terms cluster around innate immune signaling and regulation of type I interferon production, with strong ubiquitination signals (including actin ubiquitination) and pathways like the JNK cascade and plasma membrane repair, plus vitamin D\u2013associated immune modulation, pointing to a coherent theme of interferon-regulated innate immunity and post-translational control.","confidence":"High","size":16,"edges":96,"triangles":321,"max_degree":15,"top_function":"autophagy","top_go_terms":[{"id":"GO:0032479","count":15},{"id":"GO:0051865","count":15},{"id":"GO:0033280","count":15},{"id":"GO:0007014","count":15},{"id":"GO:0046328","count":15}]},{"hash":"1844810950371062257","title":"Immune signaling and GTPase-regulated migration","description":"The cluster is enriched for immune-related GO terms (interleukin-7 response, interleukin-4 production, B cell affinity maturation, NK T cell differentiation) and for regulation and signaling by Rho/Rac/Ras small GTPases (cell migration, small GTPase-mediated signal transduction, Rac/Rho regulation). This points to a coherent theme of lymphocyte signaling and motility governed by GTPase pathways, despite the single heart development term as a potential outlier.","confidence":"Medium","size":16,"edges":6,"triangles":1,"max_degree":3,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007507","count":10},{"id":"GO:0046580","count":9},{"id":"GO:0098761","count":9},{"id":"GO:0032633","count":9},{"id":"GO:0002344","count":9}]},{"hash":"1450712480954773483","title":"Unknown","description":"The top GO terms span immune signaling (B cell receptor signaling, T cell differentiation), diverse development processes (skeletal muscle and distal tubule morphogenesis), circadian rhythm, and even plant gravitropism, with no clear shared function linking the proteins. This suggests no coherent theme for the cluster, likely noise or misannotation. ","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0007519","count":4},{"id":"GO:0032298","count":3},{"id":"GO:0045497","count":3},{"id":"GO:1900477","count":3}]},{"hash":"1169063612066845144","title":"Cardiac mechanotransduction","description":"The dominant terms point to mechanotransduction and cardiac signaling: cellular response to mechanical stimulus, detection of mechanical stimulus (pain), SA node to atrial cardiac muscle communication, and regulation of cardiac action-potential depolarization. While a few terms reflect unrelated processes, the main theme is heart mechanosensitive signaling.","confidence":"High","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000083","count":10},{"id":"GO:0032088","count":10},{"id":"GO:0070431","count":9},{"id":"GO:0050966","count":8},{"id":"GO:0007253","count":7}]},{"hash":"1334393107300513623","title":"Neural development and NF-kB signaling","description":"The proteins in this cluster show enrichment for neural development terms (corticospinal tract morphogenesis, corpus callosum development, axonal fasciculation, synapse assembly) alongside NF-kB\u2013related immune signaling (I-kappaB phosphorylation; defense and innate immune responses). This pattern suggests coordinated roles in neural circuit formation that may be modulated by NF-kB\u2013mediated pathways, with additional trafficking and cilium-related terms reflecting neuron-specific cellular processes.","confidence":"Medium","size":16,"edges":10,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":2},{"id":"GO:0021957","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0007252","count":2},{"id":"GO:0051965","count":2}]},{"hash":"225000471521165087","title":"Unknown","description":"The top GO terms cover a wide range of unrelated processes (apoptosis, eye development, circadian rhythm, bone mineralization, vascular remodeling, locomotion, immune response, DNA replication, sperm binding, and ECM disassembly). There is no clear, cohesive biological theme linking these terms, so a single representative label cannot be confidently assigned.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":1},{"id":"GO:0001654","count":1},{"id":"GO:0042747","count":1},{"id":"GO:0030502","count":1},{"id":"GO:0060313","count":1}]},{"hash":"787965366961495007","title":"Cardiovascular development and vascular morphogenesis","description":"This cluster is enriched for terms tied to heart and blood vessel formation and remodeling, including ductus arteriosus closure, cardiac muscle cell differentiation, and smooth muscle tissue development, as well as vascular wound healing. While there are broader developmental terms like neural tube closure and thymus morphogenesis, the strongest, recurring signals point to cardiovascular morphogenesis and vascular differentiation as the core theme.","confidence":"High","size":16,"edges":35,"triangles":39,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0097070","count":4},{"id":"GO:2000727","count":4},{"id":"GO:0001843","count":3},{"id":"GO:0097536","count":3}]},{"hash":"1480755422816266864","title":"GTPase-regulated endosomal trafficking and ubiquitination","description":"The top GO terms center on activation of GTPase activity and various intracellular transport processes (plasma membrane to endosome, intracellular transport, recycling endosome to Golgi), with ubiquitination also represented. This points to a coherent theme of small GTPase\u2013driven vesicle trafficking and its regulation, possibly modulated by ubiquitination and related signaling (including cell migration). Confidence: High","confidence":"","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0090630","count":5},{"id":"GO:0016567","count":3},{"id":"GO:0035556","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0032088","count":3}]},{"hash":"1955490262873116518","title":"Developmental Gene Expression and Signaling","description":"This cluster centers on tissue and organismal development (skeletal muscle, nervous system, cerebellar cortex, multicellular development) and includes core gene-expression processes (DNA-templated transcription, mRNA processing) along with signaling and trafficking aspects (B cell receptor signaling, insulin signaling regulation, protein localization to microtubules, membrane targeting). Taken together, it reflects developmental programs governed by transcriptional control and cellular transport, across multiple tissues.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007519","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0006397","count":2},{"id":"GO:0007399","count":2}]},{"hash":"632101454559047432","title":"Signaling Pathway Regulators and Stress Response","description":"The cluster's top GO terms point to modulation of several pathways, including MAPK cascades (p38, ERK), ER stress and unfolded protein response (PERK), insulin signaling, T cell receptor signaling, cortisol secretion, and endothelial barrier formation. The recurring theme is a set of proteins that regulate multiple signaling and stress-related processes\u2014often as negative regulators of signaling and proliferation\u2014reflecting a cohesive module of signaling control and cellular stress responses.","confidence":"Medium","size":16,"edges":68,"triangles":210,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1903753","count":14},{"id":"GO:0090557","count":14},{"id":"GO:0070373","count":13},{"id":"GO:1902237","count":13},{"id":"GO:0008286","count":13}]},{"hash":"171941601444165702","title":"Unknown","description":"The GO terms span neural processes (myelination, sensory perception of sound), basic cellular activity (phosphorylation), amino-acid biosynthesis, responses to antibiotics and toxins, and viral/symbiont interactions, with no consistent biological theme or connected pathway linking the proteins. The lack of edges/structure and the presence of obsolete terms further argue against a cohesive function, so no meaningful, specific label can be assigned beyond Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":1},{"id":"GO:0007605","count":1},{"id":"GO:0009636","count":1},{"id":"GO:0016310","count":1},{"id":"GO:0009088","count":1}]},{"hash":"1261860438365098429","title":"Neuroimmune signaling and neural morphogenesis","description":"The cluster is enriched for inflammatory signaling terms (NF-kappaB activation, IL-1 signaling, neutrophil extravasation, chemokine production) alongside neural development terms (retina morphogenesis, olfactory nerve formation, axon extension, cell adhesion). This points to a cohesive theme where immune signaling interfaces with neural development and regeneration processes.","confidence":"Medium","size":16,"edges":23,"triangles":15,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051092","count":9},{"id":"GO:2000661","count":8},{"id":"GO:2000391","count":8},{"id":"GO:0090197","count":8},{"id":"GO:0038091","count":7}]},{"hash":"2260271314284125075","title":"TLR Signaling and Macrophage Activation","description":"This cluster centers on Toll-like receptor signaling, macrophage activation, and defense against Gram-negative bacteria, with supporting terms for IFN and IL-1\u03b2 production and other immune-related processes; a ubiquitin-proteasome\u2013dependent degradation term suggests dynamic signaling turnover. The brassinosteroid term likely reflects noise from plant pathways.","confidence":"High","size":16,"edges":15,"triangles":5,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":1},{"id":"GO:0045078","count":1},{"id":"GO:0032715","count":1},{"id":"GO:0002322","count":1},{"id":"GO:0034142","count":1}]},{"hash":"955594324987731312","title":"Neural crest\u2013derived development and sensory differentiation","description":"The top GO terms cluster around craniofacial and sensory lineage development: cochlea morphogenesis, neural crest cell migration, cartilage development, melanocyte differentiation, lens fiber cell differentiation, and collateral sprouting, all pointing to development and differentiation of neural crest\u2013derived tissues and sensory organs. A few terms about transcription regulation and DNA repair are more general cellular processes and do not define the main theme. Confidence reflects a plausible, cohesive developmental theme with some noise.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090103","count":2},{"id":"GO:0001755","count":2},{"id":"GO:0021846","count":2},{"id":"GO:0051216","count":2},{"id":"GO:0000122","count":2}]},{"hash":"1020032032627729033","title":"Innate Immunity and Inflammatory Pain Signaling","description":"The top GO terms point to innate immune activation (innate immune response, inflammatory response, LPS response) and cytokine production (TNF, IL-1\u03b2), with a nociception component (formalin-induced pain). Some terms about ECM remodeling and synapse assembly may reflect neuroimmune interactions during inflammation, but the core theme is innate inflammatory signaling linked to pain. ","confidence":"High","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051770","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0032760","count":2},{"id":"GO:0050718","count":2},{"id":"GO:0030199","count":2}]},{"hash":"2081249175171560177","title":"Lymphocyte Differentiation and Cytokine Signaling","description":"This cluster centers on lymphoid development and cytokine-driven signaling, as evidenced by B cell affinity maturation, NK T cell differentiation, IL-7 response, and IL-4 production, along with pathways like PI3K/Akt and Rho signaling that govern immune cell migration and activation. While a few terms are broader (e.g., heart development, insulin signaling), the dominant theme is lymphocyte maturation and cytokine-mediated communication.","confidence":"High","size":16,"edges":25,"triangles":19,"max_degree":8,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007507","count":13},{"id":"GO:0002344","count":12},{"id":"GO:0098761","count":11},{"id":"GO:0001865","count":11},{"id":"GO:0032633","count":11}]},{"hash":"1886573862335189410","title":"Neural development and trafficking","description":"This cluster shows a convergence of neural-related terms (startle response, prepulse inhibition, cerebellar granule cell differentiation, eye development) with cellular trafficking and signaling (endocytic recycling, Cvt pathway, intracellular signal transduction, and regulation of GTPase activity), suggesting a role in neuronal development coupled with membrane trafficking and signaling processes. Some terms like cell wall organization and ethanol response appear less aligned and may reflect broader pleiotropy or noise in the dataset.","confidence":"Medium","size":16,"edges":13,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":3},{"id":"GO:0045471","count":3},{"id":"GO:0060134","count":3},{"id":"GO:0001964","count":3},{"id":"GO:0035556","count":3}]},{"hash":"1190896750993983278","title":"Innate Immune Apoptosis and Cytokine Regulation","description":"The cluster is dominated by apoptotic process, ubiquitination, pyroptosis, and innate immune response terms, with strong signals for cytokine production (IL-18, IL-4) and Th2 differentiation, plus ERK signaling modulation. This points to a network connecting programmed cell death with inflammatory and adaptive immune signaling, despite a stray cell-cycle term.","confidence":"High","size":16,"edges":44,"triangles":38,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006915","count":15},{"id":"GO:0016567","count":15},{"id":"GO:0070269","count":15},{"id":"GO:0045087","count":15},{"id":"GO:1990001","count":15}]},{"hash":"676519850728120958","title":"Embryonic organogenesis","description":"The top GO terms cluster around morphogenesis and differentiation across multiple organs during development\u2014foregut, heart (valve and ventricles), vasculature/endothelium, kidney glomerulus, and prostate gland epithelium\u2014indicating a cohesive theme of embryonic organ formation. An immune-related term (IL-4 production) appears but does not disrupt the overall organogenesis signal.","confidence":"High","size":16,"edges":41,"triangles":51,"max_degree":10,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:1990134","count":15},{"id":"GO:0060528","count":15},{"id":"GO:0072144","count":15},{"id":"GO:0003192","count":15},{"id":"GO:0060843","count":15}]},{"hash":"1722179036432675817","title":"Organogenesis and sensory system development","description":"These terms cluster around developmental processes across multiple organs and systems, including craniofacial/mouth (roof of mouth), cartilage morphogenesis, eye and visual perception, endocrine system development, and heart-related EMT. While a single precise function isn\u2019t dominant, the overarching theme is broad organogenesis and sensory system formation, with some neural/behavioral terms reflecting downstream development of locomotor and respiratory control. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0002087","count":2},{"id":"GO:0007626","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0043010","count":2}]},{"hash":"986572825095974517","title":"mRNA processing and splicing regulation","description":"The top terms cluster around mRNA splicing via the spliceosome (cis and regulatory), mRNA export from the nucleus, and regulation of mRNA polyadenylation, with a secondary signal toward translation initiation. This suggests a core role in mRNA maturation and trafficking rather than other processes, yielding a cohesive label.","confidence":"High","size":16,"edges":118,"triangles":532,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":15},{"id":"GO:0001731","count":14},{"id":"GO:1905663","count":14},{"id":"GO:1900363","count":14},{"id":"GO:0048026","count":14}]},{"hash":"2140334145210820754","title":"Neural crest and craniofacial development","description":"This cluster is dominated by developmental terms, especially neural crest cell migration, odontogenesis and palate formation, and brain-region differentiation (habenula, hypothalamus), along with transcriptional regulation. The convergence on neural crest\u2013driven craniofacial morphogenesis and related neural development suggests a cohesive theme centered on developmental programs shaping craniofacial and neural tissues.","confidence":"High","size":16,"edges":102,"triangles":361,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0021986","count":6},{"id":"GO:0060021","count":6},{"id":"GO:0042475","count":6},{"id":"GO:0043392","count":5}]},{"hash":"2063691924812018545","title":"Rho-driven synaptic signaling and spine morphogenesis","description":"The top terms point to Rho GTPase signaling and regulation, dendritic spine morphogenesis, and localization of proteins to the synapse, all indicating roles in cytoskeletal remodeling and synaptic structure. Additional terms on receptor clustering, protein dephosphorylation, and Wnt signaling support a coherent theme of synaptic signaling and spine development, with incidental ties to apoptotic processes in remodeling contexts.","confidence":"High","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035023","count":15},{"id":"GO:0060997","count":13},{"id":"GO:0007266","count":13},{"id":"GO:0008285","count":13},{"id":"GO:0043113","count":12}]},{"hash":"1036900600088834873","title":"Spliceosome-Mediated mRNA Processing and Export","description":"The cluster is dominated by GO terms describing spliceosome-mediated mRNA splicing and export (plus related polyadenylation). This suggests a functional group focused on post-transcriptional mRNA maturation and nuclear export, with ties to downstream translation initiation.","confidence":"High","size":16,"edges":105,"triangles":455,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048025","count":11},{"id":"GO:1901407","count":11},{"id":"GO:0001731","count":10},{"id":"GO:1905663","count":10},{"id":"GO:1900363","count":10}]},{"hash":"541136026394691248","title":"Neural crest migration and axon guidance","description":"This cluster is enriched for neural crest\u2013related development: ventral trunk neural crest cell migration, semaphorin-plexin signaling for axon guidance, and melanocyte adhesion, plus related development and signaling terms (MAPK, VEGF/PDGF-driven proliferation, synapse assembly). While immune terms appear, the strongest signals point to neural crest\u2013driven development and neural patterning, justifying this label.","confidence":"Medium","size":16,"edges":9,"triangles":5,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007275","count":12},{"id":"GO:0000187","count":10},{"id":"GO:0051965","count":10},{"id":"GO:0038091","count":9},{"id":"GO:0097326","count":9}]},{"hash":"843567459119248514","title":"Membrane Transport and Secretion","description":"The cluster is dominated by GO terms describing transport across membranes and secretion (xenobiotic transmembrane transport, bacteriocin transport, cysteine transport, protein secretion by Type I secretion system, oligopeptide export from mitochondrion, peptide pheromone export, ceramide translocation), suggesting a cohesive role in membrane transport/export across bacteria and organelles. An outlier term like stem cell proliferation does not override the overall transport-centric theme. ","confidence":"High","size":16,"edges":45,"triangles":58,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":9},{"id":"GO:0043213","count":8},{"id":"GO:0042883","count":8},{"id":"GO:0046689","count":8},{"id":"GO:0072089","count":8}]},{"hash":"366046517220339493","title":"Developmental Growth and Wnt Signaling","description":"Judging from the top GO terms, the proteins show enrichment for developmental and organogenesis processes (somite development, multicellular organism growth, digestive system development) with involvement of the Wnt signaling pathway. A few terms point to immune/hematological functions (complement activation, fibrinolysis) that appear peripheral to the main pattern. Overall, the cluster seems best described by a developmental growth and signaling theme rather than a specific immune function.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0061053","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0072756","count":2},{"id":"GO:0098789","count":2}]},{"hash":"864569477712398819","title":"Vertebrate embryonic development and morphogenesis","description":"This cluster's top GO terms cluster around embryonic development and tissue morphogenesis in vertebrates, including mesoderm development, cartilage morphogenesis, craniofacial (roof of mouth) development, EMT in endocardial cushion formation, and lateral motor column neuron migration. While a few terms touch general cellular processes, the overall theme is vertebrate developmental programs and morphogenetic events, with Hippo signaling regulation as a regulatory layer.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097477","count":4},{"id":"GO:0030579","count":3},{"id":"GO:0035331","count":3},{"id":"GO:0032364","count":3},{"id":"GO:0000055","count":3}]},{"hash":"412008423623293713","title":"Paranode localization and Nav channel clustering in PNS","description":"This cluster is dominated by neural development and axon-domain terms, including peripheral nervous system development, protein localization to the paranode region of the axon, and clustering of voltage-gated sodium channels, along with synapse organization and Hedgehog signaling. These points suggest a coherent theme of paranodal axon domain organization and Nav channel assembly in the peripheral nervous system, despite the presence of a few less-related terms like angiogenesis or antibiotic biosynthetic process that may reflect annotation noise.","confidence":"High","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":5},{"id":"GO:0017000","count":4},{"id":"GO:0097350","count":4},{"id":"GO:0050808","count":4},{"id":"GO:0045162","count":4}]},{"hash":"96482131900462107","title":"Integrin signaling and ECM remodeling","description":"The cluster is dominated by GO terms for integrin-mediated signaling and cell adhesion, including collagen fibril organization and cell-cell adhesion via integrin. These point to a central role in adhesion to the extracellular matrix and remodeling of ECM, with downstream effects on migration and tissue morphogenesis. Development-related terms such as larval heart development, myelination, and synapse assembly reflect processes governed by integrin-ECM interactions in heart, nervous system, and other tissues. Overall this suggests a cohesive module of integrin signaling linked to ECM organization and cell adhesion.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007229","count":7},{"id":"GO:0007508","count":6},{"id":"GO:0010763","count":6},{"id":"GO:0030199","count":6},{"id":"GO:0022011","count":5}]},{"hash":"2184371627861622310","title":"LPS-driven innate immunity and autophagy regulation","description":"The GO terms are dominated by innate immune response, detection of LPS, defense against bacteria, and NLRP3 inflammasome assembly, with also positive regulation of macroautophagy, indicating a core antibacterial signaling cluster with autophagy cross-talk. A couple terms relate to extracellular matrix remodeling (collagen fibril organization, angiogenesis regulation), which can accompany inflammatory responses, but the dominant theme is bacterial sensing and inflammasome-driven inflammation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0016525","count":6},{"id":"GO:0030199","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0016239","count":4},{"id":"GO:0045087","count":4}]},{"hash":"1508099258978499271","title":"Steroid Hormone Biosynthesis and Sex Differentiation","description":"The cluster is driven by androgen metabolic process and testosterone biosynthesis, with sex differentiation as a key theme, indicating steroidogenesis and reproductive development. While other terms cover immune modulation and stress responses, the core connection lies in hormone production and sexual development.","confidence":"Medium","size":16,"edges":13,"triangles":5,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008209","count":15},{"id":"GO:0061370","count":12},{"id":"GO:0010760","count":11},{"id":"GO:0035865","count":11},{"id":"GO:0007548","count":11}]},{"hash":"1227187741473959696","title":"Ribosome biogenesis and translation","description":"The terms cluster around ribosome maturation and function (ribosomal subunit export, biogenesis, cytoplasmic translation, and tRNA modification). Additional terms tied to cell growth and division align with the needs of active protein synthesis, supporting a ribosome-centered cluster.","confidence":"High","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000055","count":4},{"id":"GO:0039707","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0006007","count":4},{"id":"GO:0090529","count":4}]},{"hash":"98833407430043738","title":"Dopaminergic and Cholinergic Neurotransmission","description":"The top GO terms cluster around dopamine uptake/response and acetylcholine signaling, including GPCR-mediated pathways and amphetamine response, suggesting a coherent theme of nervous-system neurotransmission, especially dopaminergic and cholinergic signaling. Some terms (inflammation, vasoconstriction, immune isotype switching, midgut development) may reflect broader signaling roles rather than core neurotransmission.","confidence":"Medium","size":16,"edges":67,"triangles":184,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":16},{"id":"GO:0007497","count":16},{"id":"GO:0050728","count":16},{"id":"GO:1901652","count":16},{"id":"GO:0051586","count":16}]},{"hash":"1979722328237449078","title":"Embryonic development and organogenesis","description":"The Top Terms cluster around diverse embryonic development processes, including craniofacial/palate formation, mesoderm development, left/right patterning, placental and placental-related differentiation, hair follicle morphogenesis, pancreatic endocrine development, trophoblast differentiation, and EMT events in heart cushion formation. This cohesive theme suggests a broad developmental/organogenesis role rather than a single specific activity, so a general label of Embryonic development and organogenesis fits well.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060021","count":16},{"id":"GO:0010957","count":16},{"id":"GO:0060972","count":16},{"id":"GO:0060806","count":16},{"id":"GO:0007498","count":16}]},{"hash":"44343334579284792","title":"Innate and adaptive immune activation","description":"Strong enrichment across both innate (innate immune response, phagocytosis, complement activation) and adaptive (B cell activation, BCR signaling, T cell proliferation, CCR7 signaling) immune processes, with some related functions in mucosal epithelium maintenance and virion attachment. This points to a cohesive theme of immune activation and defense.","confidence":"High","size":16,"edges":5,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":16},{"id":"GO:0006910","count":16},{"id":"GO:0006911","count":16},{"id":"GO:0050871","count":16},{"id":"GO:0050853","count":16}]},{"hash":"2022821161635511738","title":"GI Mucosal Immunity and Epithelial Barrier","description":"This cluster is enriched for gut-associated immune and barrier functions, including innate immunity, defense against bacteria, IgA transcytosis via pIgR, and maintenance of gastrointestinal epithelium, as well as host\u2013microbe interaction terms like symbiont entry and virion attachment, pointing to a cohesive theme of mucosal immune surveillance and epithelial integrity.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046718","count":16},{"id":"GO:0051963","count":16},{"id":"GO:0030277","count":15},{"id":"GO:0046814","count":15},{"id":"GO:0042102","count":15}]},{"hash":"1880766432864476981","title":"Embryonic development and organogenesis","description":"The top GO terms cluster around craniofacial and broad embryonic development\u2014palate/roof of mouth development, mesoderm formation, hair follicle morphogenesis, EMT in endocardial cushion formation, left-right patterning, and placenta/endocrine system development\u2014indicating a cohesive developmental/organogenesis program. A few terms (mRNA splicing, vitamin D biosynthesis regulation) are more general or regulatory and do not negate the overall theme. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060021","count":16},{"id":"GO:0007498","count":16},{"id":"GO:0031069","count":16},{"id":"GO:0010957","count":16},{"id":"GO:0035270","count":16}]},{"hash":"1847268990012253926","title":"Immune-cell adhesion and cytotoxic regulation","description":"The cluster features strong enrichment for cell adhesion terms (homophilic and heterophilic) and cell junction localization, along with multiple immune-regulatory terms such as negative regulation of macrophage activation and modulation of NK and T cell cytotoxicity and degranulation. This combination points to proteins involved in immune cell interactions at tissue interfaces and in tuning cytotoxic responses, with additional hints of host-pathogen interactions at the cell surface (virion attachment and symbiont entry). Overall, it represents immune-cell adhesion coupled with regulation of cytotoxic activity during host-pathogen encounters.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":13},{"id":"GO:0007157","count":13},{"id":"GO:0046814","count":12},{"id":"GO:1902414","count":12},{"id":"GO:0046718","count":12}]},{"hash":"1503126426633144117","title":"DNA Damage Response and Ubiquitination","description":"The top GO terms cluster around DNA repair pathways (nucleotide-excision repair, interstrand cross-link repair, DNA incision), DNA replication, and apoptotic processes, with protein ubiquitination and innate immune response also represented. Developmental terms like embryonic organ development and hair cell differentiation suggest additional roles in development and cell fate decisions. Together, these indicate a cohesive theme of DNA damage response and repair coordinated by ubiquitination, with links to immune signaling and development.","confidence":"High","size":15,"edges":75,"triangles":184,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0016567","count":6},{"id":"GO:0006260","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0006915","count":4},{"id":"GO:0035315","count":3}]},{"hash":"1728285614246469018","title":"Neural development and transcriptional regulation","description":"This cluster is dominated by DNA-templated transcription and chromatin remodeling terms, with several GO terms tied to gene expression regulation and neural development (neural tube closure, excitatory postsynaptic potential). The inclusion of negative regulation of Wnt signaling and cell-cycle/dna-damage checkpoint terms suggests these proteins coordinate transcriptional control, chromatin state, and signaling during neural development. Confidence: High","confidence":"","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0006349","count":8},{"id":"GO:0090090","count":7},{"id":"GO:0043433","count":7},{"id":"GO:0043044","count":6}]},{"hash":"1582954258480119407","title":"Ubiquitination-Driven NF-\u03baB Signaling and Protein Degradation","description":"This cluster is dominated by GO terms for ubiquitination in multiple linkage types (K48, K63, K6, and linear), autoubiquitination, and ubiquitin-dependent protein catabolism, plus links to TNF-mediated signaling and canonical NF-\u03baB pathway regulation, with a note on necroptosis suppression and histone catabolic context. The shared theme is ubiquitin tagging governing protein turnover and modulation of NF-\u03baB\u2013mediated inflammatory signaling.","confidence":"High","size":15,"edges":30,"triangles":14,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0036205","count":7},{"id":"GO:0051865","count":7},{"id":"GO:1903265","count":7},{"id":"GO:0043123","count":7},{"id":"GO:0070534","count":7}]},{"hash":"1339376365007662391","title":"TGF-\u03b2\u2013Driven T Cell Cytokine Signaling","description":"The cluster is dominated by GO terms linking TGF-\u03b2 stimulus response, T cell receptor signaling, and cytokine production (IL-2, IFN, GM-CSF) with monocyte differentiation and vascular permeability regulation. This points to an immune signaling module where TGF-\u03b2 modulates T cell\u2013driven cytokine responses, with supporting roles in monocytes and vascular changes, making the theme cohesive despite a few peripheral terms.","confidence":"High","size":15,"edges":45,"triangles":35,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071560","count":7},{"id":"GO:0050852","count":6},{"id":"GO:0043116","count":5},{"id":"GO:0032729","count":5},{"id":"GO:0010754","count":5}]},{"hash":"1871987631348391875","title":"Striatal Neuron Differentiation and Synaptic Remodeling","description":"The cluster shows GO terms tied to neural development and synaptic plasticity, notably striatal medium spiny neuron differentiation, dendritic spine morphogenesis, and long-term synaptic depression, indicating a focus on neuronal differentiation and synaptic remodeling. Other terms (DNA replication, prolyl hydroxylation, and redox processes) appear less cohesive with the neural theme, suggesting some annotation noise or multifunctionality, but the dominant signals point to neural differentiation and plasticity.","confidence":"Medium","size":15,"edges":14,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0018401","count":2},{"id":"GO:0032364","count":2},{"id":"GO:1901874","count":2},{"id":"GO:0055114","count":2}]},{"hash":"724412748571119773","title":"Vitamin D\u2013associated immune signaling and epigenetics","description":"The top GO terms point to vitamin D receptor signaling and response to vitamin D, alongside innate immune functions (innate immune response, regulation of type I interferon production) and signaling cross-talk (JNK cascade, SMAD phosphorylation). Epigenetic programming of gene expression and ubiquitination of signaling components further support a theme of transcriptional regulation and signaling modulation tied to vitamin D\u2013mediated immune responses. Some terms are broad or plant-related, but the dominant pattern is vitamin D\u2013linked immune signaling integrated with epigenetic control.","confidence":"High","size":15,"edges":81,"triangles":256,"max_degree":13,"top_function":"autophagy","top_go_terms":[{"id":"GO:0070562","count":15},{"id":"GO:0043045","count":15},{"id":"GO:0032479","count":14},{"id":"GO:0051865","count":14},{"id":"GO:0033280","count":14}]},{"hash":"815084949184118919","title":"Developmental Morphogenesis","description":"The top GO terms are dominated by developmental and morphogenesis processes\u2014spinal cord development, cartilage morphogenesis, and endocrine system development\u2014suggesting a theme around tissue development. The presence of regulatory and processing terms (splicing, GTPase activity regulation, telomere maintenance) likely reflects ancillary cellular regulatory roles within developmental contexts, but the central signal is developmental morphogenesis. ","confidence":"Medium","size":15,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0036120","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0032206","count":1}]},{"hash":"307973158605783956","title":"Innate immune regulation and antiviral responses","description":"The terms center on innate immune response and negative regulation of immune signaling, including inflammasome control and suppression of viral processes. Other terms imply roles in membrane repair and protein trafficking, suggesting these proteins act as regulators of host defense rather than direct effectors.","confidence":"High","size":15,"edges":6,"triangles":0,"max_degree":2,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":10},{"id":"GO:0071641","count":10},{"id":"GO:0001778","count":10},{"id":"GO:0035372","count":10},{"id":"GO:1900226","count":10}]},{"hash":"719591952883211537","title":"Mitotic cell cycle control and transcription","description":"Based on the enrichment of GO terms for G1/S and G2/M transitions, cell division, and regulation of cyclin-dependent kinase activity, the cluster likely contains proteins involved in coordinating cell cycle progression and transcriptional programs during mitosis. Some terms like early viral transcription or responses to X-ray may reflect broader transcriptional or stress-responsive activity but do not override the core theme of cell-cycle regulation.","confidence":"High","size":15,"edges":81,"triangles":224,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000082","count":4},{"id":"GO:0000086","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0019085","count":3}]},{"hash":"727979349824079443","title":"Developmental signaling and differentiation proteins","description":"The cluster shows strong representation of developmental processes (nervous system, skeletal muscle, and adipose tissue differentiation), suggesting a role in lineage specification. Additional signaling-related terms (NOD1/2 pathways and B cell receptor signaling) indicate broader regulatory signaling involvement, while mRNA processing and protein homooligomerization point to coordination at the level of gene expression and protein complex formation. Overall, it seems to group proteins involved in development and signaling rather than a single tight function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":4},{"id":"GO:0006397","count":4},{"id":"GO:1900477","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0051260","count":3}]},{"hash":"1294479366967548033","title":"Amino acid metabolism","description":"This cluster is dominated by GO terms related to amino acid metabolism, including catabolic and biosynthetic processes for several amino acids (alanine, kynurenine/tryptophan, histidine, tyrosine, lysine). There are also terms for lipid biosynthesis and fatty acid homeostasis, plus some signaling pathways (Notch and salicylic acid\u2013mediated) that may reflect broader regulatory connections or annotation noise. Overall, the core theme appears to be amino acid metabolic processes.","confidence":"Medium","size":15,"edges":93,"triangles":325,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042853","count":9},{"id":"GO:0007219","count":9},{"id":"GO:0097053","count":9},{"id":"GO:0000105","count":7},{"id":"GO:0009862","count":6}]},{"hash":"1643026753110570464","title":"APC/C-Mediated Mitotic Ubiquitination","description":"This cluster centers on mitosis and protein degradation: mitotic cell cycle, APC/C-dependent catabolic process, and K11-linked ubiquitination point to APC/C-driven regulation of substrate proteolysis during cell division. Supporting terms like cell division, dephosphorylation, and GTPase regulation reinforce a cell-cycle\u2013focused regulatory network, with TORC1 signaling and mRNA transport reflecting broader growth-linked control. Overall, the proteins likely function together in APC/C-mediated mitotic progression and proteolysis.","confidence":"High","size":15,"edges":7,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071276","count":4},{"id":"GO:2001162","count":4},{"id":"GO:0038202","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0031145","count":4}]},{"hash":"556931257129562869","title":"ECM Remodeling and Collagen Catabolism","description":"The top GO terms cluster around extracellular matrix turnover, including collagen fibril organization, collagen catabolic process, and extracellular matrix disassembly, with proteolysis appearing prominently.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0044849","count":3},{"id":"GO:0097186","count":3},{"id":"GO:0022617","count":3}]},{"hash":"1999825958429225368","title":"Embryogenesis and tissue morphogenesis","description":"The top GO terms cluster around developmental processes across multiple tissues\u2014mesoderm development, cartilage morphogenesis, palate formation, endocrine system development, and EMT in heart cushion formation\u2014suggesting a group of proteins involved in embryonic development and tissue morphogenesis. While there is one plant-specific term (pollen sperm cell differentiation) that stands out, the predominant theme is vertebrate developmental programs and morphogenesis, with some general growth/cell cycle regulation that often accompanies development. This makes the label Embryogenesis and tissue morphogenesis a concise, representative summary.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007050","count":2},{"id":"GO:0040015","count":2},{"id":"GO:0050873","count":2},{"id":"GO:0048235","count":2},{"id":"GO:0000055","count":2}]},{"hash":"1426046648578237706","title":"Embryonic Organ Morphogenesis","description":"The cluster\u2019s top GO terms cluster around morphogenesis during embryonic development across diverse organs (embryonic eye morphogenesis, hindlimb morphogenesis, heart development, placenta development, semicircular canal morphogenesis, habenula development, etc.). This indicates a common theme of shaping organ structure rather than a single molecular function, suggesting the proteins contribute to broad developmental patterning or morphogenesis. Given the clear cross-tissue morphogenesis signal, this label is representative of the cluster\u2019s function with high confidence.","confidence":"High","size":15,"edges":4,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048048","count":6},{"id":"GO:2000288","count":6},{"id":"GO:0035116","count":6},{"id":"GO:0003148","count":6},{"id":"GO:0001890","count":6}]},{"hash":"1104000534002102069","title":"Embryonic Neural and Muscular Morphogenesis","description":"The top GO terms cohere around embryonic development, especially nervous system formation (hypothalamus differentiation, motor neuron axon guidance, PNS neuron development) and muscle/digit morphogenesis (muscle organ development, embryonic digit morphogenesis) as well as cochlea morphogenesis, indicating a shared theme of embryonic morphogenetic processes. Transcription-related terms (RNA polymerase II activity) suggest coordinated gene expression regulation during these developmental programs, reinforcing a cohesive developmental cluster. Overall, the cluster appears to capture neural and musculoskeletal morphogenesis during embryogenesis.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021979","count":12},{"id":"GO:0008045","count":12},{"id":"GO:0090009","count":12},{"id":"GO:0007626","count":12},{"id":"GO:0000122","count":12}]},{"hash":"1368159235517673764","title":"mRNA Splicing and Export Machinery","description":"The top GO terms cluster around spliceosome-mediated mRNA splicing, regulation of splicing, and mRNA export from the nucleus, with additional ties to translation preinitiation complex formation. This points to a cohesive group of factors involved in nuclear RNA processing and export, and coordination with early translation steps. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":11},{"id":"GO:1901407","count":11},{"id":"GO:0001731","count":10},{"id":"GO:1905663","count":10},{"id":"GO:1900363","count":10}]},{"hash":"2068948376314653318","title":"Connective tissue remodeling and bone/cartilage development","description":"These terms converge on extracellular matrix organization and remodeling (collagen fibril organization, proteolysis), bone mineralization and chondrocyte proliferation, plus migratory and signaling processes (keratinocyte/smooth muscle migration, EGFR signaling) tied to mechanotransduction and tissue morphogenesis. Together they point to connective tissue remodeling during development and wound healing, including bone/cartilage contexts. ","confidence":"Medium","size":15,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0030199","count":4},{"id":"GO:0030282","count":4},{"id":"GO:0007566","count":4},{"id":"GO:0014911","count":4}]},{"hash":"305980244609880692","title":"Mitosis and Neuro-Immune Regulation","description":"This cluster's top GO terms include cell division and spindle-kinetochore attachment, highlighting mitotic processes. There are also signals of neural development (dendritic spine formation, neuron maturation) and immune activity (T cell activation, lymphocyte aggregation, NF-kappaB modulation), along with mitochondrial inheritance and ribosomal export. The combination suggests proteins involved in cell cycle control that intersect with neurodevelopmental and immune pathways, with mitosis being the strongest anchor. ","confidence":"Medium","size":15,"edges":81,"triangles":256,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":14},{"id":"GO:0000055","count":14},{"id":"GO:0071260","count":13},{"id":"GO:0060999","count":13},{"id":"GO:0014041","count":13}]},{"hash":"1623136215052599052","title":"Nucleotide Salvage Pathways","description":"The top GO terms are dominated by nucleotide salvage and related metabolism, including AMP salvage, purine ribonucleoside salvage, uridine and guanosine catabolism, nicotinate nucleotide salvage, and NAD biosynthesis via salvage. There is also a stress-response signal (cellular response to glucose starvation). A few outliers (menaquinone biosynthesis and T cell differentiation) are less coherent with the core theme, likely incidental. Overall, this cluster represents proteins involved in maintaining nucleotide pools through salvage pathways.","confidence":"High","size":15,"edges":33,"triangles":37,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006218","count":6},{"id":"GO:0044209","count":6},{"id":"GO:0019358","count":6},{"id":"GO:0034418","count":6},{"id":"GO:0042149","count":6}]},{"hash":"336294783588501816","title":"Mitochondrial transport and membrane potential regulation","description":"The top GO terms are heavily centered on mitochondrial processes\u2014ADP transport, mitochondrial L-ornithine and manganese ion transport, regulation of mitochondrial membrane potential, apoptotic mitochondrial changes, and response to superoxide\u2014suggesting a cluster focused on mitochondrial transport and ROS-related regulation. Some terms like heart development or visual perception may reflect broad expression or annotation noise, but the dominant pattern points to mitochondrial function.","confidence":"High","size":15,"edges":4,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0015709","count":3},{"id":"GO:0015866","count":3},{"id":"GO:0007565","count":3}]},{"hash":"2191355967306955708","title":"Telomere Maintenance via PARP","description":"The cluster\u2019s top terms revolve around poly-ADP-ribosylation (PARP) and telomere biology, including PARP activity and auto-ADP-ribosylation, telomere maintenance via telomerase, localization to telomeric regions, and regulation of telomere maintenance and telomeric chromatid cohesion. There is a nearby signal for Wnt signaling, but the dominant pattern ties PARP-related processes to telomere maintenance and chromosome end regulation, with some ATP-linked PAR metabolism terms. This suggests a coherent PARP-telomere regulatory theme for the cluster.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070212","count":3},{"id":"GO:0016055","count":2},{"id":"GO:1990966","count":2},{"id":"GO:0032212","count":2},{"id":"GO:1904743","count":2}]},{"hash":"998747928510672217","title":"Calcium\u2013NFAT neuronal signaling","description":"Several top GO terms cluster around calcium-dependent signaling and neuronal function: response to amphetamine; positive regulation of the calcineurin\u2013NFAT signaling cascade; positive regulation of protein autophosphorylation; positive regulation of DNA binding; and negative regulation of dendrite morphogenesis. Together they suggest a theme of calcium-triggered signaling leading to transcriptional regulation in neurons. Additional terms such as regulation of ryanodine-sensitive calcium release and response to methylmercury broaden this to include broader calcium signaling and cellular stress responses. Some terms (branching in blood vessel morphogenesis; spindle pole body duplication) may reflect shared signaling modules or dataset artifacts, but do not override the central calcium\u2013neuronal signaling theme.","confidence":"Medium","size":15,"edges":99,"triangles":392,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001975","count":15},{"id":"GO:0051533","count":15},{"id":"GO:0050774","count":15},{"id":"GO:0031954","count":15},{"id":"GO:0060316","count":15}]},{"hash":"1455445103221335208","title":"Neural Crest\u2013driven Craniofacial Morphogenesis","description":"The top GO terms converge on neural crest\u2013derived craniofacial development, including glial differentiation, cranial skeleton morphogenesis, and odontogenesis, plus EMT-related processes in heart cushion formation that involve neural crest\u2013like migration. These together suggest a developmental program shaping craniofacial structures rather than unrelated cellular processes; some DNA repair/apoptosis terms may reflect general cellular maintenance during development.","confidence":"High","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0010001","count":2},{"id":"GO:0030307","count":2},{"id":"GO:0048701","count":2},{"id":"GO:0006879","count":2}]},{"hash":"1291757512345105359","title":"Neuronal Synaptic Signaling and Calcium-PI Pathways","description":"Reasoning: Most terms describe neuronal signaling, including phosphatidylinositol-mediated signaling, regulation of synaptic vesicle exocytosis, neurotransmitter secretion, long-term potentiation, and cellular calcium responses, all tied to PI signaling and Rho/GTPase regulation\u2014pointing to a synaptic communication module.","confidence":"High","size":15,"edges":30,"triangles":22,"max_degree":8,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0048015","count":9},{"id":"GO:2000300","count":9},{"id":"GO:0043065","count":9},{"id":"GO:0009738","count":9},{"id":"GO:0060291","count":9}]},{"hash":"375242853130129089","title":"Deubiquitinase-regulated mucosal inflammatory signaling","description":"This cluster centers on deubiquitination activities (K48, K11, and K63 linked) and associated regulation of inflammatory signaling, including negative regulation of IL-6 production and NLRP1 signaling, as well as mucosal immune responses. These connections point to a cohesive theme: ubiquitin-removal processes modulating immune/inflammatory responses at mucosal surfaces. Some developmental terms (face, vasculature) may reflect broader tissue remodeling roles, but the core pattern is ubiquitin-dependent control of inflammation.","confidence":"Medium","size":15,"edges":7,"triangles":2,"max_degree":3,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0070301","count":5},{"id":"GO:0071108","count":4},{"id":"GO:0002385","count":4},{"id":"GO:0001944","count":4},{"id":"GO:1900165","count":4}]},{"hash":"335418112206996732","title":"Nervous system development and sensory perception","description":"This cluster\u2019s top GO terms are dominated by nervous system development and visual perception, suggesting a neural/sensory biology theme. Additional terms (developmental processes, wound/immune and stress responses) appear peripheral but do not redefine the central nervous/sensory focus.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":2},{"id":"GO:0008286","count":2},{"id":"GO:0009611","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0006915","count":2}]},{"hash":"452556200171256569","title":"Vascular remodeling and immune defense","description":"The top GO terms point to cardiovascular regulation (atrial natriuretic peptide\u2013mediated blood pressure control), angiogenesis, extracellular matrix remodeling (collagen catabolic processes, fibrinolysis), renal sodium handling, and immune defense (complement activation, defense against Gram-positive bacteria). Together, these describe vascular homeostasis and tissue remodeling with an immune component, rather than a narrow single function.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0003050","count":8},{"id":"GO:0045766","count":8},{"id":"GO:0006958","count":8},{"id":"GO:0050830","count":7},{"id":"GO:0001867","count":7}]},{"hash":"809984686529173609","title":"Methylation and Biosynthesis Pathways","description":"The cluster centers on multiple methylation-related processes (histone H4 methylation, N-terminal trimethylation, tRNA and rRNA modification) and diverse biosynthetic activities (ubiquinone, sterol, antibiotic biosynthesis), plus a xenobiotic stress response signal, suggesting co-occurring enzymatic roles in methylation-modification and metabolite biosynthesis.","confidence":"Medium","size":15,"edges":27,"triangles":16,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":9},{"id":"GO:0017000","count":7},{"id":"GO:0043985","count":6},{"id":"GO:0006744","count":6},{"id":"GO:0018012","count":6}]},{"hash":"1580248751872815207","title":"Innate Immune Regulation and Membrane Repair","description":"The terms point to regulation of innate immune signaling (innate immune response, inflammasome regulation, LPS pathway control) and cellular membrane integrity (plasma membrane repair), with additional links to antiviral host defense and cytoskeletal dynamics. Collectively, they describe a module that modulates immune activation and membrane-related processes rather than a single effector pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":14},{"id":"GO:0071641","count":14},{"id":"GO:0001778","count":14},{"id":"GO:0031664","count":14},{"id":"GO:1900226","count":14}]},{"hash":"113913191461018465","title":"Developmental transcriptional regulation","description":"The cluster\u2019s GO terms center on transcriptional regulation (negative regulation of transcription by RNA polymerase II; DNA-templated transcription) and a broad set of embryonic morphogenesis processes (heart, eye, limb, placenta, habenula, etc.), suggesting proteins that regulate transcription during embryogenesis and organ development.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0048048","count":3},{"id":"GO:2000288","count":3}]},{"hash":"606367780741758701","title":"Embryonic development and morphogenesis","description":"Most of the top GO terms describe embryonic development and tissue morphogenesis across different lineages (mesoderm formation, cartilage and palate morphogenesis, hair follicle development, left-right patterning, and EMT in endocardial cushion formation). Although a couple terms touch on basic transcription/ ribosome export, the dominant signal is embryonic tissue formation and patterning. Therefore this label captures the cluster's shared functional theme.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0000055","count":15},{"id":"GO:0035270","count":15},{"id":"GO:0060021","count":15},{"id":"GO:0060536","count":15},{"id":"GO:0003198","count":15}]},{"hash":"2301095809686308972","title":"Dopaminergic development and dopamine signaling","description":"The cluster is driven by terms like substantia nigra development and positive regulation of dopamine metabolic process, pointing to dopaminergic neuron development and neurotransmitter control; occurrences of corticosterone, ethanol, and xenobiotic responses suggest broader neuronal stress/adaptation contexts.","confidence":"Medium","size":15,"edges":17,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051412","count":8},{"id":"GO:0045964","count":7},{"id":"GO:0021762","count":7},{"id":"GO:0009228","count":7},{"id":"GO:0045471","count":7}]},{"hash":"1235927852160212608","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0046067","count":3},{"id":"GO:0006281","count":3},{"id":"GO:1901911","count":3},{"id":"GO:0016077","count":3},{"id":"GO:0046709","count":3}]},{"hash":"2256187805746213261","title":"Developmental angiogenesis and immune signaling","description":"This cluster combines developmental processes (cartilage condensation, neural tube closure) with vascular/angiogenic signaling (positive regulation of angiogenesis, VEGF receptor signaling) and immune cell recruitment/response (monocyte/NK cell chemotaxis, lipopolysaccharide response). The co-occurrence of these terms suggests a cohesive theme of embryonic vascular development accompanied by immune cell involvement.","confidence":"Medium","size":15,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001502","count":3},{"id":"GO:0071222","count":3},{"id":"GO:2000502","count":3},{"id":"GO:0006910","count":3},{"id":"GO:0001843","count":2}]},{"hash":"653437580025575294","title":"Developmental Morphogenesis","description":"The top GO terms point to morphogenesis and tissue development across several developmental contexts (mesoderm, coronary artery morphogenesis, hair follicle morphogenesis, roof of mouth development, neural tube planar polarity). Rho signaling regulation and extracellular matrix secretion support tissue patterning during development, while intracellular transport reflects general cellular logistics. A small set of innate immune terms appear but are less representative of the cluster\u2019s core theme. Overall, the cluster seems driven by development- and morphogenesis-related processes.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0035023","count":2},{"id":"GO:0003331","count":2},{"id":"GO:0060021","count":2}]},{"hash":"506792272281322063","title":"Transcription Regulation and Host-Symbiont Interaction","description":"This cluster is characterized by transcription-related GO terms, notably DNA-templated transcription and negative regulation of transcription by RNA polymerase II, suggesting a core function in transcriptional control. It also includes terms related to host-symbiont interactions (symbiont entry into host cell and symbiont-mediated activation of host apoptosis), pointing to a role in host-cell interfacing. Metabolic terms appear less central, but may reflect broader cellular regulation. Overall, the dominant theme is transcription regulation with some host-interaction context.","confidence":"Medium","size":15,"edges":10,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030218","count":4},{"id":"GO:0055072","count":4},{"id":"GO:0035999","count":2},{"id":"GO:0019557","count":2},{"id":"GO:0019556","count":2}]},{"hash":"1921778918437112558","title":"Neural development and synapse assembly","description":"The top GO terms cluster around neural development and synaptic formation: positive regulation of synapse assembly, cerebellar granule cell differentiation, inner ear development, and camera-type eye morphogenesis point to neural and sensory tissue development. Negative regulation of ERK1/ERK2 cascade aligns with modulation of signaling during neural development. Some terms like protein secretion, protein homooligomerization, and oxidative stress detection provide broader cellular context but do not override the central neural/synaptic theme. Overall, the cluster appears to reflect neural development and synapse assembly processes.","confidence":"High","size":15,"edges":81,"triangles":270,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":6},{"id":"GO:0048593","count":6},{"id":"GO:1900121","count":6},{"id":"GO:0070373","count":5},{"id":"GO:0048839","count":5}]},{"hash":"1721497758664453536","title":"Fibroblast migration and ECM remodeling signaling","description":"This cluster centers on terms tied to cell migration (including fibroblast-specific migration) and hyaluronan/metabolic processes affecting the extracellular matrix, along with signaling responses (prostglandin, cytokines, insulin receptor pathway) and developmental contexts like placenta formation. Together these indicate a cohesive theme of coordinated cell movement and matrix remodeling in tissue and developmental signaling.","confidence":"Medium","size":15,"edges":3,"triangles":1,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0016477","count":5},{"id":"GO:1903526","count":4},{"id":"GO:0030212","count":4},{"id":"GO:0071380","count":4},{"id":"GO:0010763","count":4}]},{"hash":"1338135565636348903","title":"Developmental signaling and chromatin regulation","description":"The proteins lean toward roles in development (animal organ and placenta morphogenesis) and nuclear/cell cycle control (nucleosome assembly, centrosome cycle, desumoylation), with insulin response adding a metabolic signaling angle. While a few terms are peripheral or obsolete, the core cluster points to developmental processes coordinated with chromatin remodeling and cell division.","confidence":"Medium","size":15,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":3},{"id":"GO:0010535","count":3},{"id":"GO:2000410","count":2},{"id":"GO:1904333","count":2},{"id":"GO:1904388","count":2}]},{"hash":"1635512365776177273","title":"Unknown","description":"The Top Terms show a highly diverse mix of processes (protein homooligomerization, plant brassinosteroid signaling, tubule morphogenesis, germinal center formation, wybutosine biosynthesis, viral latency release, circadian rhythm regulation, spindle midzone localization, ubiquitination control), with each term appearing only twice. Because there is no coherent functional theme tying these proteins together, a meaningful, specific label cannot be assigned.","confidence":"","size":15,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":2},{"id":"GO:0009742","count":2},{"id":"GO:0072156","count":2},{"id":"GO:0002467","count":2},{"id":"GO:0031591","count":2}]},{"hash":"1566133325955787377","title":"Developmental differentiation and organogenesis","description":"The cluster\u2019s top GO terms center on tissue and organ development and differentiation (digestive tract development, hepatocyte differentiation, sex differentiation, maternal processes), with supporting signals from epigenetic regulation (methylation) and vitamin D response. Although immune-related terms appear, they are less representative of the primary theme, which appears to be developmental differentiation and organogenesis.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010760","count":2},{"id":"GO:0035865","count":2},{"id":"GO:0007548","count":2},{"id":"GO:0035902","count":2},{"id":"GO:0002677","count":2}]},{"hash":"1503794444919391021","title":"Epithelial polarity and barrier formation","description":"Most terms point to apical-basal polarity establishment, apical protein localization, and barrier integrity in epithelial/endothelial contexts, along with microtubule organization and endosomal trafficking that support polarized membranes and transporter localization (e.g., intestinal glucose absorption). While a few terms touch on migration or neuronal synapse plasticity, the core theme is polarity, barriers, and membrane trafficking in polarized cells, justifying the name. ","confidence":"Medium","size":15,"edges":23,"triangles":14,"max_degree":9,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0001951","count":12},{"id":"GO:0045198","count":12},{"id":"GO:0061028","count":12},{"id":"GO:0030953","count":12},{"id":"GO:0045176","count":12}]},{"hash":"267790025136968263","title":"Ribosome Biogenesis and Translation","description":"Most of the top GO terms cluster around ribosome production and function\u2014ribosome biogenesis, ribosomal subunit export, cytoplasmic translation, and tRNA modification\u2014together with ribosomal biogenesis processes. These indicate proteins involved in assembling and operating the ribosome and in protein synthesis. Several cell division-related terms are present, suggesting coordination with growth, but the core signal is ribosome assembly and translation. ","confidence":"High","size":15,"edges":21,"triangles":3,"max_degree":5,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000747","count":6},{"id":"GO:0007049","count":6},{"id":"GO:0002181","count":6},{"id":"GO:1901001","count":6},{"id":"GO:0090529","count":6}]},{"hash":"24382852815759775","title":"Antiviral Innate Immune Response","description":"The Top Terms include innate immune response, defense response to virus, and RIG-I signaling-related terms, pointing to antiviral innate immunity as the main theme of this cluster. Some developmental GO terms may reflect annotation noise or multi-functionality, but antiviral defense remains predominant.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0060021","count":2},{"id":"GO:0021772","count":2},{"id":"GO:0003151","count":2},{"id":"GO:0043569","count":2}]},{"hash":"147569791716274325","title":"Cytokine-driven humoral immune activation","description":"This cluster shows enrichment for positive regulation of cytokine production (IL-6, IL-23, IL-5, IL-13), immunoglobulin production, and defense responses to pathogens, along with B cell apoptosis regulation and fibroblast activation. Together these terms suggest a cohesive role in cytokine signaling that promotes humoral immunity and inflammatory responses.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900017","count":2},{"id":"GO:2000778","count":1},{"id":"GO:0032747","count":1},{"id":"GO:0048305","count":1},{"id":"GO:0050832","count":1}]},{"hash":"85017332507475559","title":"Hypoxia-induced brain cortex extrinsic apoptosis","description":"The top GO terms point to extrinsic apoptotic signaling via death receptors, regulation of cytochrome c release, and responses to hypoxia and oxidative stress, all in the context of brain/cortex development. This suggests a cluster of proteins coordinating hypoxia- and oxidative-stress\u2013driven apoptosis in the brain, with emphasis on the extrinsic pathway.","confidence":"High","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021987","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0071456","count":3},{"id":"GO:0001844","count":3},{"id":"GO:0090200","count":3}]},{"hash":"1683915734973781268","title":"Neural cell polarity and mitotic spindle dynamics","description":"Enrichment includes establishment/maintenance of cell polarity, astral microtubule organization, spindle regulation, and mitotic transitions, with a specific link to cerebral cortex development, plus actin network formation. This pattern suggests a coordinated role in polarity, spindle orientation, and cytoskeletal remodeling during neural progenitor division.","confidence":"Medium","size":15,"edges":58,"triangles":116,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0071963","count":4},{"id":"GO:0035046","count":4},{"id":"GO:0022027","count":4},{"id":"GO:0030953","count":4},{"id":"GO:0021987","count":4}]},{"hash":"1146197211616782129","title":"Pronucleus formation and egg activation during fertilization","description":"The cluster is dominated by GO terms for male and female pronucleus assembly and egg activation, which point to fertilization and early embryogenesis. While there are additional signals related to signaling and structural organization, the strongest and most representative terms are pronucleus formation and egg activation. ","confidence":"Medium","size":15,"edges":5,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1902902","count":3},{"id":"GO:0035038","count":3},{"id":"GO:0007343","count":3},{"id":"GO:0051262","count":3},{"id":"GO:0035039","count":3}]},{"hash":"209512330491315886","title":"Actin-Driven Cell Migration and Immune Signaling","description":"This cluster centers on actin nucleation and cell migration, suggesting cytoskeletal remodeling, with supporting immune-related signals such as cellular responses to lipopolysaccharide and Fc receptor\u2013mediated signaling, and phosphatidylserine exposure linked to apoptotic cell clearance. The presence of cholesterol homeostasis and other less cohesive terms adds metabolic or membrane-trafficking context but does not override the dominant theme of actin dynamics in motility and immune engagement.","confidence":"Medium","size":15,"edges":23,"triangles":20,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045010","count":2},{"id":"GO:0006929","count":2},{"id":"GO:0070782","count":1},{"id":"GO:0042632","count":1},{"id":"GO:1903147","count":1}]},{"hash":"18923905537118999","title":"Cytoskeleton organization and dynamics","description":"The cluster\u2019s top GO terms point to structural organization and regulation of the cytoskeleton: sarcomere organization, microtubule anchoring, centrosome location maintenance, and GTPase activity regulation, all indicating roles in building and adjusting cellular architecture. Additional terms like muscle contraction and axonogenesis reflect tissue-specific manifestations of cytoskeletal function, but the shared theme remains cytoskeletal dynamics. Therefore, a label centered on cytoskeleton organization and dynamics best represents the cluster\u2019s core function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":4},{"id":"GO:0034453","count":4},{"id":"GO:0030307","count":4},{"id":"GO:0006936","count":2},{"id":"GO:0007111","count":2}]},{"hash":"1603575104080199747","title":"Lipid metabolism and lipoprotein homeostasis","description":"This cluster is dominated by GO terms related to triglyceride biosynthesis, cholesterol storage and homeostasis, VLDL particle assembly, and regulation of lipoprotein particle levels, pointing to a core function in lipid metabolism and lipoprotein biology. Some terms (palmitoylation and APP biosynthesis) suggest associated post-translational modification processes and broader cellular signaling, but the common thread remains lipid and lipoprotein metabolism.","confidence":"High","size":15,"edges":28,"triangles":14,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0010742","count":3},{"id":"GO:0019432","count":3},{"id":"GO:0034379","count":3},{"id":"GO:0010878","count":3},{"id":"GO:0045234","count":3}]},{"hash":"908506732072485859","title":"Developmental Axis Formation and Polarity","description":"The top GO terms point to axis specification, cell polarity, and morphogenetic processes: regulation of Wnt signaling, cilium assembly, convergent extension in gastrulation, oocyte axis specification and nucleus migration, and oskar mRNA localization. Some vesicle trafficking and synaptic localization terms appear, but they can relate to polarized localization during development. Overall, the cluster centers on developmental patterning and axis formation rather than a single metabolic pathway, suggesting a cohesive theme around polarity and axis specification in development.","confidence":"Medium","size":15,"edges":20,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030111","count":1},{"id":"GO:0060271","count":1},{"id":"GO:0060027","count":1},{"id":"GO:2000311","count":1},{"id":"GO:0007120","count":1}]},{"hash":"828768996416967289","title":"Unknown","description":"The top GO terms cover neuronal signaling (glutamergic synaptic transmission) alongside membrane trafficking (receptor recycling, endosome size) and nuclear processes (DNA-templated transcription, histone methylation), with additional hints of development and immune signaling. The functions are diverse and not clearly coalescing into a single, cohesive biological theme for this cluster, and several terms are obsolete or only weakly connected, making a specific label unreliable. Therefore, this cluster is best described as Unknown with no confident functional label.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035249","count":3},{"id":"GO:0034968","count":2},{"id":"GO:0051036","count":2},{"id":"GO:0001881","count":2},{"id":"GO:0035023","count":2}]},{"hash":"417661333217104395","title":"Cardiac electrophysiology and K+ homeostasis","description":"This cluster centers on cardiac electrical activity and ionic balance: membrane potential regulation, atrial and ventricular action potentials, heart-rate control via cardiac conduction, and potassium ion transport/homeostasis (with related magnesium homeostasis). The presence of a mechanosensory detection term may reflect mechanosensitive channels affecting excitability. Overall, the proteins likely participate in cardiac electrophysiology and ion homeostasis.","confidence":"High","size":15,"edges":71,"triangles":158,"max_degree":13,"top_function":"nervous system process","top_go_terms":[{"id":"GO:0098914","count":15},{"id":"GO:0060075","count":14},{"id":"GO:0050976","count":12},{"id":"GO:1990573","count":12},{"id":"GO:0086091","count":12}]},{"hash":"178991038934939517","title":"Transcriptional Regulation and Chromatin Modification","description":"This cluster is dominated by GO terms for DNA-templated transcription, positive/negative regulation of transcription by RNA polymerase II, and nucleosome assembly, plus histone lysine methylation and ubiquitin-dependent protein turnover. These co-occur suggesting a cohesive theme of controlling transcription through chromatin state and post-translational regulation. A few terms like heart development and respiration regulation are broader contexts but do not override the central transcription/chromatin signal.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0033138","count":4},{"id":"GO:0006511","count":3},{"id":"GO:1901874","count":3}]},{"hash":"1303512735469465253","title":"Unknown","description":"Top Terms are not provided, so I can't infer a shared function. Without GO terms or frequencies to guide the theme, there is no clear common biology among these proteins. Therefore, this cluster is Unknown.","confidence":"","size":15,"edges":99,"triangles":386,"max_degree":14,"top_function":null,"top_go_terms":[]},{"hash":"920687436111882047","title":"Dopaminergic/Noradrenergic Synaptic Regulation","description":"These proteins cluster around synaptic signaling and neuromodulation, with strong representation for dopaminergic and glycinergic transmission and regulation of norepinephrine secretion, plus related neural learning and ethanol-response terms (e.g., conditioned taste aversion, cellular response to ethanol). The presence of negative regulation of nerve impulse transmission and sodium transport further supports a neuronal signaling theme. An outlier term related to cartilage morphogenesis likely reflects annotation noise rather than cluster biology. Overall, the common function is neurotransmission and modulation of neurotransmitter release, especially dopamine and norepinephrine.","confidence":"High","size":15,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0014061","count":14},{"id":"GO:0060012","count":14},{"id":"GO:0001661","count":14},{"id":"GO:0032226","count":14},{"id":"GO:0051970","count":14}]},{"hash":"451558474446461276","title":"Chemokine signaling and leukocyte chemotaxis","description":"The top GO terms cluster around chemokine-mediated signaling and leukocyte movement (monocytes, T cells, eosinophils) within an immune response, with additional related signaling like ERK and platelet activation, pointing to an immune cell migration/theme.","confidence":"High","size":15,"edges":6,"triangles":0,"max_degree":6,"top_function":"wound healing","top_go_terms":[{"id":"GO:0043950","count":14},{"id":"GO:0051930","count":10},{"id":"GO:0090026","count":10},{"id":"GO:0070098","count":10},{"id":"GO:0006955","count":10}]},{"hash":"1900003658008153347","title":"Neuronal development and synaptic plasticity","description":"The top GO terms point to neuronal differentiation (striatum/medium spiny neurons), dendritic spine morphogenesis, and synaptic plasticity (long-term depression), with sensory perception of sound indicating neural circuit involvement. Golgi to plasma membrane transport supports trafficking essential for synaptic components, while some pancreatic differentiation terms appear as noise. Overall, the cluster centers on neurons and their synaptic regulation rather than endocrine processes.","confidence":"Medium","size":15,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006893","count":2},{"id":"GO:0042771","count":2},{"id":"GO:0007605","count":2},{"id":"GO:2000077","count":1},{"id":"GO:0090104","count":1}]},{"hash":"2032446898717425431","title":"ECM Remodeling and Angiogenesis Regulation","description":"The terms cluster around cell-matrix adhesion and collagen organization, with several entries tied to regulating angiogenesis, endothelial migration, and vascular permeability, suggesting extracellular matrix\u2013driven remodeling that influences vascular development (including glomerular vasculature). The presence of fibrinolysis and lectin-pathway complement activation adds an inflammatory/remodeling context to the vascular theme.","confidence":"Medium","size":15,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":6},{"id":"GO:0030199","count":5},{"id":"GO:0016525","count":5},{"id":"GO:0001867","count":5},{"id":"GO:0042730","count":4}]},{"hash":"366235908556022949","title":"Myelination and Axon Development","description":"The top GO terms are strongly centered on neural processes\u2014myelination, regulation of axon diameter, and transmission of nerve impulses\u2014suggesting a cluster focused on nerve fiber maturation and signaling. Supporting terms include neuromuscular development and apoptosis/phagocytosis processes that can occur in neural tissue, giving a cohesive theme around nerve fiber development and function. ","confidence":"Medium","size":15,"edges":85,"triangles":248,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":4},{"id":"GO:0061178","count":2},{"id":"GO:0031133","count":2},{"id":"GO:0043652","count":2},{"id":"GO:0048741","count":2}]},{"hash":"1565106131404813660","title":"Embryonic craniofacial and mesoderm development","description":"The top GO terms point to embryogenesis and organ formation, including roof of mouth development, mesoderm development, left-right pattern formation, EMT in endocardial cushion formation, hair follicle morphogenesis, and placenta/endocrine system development. A couple of terms reflect general cellular processes (mRNA splicing, regulation of DNA replication) that accompany development, but the dominant theme is embryonic craniofacial and mesoderm patterning and organogenesis, so this label is representative of the cluster\u2019s function.","confidence":"Medium","size":15,"edges":17,"triangles":3,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":14},{"id":"GO:0007498","count":14},{"id":"GO:0031069","count":14},{"id":"GO:0010957","count":14},{"id":"GO:0035270","count":14}]},{"hash":"580923226713633382","title":"Embryonic Development and Morphogenesis","description":"The GO terms cluster around tissue formation and body plan specification in development (palatal roof formation, mesoderm development, hair follicle morphogenesis, left-right patterning, placenta-related differentiation), indicating a cohesive theme of embryonic morphogenesis. Some terms pertain to general cellular processes (RNA splicing, ribosomal export) that commonly accompany development but do not overwhelm the developmental signal.","confidence":"Medium","size":15,"edges":40,"triangles":50,"max_degree":13,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0060021","count":14},{"id":"GO:1903026","count":14},{"id":"GO:0010957","count":14},{"id":"GO:0032298","count":14},{"id":"GO:0060972","count":14}]},{"hash":"1649056736811938701","title":"GTPase-Regulated Synaptic Plasticity","description":"The cluster shows strong representation of neuronal synaptic functions: excitatory postsynaptic potential, long-term potentiation, and synapse structural plasticity, along with small GTPase\u2013mediated signaling and regulation of GTPase activity, all pointing to GTPase-driven synaptic remodeling in nervous system development. Some immune-related terms (defense against protozoa, engulfment) are present but appear ancillary to the dominant neural plasticity theme.","confidence":"Medium","size":15,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":3},{"id":"GO:0050910","count":3},{"id":"GO:1900273","count":3},{"id":"GO:0007264","count":2},{"id":"GO:0051835","count":2}]},{"hash":"2149343711735635292","title":"Ubiquitin-regulated innate and adaptive immunity","description":"These proteins cluster around immune signaling and regulation, highlighted by innate immune response, B cell homeostasis, and lymph node development. Ubiquitination terms (protein autoubiquitination, actin ubiquitination) point to post-translational control of signaling cascades, including regulation of the JNK pathway and negative regulation of RIG-I signaling, which modulates antiviral responses. The presence of vitamin D response and histone methylation-related terms suggests links to transcriptional and epigenetic regulation of immune genes. Together, the GO terms imply a module focused on ubiquitin-dependent tuning of immune signaling and lymphoid homeostasis rather than a single enzymatic activity.","confidence":"Medium","size":15,"edges":100,"triangles":392,"max_degree":14,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":4},{"id":"GO:0033280","count":4},{"id":"GO:0006293","count":4},{"id":"GO:0007014","count":4},{"id":"GO:0046328","count":4}]},{"hash":"485384988073302190","title":"Neurotransmitter GPCR Signaling","description":"The cluster is dominated by GO terms tied to neuromodulatory signaling, especially dopaminergic and cholinergic GPCR pathways (e.g., response to amphetamine, positive regulation of dopamine uptake, regulation of acetylcholine metabolism, and acetylcholine receptor signaling). This suggests proteins involved in GPCR-mediated neuromodulation and downstream effects like vasoconstriction, with a few terms that are broader or less directly connected (e.g., immune or developmental processes). Overall, the core theme is neuromodulatory GPCR signaling.","confidence":"Medium","size":15,"edges":86,"triangles":254,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":15},{"id":"GO:0007497","count":15},{"id":"GO:0050728","count":15},{"id":"GO:1901652","count":15},{"id":"GO:0051586","count":15}]},{"hash":"835446815985417532","title":"Basophil Fc Receptor Signaling and Immune Activation","description":"The top GO terms center on basophil activation, Fc-gamma receptor signaling, NK cell chemotaxis regulation, and responses to fungal origin, suggesting a common theme of Fc receptor\u2013driven immune activation and inflammatory signaling. While a few terms relate to development (e.g., cartilage condensation, kidney development), they appear less central to the cluster\u2019s core function. Overall, the dominant pattern points to basophil- and Fc receptor\u2013mediated immune responses.","confidence":"Medium","size":15,"edges":9,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045575","count":15},{"id":"GO:0038094","count":15},{"id":"GO:0090403","count":15},{"id":"GO:0071226","count":15},{"id":"GO:0072218","count":15}]},{"hash":"452893542752510403","title":"Adhesion-mediated immune regulation","description":"This cluster is dominated by GO terms for cell-cell adhesion (homophilic/heterophilic) and actin cytoskeleton regulation linked to adhesion, alongside immune-modulatory processes such as innate immune response, negative regulation of NK cell cytotoxicity and T cell degranulation, regulation of macrophage activation, and immune synapse assembly. Together these terms point to proteins involved in forming and signaling at cell-cell interfaces that shape immune responses, i.e., adhesion-driven immune regulation and immune synapse dynamics.","confidence":"High","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":7},{"id":"GO:0002859","count":6},{"id":"GO:0043318","count":6},{"id":"GO:0090138","count":6},{"id":"GO:0045087","count":6}]},{"hash":"846730405365143259","title":"Vascular morphogenesis and ECM remodeling","description":"This cluster is dominated by terms for sprouting angiogenesis, cell migration in angiogenesis, negative regulation of angiogenesis, and collagen fibril organization, together with EMT in heart development. These collectively point to a vascular development program involving extracellular matrix remodeling, hence the label. Although a few terms relate to neural or pancreatic development, the core theme centers on angiogenesis and ECM dynamics.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0048846","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0002040","count":3},{"id":"GO:0051965","count":3}]},{"hash":"1292178082514437066","title":"GPCR-Mediated Neurotransmitter Signaling","description":"This cluster is dominated by GO terms related to neurotransmission and GPCR pathways: response to amphetamine; positive regulation of dopamine uptake in synaptic transmission; regulation of acetylcholine metabolism; and GPCR signaling affecting adenylate cyclase. While a few terms touch on immune or developmental processes, the recurring theme is GPCR-driven modulation of neuronal signaling and vascular tone, which aligns with the majority of terms observed in this group.","confidence":"Medium","size":15,"edges":53,"triangles":64,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":15},{"id":"GO:0007497","count":15},{"id":"GO:0050728","count":15},{"id":"GO:1901652","count":15},{"id":"GO:0051586","count":15}]},{"hash":"934753011774391411","title":"Immune modulation and organ differentiation","description":"Top GO terms point to both immune regulatory activities (negative regulation of macrophage chemotaxis and chronic inflammatory response) and developmental/differentiation processes affecting liver, digestive tract, and reproductive biology (hepatocyte differentiation, digestive tract development, sex differentiation, maternal process involved in parturition). Vitamin D signaling and methylation add regulatory/epigenetic layers. Together, these suggest a cluster of proteins that modulate inflammation and contribute to tissue development and organ differentiation rather than a single narrow function.","confidence":"Medium","size":15,"edges":40,"triangles":50,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0010760","count":15},{"id":"GO:0035865","count":15},{"id":"GO:0007548","count":15},{"id":"GO:0035902","count":15},{"id":"GO:0002677","count":15}]},{"hash":"487057899648595267","title":"Nervous system development and axon guidance","description":"Most terms point to neural development and axon guidance: peripheral nervous system development, nervous system development, and Roundabout signaling pathway (ROBO) consistent with trigeminal sensory nucleus development. A few terms relate to immune regulation or host interaction that appear as noise rather than core functions of the cluster. Overall, the dominant theme is nervous system development.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1904604","count":14},{"id":"GO:2001200","count":14},{"id":"GO:0021740","count":14},{"id":"GO:0046718","count":14},{"id":"GO:0002860","count":14}]},{"hash":"2107051938495571544","title":"Immune Activation and Cell-Cell Adhesion","description":"The cluster is enriched for immune-related and cell-contact terms, including positive regulation of T cell proliferation, T cell costimulation, and defense against bacteria, alongside homophilic and heterophilic cell-cell adhesion. The presence of synapse assembly regulation and paranode localization hints at broader cell-communication roles, but the dominant signal ties to immune activation and cell adhesion in tissue contexts.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042102","count":8},{"id":"GO:0042742","count":8},{"id":"GO:0046718","count":8},{"id":"GO:0031295","count":8},{"id":"GO:0007156","count":8}]},{"hash":"1574270651021721491","title":"Developmental signaling and morphogenesis (GPCR/PKC, PCP)","description":"The top GO terms cluster around signaling pathways (protein kinase C signaling, GPCR-PLC signaling) and planar cell polarity, along with neuronal guidance and morphogenetic processes such as lung branching and neural tube closure. This points to a set of proteins involved in coordinating development and tissue patterning across neural and epithelial contexts, with some related morphogenic outcomes (surfactant homeostasis, body hair orientation) supporting a broad morphogenesis theme.","confidence":"High","size":15,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070528","count":15},{"id":"GO:2001223","count":15},{"id":"GO:0043129","count":15},{"id":"GO:0036515","count":15},{"id":"GO:0060489","count":15}]},{"hash":"389311857339457520","title":"Developmental differentiation and lineage specification","description":"The GO terms span vascular morphogenesis, immune/hematopoietic differentiation, and general cell fate regulation (e.g., BMP signaling, miRNA transcription), suggesting a cluster of proteins involved in developmental lineage decisions across multiple tissues rather than a single pathway.","confidence":"Medium","size":14,"edges":23,"triangles":8,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1902262","count":4},{"id":"GO:1904996","count":4},{"id":"GO:0061614","count":4},{"id":"GO:0060803","count":4},{"id":"GO:0007429","count":4}]},{"hash":"1344706973642155641","title":"Neural and forebrain development with angiogenesis and innate immunity","description":"The top GO terms point to broad developmental processes (forebrain and multicellular organism development, labyrinthine layer development) along with angiogenesis and cell-matrix adhesion, suggesting a morphogenetic program. Additional terms like innate immune response and response to muramyl dipeptide indicate linked immune signaling, while protein localization to microtubules hints at cytoskeletal/transport roles during development. Taken together, the cluster seems to group proteins involved in neural/brain development with vascular and innate immune signaling components. ","confidence":"Medium","size":14,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060711","count":4},{"id":"GO:0032495","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0007160","count":3}]},{"hash":"1551309796765806210","title":"Developmental signaling and transcriptional regulation","description":"This cluster is enriched for terms tied to TGF-beta signaling, transcriptional control, and regulation of signaling kinases, with developmental themes such as neural tube closure and multicellular growth. The combination suggests proteins involved in developmental signaling and transcription regulation, with some auxiliary connections to cell-cycle/DNA replication processes and stress responses as broader context.","confidence":"Medium","size":14,"edges":86,"triangles":310,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071560","count":12},{"id":"GO:0006351","count":12},{"id":"GO:0043547","count":12},{"id":"GO:0050909","count":11},{"id":"GO:0001843","count":11}]},{"hash":"1165273483165297752","title":"B cell activation and BCR signaling regulation","description":"These proteins show strong enrichment for B cell\u2013related processes (proliferation, follicular differentiation) and modulation of B cell receptor signaling, with additional but less central terms on GPCR signaling and intracellular transport. The dominant theme appears to be B cell immune activation and regulation of its signaling pathways, despite some unrelated annotations.","confidence":"High","size":14,"edges":11,"triangles":2,"max_degree":8,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0002322","count":13},{"id":"GO:0016525","count":13},{"id":"GO:0008277","count":12},{"id":"GO:0002316","count":12},{"id":"GO:2000560","count":12}]},{"hash":"1455244111486837171","title":"Innate Immune Signaling and NF-kB Regulation","description":"The terms converge on innate immune response, macrophage activation, and inflammatory signaling, including NF-kappaB regulation and cytokine production (IL-8, IFN-\u03b2). A plant hormone\u2013related term is a minor outlier, but the dominant theme is immune/inflammatory activity.","confidence":"High","size":14,"edges":54,"triangles":71,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":4},{"id":"GO:0090394","count":3},{"id":"GO:0071169","count":3},{"id":"GO:0009729","count":3},{"id":"GO:0042116","count":3}]},{"hash":"1490549564399090929","title":"Neural signaling and cytoskeleton dynamics","description":"The proteins show a neural-centric theme, with lamellipodium assembly indicating actin remodeling, small GTPase\u2013mediated signaling, and clathrin-dependent endocytosis pointing to vesicle trafficking. The presence of peripheral nervous system myelin maintenance and sensory perception of sound aligns with neural function, while mitochondrial fission and apoptotic mitochondrial changes may reflect energy and stress dynamics in neurons. Overall, the cluster centers on neuronal signaling intertwined with cytoskeletal and trafficking processes.","confidence":"Medium","size":14,"edges":7,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030032","count":3},{"id":"GO:0051262","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0070560","count":2}]},{"hash":"520002710773673910","title":"Ubiquitin-Proteasome Degradation & NF-kappaB Signaling","description":"The cluster is centered on ubiquitin-dependent protein catabolism, including autoubiquitination and K48-linked ubiquitination, indicating proteasomal degradation. TNF-mediated signaling and activation of NF-kappaB-inducing kinase activity further suggest a role in inflammatory signaling tightly linked to ubiquitin turnover. Some peripheral terms (neuron projection, histone catabolism) appear, but the core theme remains ubiquitin-proteasome\u2013related degradation and NF-kappaB signaling.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0051865","count":5},{"id":"GO:0070936","count":3},{"id":"GO:1990138","count":3},{"id":"GO:0030433","count":3}]},{"hash":"992964596712155018","title":"Gastrulation and Embryonic Morphogenesis","description":"This cluster is anchored by gastrulation-related terms (gastrulation involving germ band extension; cell migration involved in gastrulation; cell-cell adhesion involved in gastrulation) and basement membrane organization, plus vasculature development, indicating a shared role in embryonic tissue remodeling and morphogenesis. Additional terms about mitochondrial localization and autophagy regulation, along with signaling pathway terms, suggest broader cellular context during development but do not override the gastrulation-focused theme. Overall, the set points to embryonic morphogenesis centered on gastrulation.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1902902","count":2},{"id":"GO:0051654","count":2},{"id":"GO:0071711","count":2},{"id":"GO:0010004","count":2},{"id":"GO:0001944","count":2}]},{"hash":"453351186075766817","title":"GTPase-regulated signaling","description":"The terms cluster around regulation of small GTPases (Rho, Rac) and GTPase-mediated signal transduction, including positive regulation of GTPase activity and regulation of downstream pathways like calcineurin-NFAT. There are also entries on negative regulation of signaling related to vascular remodeling, osteoclast differentiation, and BMP signaling, suggesting a broader theme of modulators of signaling networks rather than a single pathway. This supports labeling the cluster as GTPase-regulated signaling. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0051531","count":2},{"id":"GO:0042993","count":2},{"id":"GO:0090334","count":2},{"id":"GO:0007264","count":2}]},{"hash":"1706336338129114095","title":"Central carbon metabolism and amino acid turnover","description":"This cluster's top GO terms highlight glycolysis, gluconeogenesis, and the pentose phosphate pathway, plus several amino acid\u2013related biosynthesis and catabolic processes (proline, glutamate/glutamine, putrescine, GABA). The mix points to a core metabolic module governing carbon flux with amino acid turnover; a few plant-specific or obsolete terms introduce noise, but the dominant theme is central metabolism.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006094","count":7},{"id":"GO:0061621","count":4},{"id":"GO:0006098","count":3},{"id":"GO:0019878","count":2},{"id":"GO:0015995","count":2}]},{"hash":"77075422243211816","title":"Neural development and Wnt/JNK signaling","description":"This cluster includes GO terms for neural tube closure and nervous system development, along with both positive and negative regulation of canonical Wnt signaling and regulation of the JNK cascade, indicating proteins involved in neural development and related signaling pathways. Additional terms on protein targeting to membranes and tight junction assembly suggest roles in cell polarity and membrane organization that often accompany neurodevelopment, while innate immune terms seem less central to the core theme.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001843","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0090314","count":3},{"id":"GO:0007118","count":3},{"id":"GO:2000810","count":3}]},{"hash":"688464457385211316","title":"Vesicle trafficking and endosomal transport","description":"The top GO terms point to multiple aspects of membrane trafficking, including Golgi\u2013endosome transport, retrograde Golgi\u2013ER transport, endocytosis, endosome-to-melanosome transport, and vacuole targeting, all centered on cargo sorting and vesicle movement. The presence of small GTPase\u2013mediated signaling further supports regulation of these trafficking pathways. This cohesive theme justifies a label focused on vesicle transport processes.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006895","count":4},{"id":"GO:0006623","count":4},{"id":"GO:0007264","count":3},{"id":"GO:0006897","count":3},{"id":"GO:0031532","count":3}]},{"hash":"1126895477197982087","title":"Embryonic organ morphogenesis","description":"This cluster\u2019s top GO terms center on embryonic development and the morphogenesis of multiple organs (eye, spinal cord, neural crest, inner ear, pancreas, kidney, lung, digestive tract) along with regulation of transcription by RNA Pol II, suggesting proteins involved in developmental organogenesis and gene-expression control.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0048048","count":10},{"id":"GO:0021516","count":10},{"id":"GO:0001755","count":10},{"id":"GO:0048839","count":10}]},{"hash":"787753035653541089","title":"Cardiac development and conduction","description":"This cluster is dominated by heart-related processes: atrial septum morphogenesis, outflow tract morphogenesis, pulmonary valve formation, AV node communication with the bundle of His, and gap junction assembly, all pointing to cardiac morphogenesis and electrical conduction. While a few non-cardiac terms appear (inner ear development, renin secretion regulation, glucagon response, ischemia response), the strongest shared function is heart development and electrical coupling.","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":3,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0060413","count":7},{"id":"GO:1900133","count":7},{"id":"GO:0016264","count":7},{"id":"GO:0048839","count":7},{"id":"GO:0003193","count":7}]},{"hash":"1381780527743637164","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0042273","count":9},{"id":"GO:0000466","count":8},{"id":"GO:0000463","count":8},{"id":"GO:0000462","count":8},{"id":"GO:0000472","count":7}]},{"hash":"32395989207353030","title":"Innate Immune Signaling and Xenophagy","description":"The top terms cluster around core innate immune responses to bacterial components (LPS), NF-kB pathway regulation, and interferon-beta production, with supporting processes like protein ubiquitination and microtubule-associated localization that facilitate autophagic targeting of pathogens (xenophagy). This suggests the proteins function together in innate immune signaling linked to selective autophagy.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":6},{"id":"GO:0006915","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0071222","count":5},{"id":"GO:0032088","count":5}]},{"hash":"1736751569841842342","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":63,"triangles":143,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":10},{"id":"GO:0015015","count":10},{"id":"GO:0030573","count":8},{"id":"GO:0002002","count":8},{"id":"GO:0042403","count":8}]},{"hash":"806392562080391475","title":"Organogenesis and tissue morphogenesis","description":"The terms cluster around developmental processes across multiple organs (somite development, retina layer formation, skeletal muscle differentiation, epithelial morphogenesis in gastrulation, and general multicellular growth), indicating a shared theme of organogenesis and tissue morphogenesis rather than a single pathway; a minor stress-response term is present but secondary.","confidence":"High","size":14,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":4},{"id":"GO:0061053","count":4},{"id":"GO:0035736","count":4},{"id":"GO:0072756","count":4},{"id":"GO:0098789","count":4}]},{"hash":"669542301866574837","title":"Metabolic and Redox Processes","description":"The cluster\u2019s top GO terms are dominated by metabolism-related processes\u2014glycolytic process, AMP salvage, purine nucleobase metabolic process, L-glutamine metabolic process, and L-homocysteine catabolic process\u2014along with an oxidation-reduction process annotation. A few terms (retina development, lymphocyte proliferation, response to symbiotic fungus) seem less representative and may reflect broad or misc contributions, but overall the group centers on metabolic and redox functions. Medium","confidence":"","size":14,"edges":87,"triangles":320,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0051289","count":3},{"id":"GO:0006541","count":3},{"id":"GO:0046651","count":3},{"id":"GO:0044209","count":3}]},{"hash":"1139964797491721340","title":"Neural Development and Embryonic Tissue Differentiation","description":"The cluster is enriched in neural development terms (forebrain development, neural tube closure) and broader embryonic development (multicellular organism development, skeletal system development), with supporting signaling and cellular processes (TGF-beta response, TORC1 signaling, hypoxia response, phagolysosome assembly) that commonly accompany tissue differentiation. Overall, the dominant theme is neural and embryonic tissue formation.","confidence":"Medium","size":14,"edges":28,"triangles":18,"max_degree":10,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0071560","count":7},{"id":"GO:0030900","count":6},{"id":"GO:0001843","count":5},{"id":"GO:0060528","count":5},{"id":"GO:0001501","count":5}]},{"hash":"1278206145041570392","title":"Cardiac mechanosensation and adipocyte differentiation","description":"Based on the GO terms, the proteins cluster around mechanosensing and signaling (cellular response to mechanical stimulus; detection of mechanical stimulus involved in sensory perception of pain) with a strong emphasis on cardiac electrical activity (positive regulation of membrane depolarization during cardiac muscle cell action potential; SA node cell to atrial cardiac muscle cell communication). They also relate to adipocyte biology (fat cell differentiation; negative regulation of brown fat cell differentiation) and vitamin D response, suggesting a broader link between mechanotransduction, cardiac function, and adipose regulation. Overall, the theme appears to be mechanosensitive signaling in heart tissue with concurrent adipose differentiation processes. ","confidence":"Medium","size":14,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0007253","count":2},{"id":"GO:1900827","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0086070","count":2}]},{"hash":"1230590246453389378","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":10,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:0033129","count":3},{"id":"GO:0070935","count":3},{"id":"GO:0030878","count":3},{"id":"GO:0001890","count":3}]},{"hash":"117420521132936156","title":"Embryonic Tissue and Organ Development","description":"The terms cluster around developmental processes across tissues: skeletal formation (bone mineralization and chondrocyte differentiation) alongside embryonic organogenesis (lung alveolus and digestive tract development), with some generic cellular processes (protein transport, proteolysis) that can accompany development.","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030501","count":1},{"id":"GO:0048286","count":1},{"id":"GO:0030282","count":1},{"id":"GO:0048566","count":1},{"id":"GO:0042997","count":1}]},{"hash":"2218671366750574152","title":"Epithelial polarity and cytoskeleton dynamics","description":"The terms center on adhesion and cytoskeletal remodeling (integrin activation, filopodium assembly, Rho signaling) and on establishing epithelial polarity and barriers (apical/basal polarity, apical protein localization, endothelial barrier). Microtubule organization supports coordinated cell polarity, with a possible link to apical transporter localization in intestinal epithelium. This theme justifies a label focused on adhesion, polarity, and cytoskeleton function.","confidence":"High","size":14,"edges":17,"triangles":2,"max_degree":4,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0033622","count":5},{"id":"GO:0046847","count":5},{"id":"GO:0033623","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0001951","count":4}]},{"hash":"57256655358885875","title":"Amino acid catabolism and core metabolism","description":"This cluster centers on amino acid catabolic processes (homocysteine/serine catabolism; transsulfuration) and core biosynthetic pathways (GMP and fatty acids), with additional signaling and transport activities. The retina development term appears as an outlier, but the dominant theme is metabolism.","confidence":"Medium","size":14,"edges":50,"triangles":102,"max_degree":11,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0060041","count":7},{"id":"GO:0051289","count":7},{"id":"GO:0043418","count":7},{"id":"GO:0032147","count":7},{"id":"GO:0042149","count":7}]},{"hash":"948242200442378471","title":"Unknown","description":"The top GO terms cover neural and muscle development, cytoskeletal localization, signaling (JNK and B cell receptor pathways), protein stability, and DNA repair, which are diverse and not anchored to a single cohesive function, so a specific label is not supported.","confidence":"","size":14,"edges":6,"triangles":0,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0021766","count":8},{"id":"GO:0035372","count":7},{"id":"GO:0046330","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0007399","count":7}]},{"hash":"1882315865985460900","title":"Heart Development and Cardiac Muscle Remodeling","description":"The cluster is dominated by GO terms tied to heart biology\u2014cardiac muscle hypertrophy, atrial tissue morphogenesis, cardiac muscle cell development, and regulation of heart contraction\u2014along with vascular remodeling (endothelial cell migration) and ventricle development, suggesting a coherent theme of heart development and function. Some terms like meiotic spindle localization and monocyte differentiation appear more general, but do not override the heart-centric core.","confidence":"Medium","size":14,"edges":27,"triangles":34,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0014898","count":5},{"id":"GO:0014883","count":5},{"id":"GO:0043534","count":4},{"id":"GO:0055009","count":4},{"id":"GO:0021592","count":4}]},{"hash":"1411651234059559539","title":"Embryonic development and morphogenesis","description":"Most terms point to broad developmental and morphogenetic events across several tissues (endocrine development, EMT in heart cushion, left-right patterning, cartilage and hair follicle morphogenesis, pancreas development). The presence of general splicing and DNA repair terms likely reflects essential housekeeping roles during development. The cluster thus seems to represent proteins involved in embryonic tissue formation and patterning rather than a single pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0000398","count":3}]},{"hash":"2168423315082258724","title":"Developmental Morphogenesis and Gene Expression Regulation","description":"The top GO terms point strongly to developmental processes (endocrine system development, roof of mouth development, cartilage morphogenesis, EMT in endocardial cushion formation, mesoderm development, hair follicle morphogenesis), suggesting a developmental role. At the same time, several terms reflect core RNA processing and transcriptional regulation (ribosomal subunit export, negative regulation of RNA pol II regulatory region binding, mRNA splicing, DNA replication initiation), indicating these proteins may share a common basis in regulating gene expression during development. Overall, this cluster seems to link developmental morphogenesis with gene expression control.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":12},{"id":"GO:1903026","count":12},{"id":"GO:0032298","count":12},{"id":"GO:0000398","count":12},{"id":"GO:0035270","count":11}]},{"hash":"1234449572082837569","title":"Neuronal Mitochondrial Dynamics and Synaptic Plasticity","description":"Top terms cluster around mitochondrial fission, membrane organization, and inheritance, together with GABAergic synaptic transmission and plasticity, suggesting a theme where mitochondrial dynamics influence neuronal energy supply and synaptic remodeling. Some more general terms (ribosomal export, endocytic recycling, cell cycle) are present but do not override the core mitochondrial-synaptic link.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000266","count":2},{"id":"GO:0007006","count":2},{"id":"GO:0051932","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0000001","count":2}]},{"hash":"313566283197640461","title":"Synapse Development and Plasticity","description":"The top GO terms cluster around synapse formation and remodeling (dendritic spine morphogenesis, long-term synaptic depression, positive regulation of synapse structural plasticity, NO-mediated retrograde signaling), with some related to sensory systems (cochlea morphogenesis) and membrane trafficking/polarity that support synaptic localization. This points to a cohesive theme of neuronal synapse development and plasticity, with ancillary trafficking to ensure proper synaptic polarity. ","confidence":"High","size":14,"edges":86,"triangles":311,"max_degree":13,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0060292","count":11},{"id":"GO:0090103","count":11},{"id":"GO:0060997","count":11},{"id":"GO:0045198","count":11},{"id":"GO:0098924","count":11}]},{"hash":"795182388510466078","title":"Unknown","description":"The proteins in this cluster are linked to a highly diverse set of GO terms (DNA transposition, endothelial proliferation, gastric acid secretion, photoperiodism, smooth muscle contraction, thiamine transport) with no shared biological function, and there are no edges connecting them, so no coherent cluster label can be assigned.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006313","count":1},{"id":"GO:0001935","count":1},{"id":"GO:0001696","count":1},{"id":"GO:0009648","count":1},{"id":"GO:0045987","count":1}]},{"hash":"934047626090977334","title":"Carbohydrate and Lipid Metabolism Cluster","description":"These proteins appear enriched for carbohydrate metabolism (pentose-phosphate shunt, carbohydrate metabolic process) and lipid-related pathways (fatty acid beta-oxidation, steroid biosynthetic process), with an added tilt toward energy/starvation response and some tissue-specific context (liver development). Together, they suggest a core metabolism theme centered on carbohydrate and lipid processing. ","confidence":"Medium","size":14,"edges":68,"triangles":176,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006098","count":3},{"id":"GO:0001889","count":2},{"id":"GO:0042594","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0017000","count":2}]},{"hash":"1268402536398269726","title":"Metabolism and RNA Processing Proteins","description":"This cluster shows GO terms spanning glycolytic process, adenosine and purine metabolism, and RNA maturation such as rRNA processing and snoRNA splicing. The presence of phosphorylation/dephosphorylation terms adds a signaling layer, but there is no single dominant pathway linking all members. The absence of edges supports a broad, non-interacting set of proteins annotated with diverse metabolic and RNA-processing roles; antibiotic-related terms may reflect general stress or detox connections rather than a shared function. Overall, label captures the broad theme of metabolic and RNA-processing activities rather than a precise, cohesive pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0006096","count":2},{"id":"GO:0016311","count":1},{"id":"GO:0016310","count":1},{"id":"GO:0046085","count":1}]},{"hash":"1636314369152034647","title":"Neural development and transcriptional regulation","description":"The top GO terms show a strong emphasis on transcriptional control (DNA-templated transcription, mRNA processing, regulation of transcription), which points to a core gene-expression regulatory function. This theme is reinforced by neural development terms (cerebellar cortex development, hippocampus development, motor neuron axon guidance), suggesting the proteins also participate in neurodevelopmental processes. Additional terms related to signaling, cell-matrix adhesion, and centrosome duplication fit with broader cellular contexts often linked to development and gene regulation. Overall, the cluster appears to center on transcriptional regulation intertwined with neural development, with peripheral signals that support these processes.","confidence":"High","size":14,"edges":10,"triangles":3,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0006397","count":7},{"id":"GO:0006355","count":6},{"id":"GO:0051298","count":5},{"id":"GO:0008045","count":5}]},{"hash":"378151519085877243","title":"Ribosome Biogenesis and Cell Cycle","description":"The cluster is dominated by GO terms for ribosome biogenesis, ribosomal subunit export from the nucleus, tRNA modification, and cytoplasmic translation, together with cell division and cell cycle terms. This points to a cohesive theme of ribosome production and protein synthesis coordinated with cell division, with a few auxiliary terms that are less central to the core function.","confidence":"High","size":14,"edges":10,"triangles":1,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":10},{"id":"GO:0000055","count":9},{"id":"GO:0000747","count":8},{"id":"GO:0007049","count":8},{"id":"GO:0002181","count":8}]},{"hash":"1166781379286177553","title":"Rho-driven actin remodeling and protrusive motility","description":"The top terms center on regulation of Rho signaling and the assembly of actin-based structures such as lamellipodia, microspikes, filopodia, and focal adhesions, which are all key components of actin cytoskeleton reorganization and cell migration. Additional terms touch on related cytoskeletal processes and signaling pathways (Wnt, thrombin receptor), supporting a cohesive theme of actin-driven protrusive dynamics and adhesion. Confidence: High","confidence":"","size":14,"edges":10,"triangles":5,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0030032","count":6},{"id":"GO:0030035","count":5},{"id":"GO:0070493","count":5},{"id":"GO:0048549","count":4}]},{"hash":"550105433463920162","title":"Innate immune signaling and membrane repair","description":"The cluster is enriched for innate immune functions (innate immune response; negative regulation of inflammatory mediators; LPS signaling) and membrane maintenance (plasma membrane repair), along with ubiquitination processes that can modulate signaling. This combination suggests a theme centered on immune signaling and membrane integrity.","confidence":"High","size":14,"edges":57,"triangles":154,"max_degree":11,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":13},{"id":"GO:0033280","count":13},{"id":"GO:1900458","count":13},{"id":"GO:0007014","count":13},{"id":"GO:0007182","count":13}]},{"hash":"1198233521355838013","title":"mRNA processing and translation initiation","description":"The top GO terms emphasize mRNA splicing (via spliceosome), mRNA export, and polyadenylation regulation, along with formation of the translation preinitiation complex, pointing to a cohesive group of RNA processing and translation initiation proteins.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":13},{"id":"GO:1905663","count":13},{"id":"GO:1900363","count":13},{"id":"GO:0048026","count":13},{"id":"GO:0006406","count":13}]},{"hash":"395808290400429906","title":"Multi-tissue developmental processes","description":"This cluster\u2019s GO terms point to development across several tissues and organs (sebaceous gland, inner ear, nephron tubule, oligodendrocyte progenitors, mesenchyme), with neural-related aspects like synapse assembly and locomotory behavior, suggesting a broad developmental theme rather than a single pathway. The lack of edges doesn't contradict this interpretation, as the terms collectively indicate overarching developmental functions.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042144","count":3},{"id":"GO:0018230","count":3},{"id":"GO:0048733","count":3},{"id":"GO:0007416","count":3},{"id":"GO:0007626","count":3}]},{"hash":"1030740303203068160","title":"Immune signaling and membrane trafficking","description":"Based on the top GO terms, many proteins are linked to immune processes (follicular B cell differentiation, regulation of phagocytosis, negative regulation of T cell proliferation) and to intracellular transport and membrane dynamics (intracellular protein transport, plasma membrane repair). A few terms also touch on signaling (Ras pathway) and even neuronal communication (glutamatergic synaptic transmission), suggesting a broad theme around immune cell signaling with membrane-related processes. Thus, the label captures the overall functional context without overfitting to a single function.","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0002316","count":13},{"id":"GO:0006886","count":13},{"id":"GO:0030579","count":13},{"id":"GO:0032024","count":13},{"id":"GO:0046642","count":13}]},{"hash":"211400699918537214","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:1900026","count":14},{"id":"GO:0060292","count":13},{"id":"GO:0070373","count":13},{"id":"GO:0090103","count":13},{"id":"GO:0060997","count":13}]},{"hash":"406130045756057666","title":"Host\u2013pathogen Entry and Immune Signaling","description":"Based on the top GO terms, this cluster centers on processes related to interaction with host cells (symbiont entry into host cell, cell adhesion) and immune communication (proteolysis, T cell costimulation, immune signaling). While there are some developmental terms present, the strongest cohesive theme is host interaction and immune modulation, suggesting a functional group of proteins involved in host entry and subsequent immune signaling. Confidence in this label is Medium.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0031295","count":2},{"id":"GO:0048661","count":2}]},{"hash":"472310770554767714","title":"Steroid and lipid biosynthesis with drug response","description":"This cluster is enriched for various biosynthetic processes, including steroid hormones (testosterone, androgen) and lipid signaling (prostaglandin), plus other biosynthetic pathways (tetrahydrobiopterin, mycolic acids) and regulatory/response terms (transcription regulation, response to methotrexate and antibiotics). The common theme seems to be broad metabolic/biosynthetic activity with linked drug response, rather than a single tight pathway.","confidence":"Medium","size":14,"edges":66,"triangles":174,"max_degree":12,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0061370","count":8},{"id":"GO:0008209","count":8},{"id":"GO:0001516","count":7},{"id":"GO:0070373","count":6},{"id":"GO:0071768","count":6}]},{"hash":"456396932877984512","title":"ECM Adhesion and Cell Migration in Development","description":"This cluster centers on extracellular matrix organization and cell-adhesion signaling (collagen fibril organization, integrin signaling, receptor clustering, hemidesmosome assembly, substrate adhesion-dependent spreading) and includes migration-related terms for fibroblasts and smooth muscle cells, suggesting coordinated adhesion-migration programs during development. Additional terms on osteoblast proliferation and endodermal differentiation point to developmental contexts, including growth of tracheal structures. Overall, the pattern reflects ECM\u2013cell adhesion\u2013driven migration in development.","confidence":"High","size":14,"edges":87,"triangles":319,"max_degree":13,"top_function":"wound healing","top_go_terms":[{"id":"GO:0030199","count":10},{"id":"GO:0014909","count":10},{"id":"GO:0010763","count":9},{"id":"GO:0007229","count":9},{"id":"GO:0043113","count":8}]},{"hash":"748297367958924945","title":"Membrane transporter proteins","description":"The cluster is enriched for a wide range of transmembrane transport GO terms (ions, sugars, vitamins, nitrates/nitrites, etc.), indicating these proteins primarily function as membrane transporters rather than enzymes or regulators.","confidence":"High","size":14,"edges":88,"triangles":331,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":13},{"id":"GO:0015757","count":13},{"id":"GO:0042128","count":13},{"id":"GO:1900754","count":13},{"id":"GO:0015707","count":13}]},{"hash":"687458759184024883","title":"Sphingolipid Metabolism and Lipid Signaling","description":"The cluster centers on sphingolipid metabolism and signaling, with GO terms for sphingosine and sphinganine-1-phosphate metabolic processes, and regulation of sphingolipid-mediated signaling. Phospholipid catabolic and dephosphorylation terms further support lipid turnover, pointing to lipid signaling/domains as the core function. Additional terms for glucose-6-phosphate transport and cellular oxidant detoxification suggest related metabolic and redox roles often linked to lipid signaling networks, reinforcing a cohesive lipid-signaling/metabolism theme.","confidence":"High","size":14,"edges":75,"triangles":210,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0009395","count":6},{"id":"GO:1902068","count":6},{"id":"GO:0098869","count":6},{"id":"GO:0015760","count":6},{"id":"GO:0046839","count":6}]},{"hash":"1242706716622594901","title":"Endothelial cell junctions and migration","description":"This cluster is dominated by GO terms related to tight junction assembly between endothelial cells and the positive regulation of integrin signaling, plus explicit endothelial cell migration. Together these point to vascular endothelium dynamics and adhesion/motility processes. Some peripheral terms (e.g., viral release, sodium transport, butyrate response) are less coherent with the core theme, but do not override the central pattern of junctional remodeling and endothelial movement.","confidence":"High","size":14,"edges":49,"triangles":73,"max_degree":12,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:2001046","count":8},{"id":"GO:0070830","count":8},{"id":"GO:0043534","count":7},{"id":"GO:0019076","count":7},{"id":"GO:1903348","count":7}]},{"hash":"234869595013390608","title":"Embryonic Development and Morphogenesis","description":"Among the GO terms, there is strong enrichment for palatal development, mesoderm development, hair follicle morphogenesis, EMT in heart development, left-right pattern formation, and endocrine system development. These collectively point to a cluster focused on embryogenesis, tissue and organ formation, and developmental patterning. A couple of terms (mRNA splicing via spliceosome and DNA replication initiation) are broader cellular processes that can be active in development, but do not override the dominant developmental theme. Therefore, the label Embryonic Development and Morphogenesis is appropriate and representative.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060021","count":13},{"id":"GO:0007498","count":13},{"id":"GO:0031069","count":13},{"id":"GO:0010957","count":13},{"id":"GO:0035270","count":13}]},{"hash":"1897340157720702119","title":"Dopaminergic and Cholinergic Signaling","description":"The top GO terms are dominated by dopamine- and acetylcholine-related pathways, including response to amphetamine, positive regulation of dopamine uptake, acetylcholine receptor signaling, and regulation of acetylcholine metabolism, which together point to dopaminergic and cholinergic neurotransmission as the core theme of this cluster. Immune and developmental terms appear less central, suggesting broader pleiotropy rather than a unifying theme beyond neurotransmitter signaling.","confidence":"Medium","size":14,"edges":88,"triangles":331,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":13},{"id":"GO:0007497","count":13},{"id":"GO:0050728","count":13},{"id":"GO:1901652","count":13},{"id":"GO:0051586","count":13}]},{"hash":"859182026967862539","title":"Unknown","description":"Top GO terms include sensory perception of sound, neural tube closure, labyrinthine morphogenesis, multicellular development, T cell proliferation, vascular smooth muscle differentiation, NF-kappaB signaling, glomerular basement membrane development, complement activation, and sodium channel clustering\u2014diverse themes with no clear unifying function for the cluster.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050910","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0060670","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0042102","count":2}]},{"hash":"1022914341340946339","title":"GI mucosal immunity and epithelial barrier","description":"The top GO terms cluster around immune defense and barrier functions at the GI epithelium, including epithelial maintenance, IgA transcytosis via the poly Ig receptor, innate and adaptive immune responses, defense against bacteria, and host\u2013microbe interactions (virion attachment, symbiont entry, CCR7-related T cell signaling). This points to a cohesive theme of mucosal immunity and barrier maintenance in the gastrointestinal tract.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030277","count":8},{"id":"GO:0046814","count":8},{"id":"GO:0042102","count":8},{"id":"GO:1903082","count":8},{"id":"GO:1902414","count":8}]},{"hash":"688869221509149698","title":"Dopaminergic and cholinergic signaling","description":"The proteins in this cluster are enriched for GO terms tied to dopamine and acetylcholine signaling, including response to amphetamine, regulation of dopamine uptake in synaptic transmission, regulation of acetylcholine metabolism, and GPCR signaling pathways that inhibit adenylate cyclase. Although a couple terms touch on development or immune processes, the dominant theme is neurotransmitter receptor\u2013mediated signaling, pointing to a dopaminergic/cholinergic signaling module.","confidence":"High","size":14,"edges":15,"triangles":5,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":14},{"id":"GO:0007497","count":14},{"id":"GO:0050728","count":14},{"id":"GO:1901652","count":14},{"id":"GO:0051586","count":14}]},{"hash":"1489854747185238564","title":"TNF/NF-\u03baB\u2013mediated innate immune regulation","description":"The top terms point to suppression of inflammatory signaling, with negative regulation of TNF production and TNF-mediated signaling, as well as inhibition of canonical NF-\u03baB signaling and a general innate immune response to LPS. While other terms touch on collagen organization, cell adhesion, and CNS development, the central theme among the majority of terms is dampening inflammatory pathways in innate immunity, suggesting a regulatory module rather than a purely structural or developmental cluster.","confidence":"High","size":14,"edges":87,"triangles":319,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0032720","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0050804","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0071222","count":2}]},{"hash":"1898480442589879674","title":"Craniofacial Development and Immune-Apoptosis Signaling","description":"The cluster centers on craniofacial morphogenesis, with terms like chondrocyte differentiation, roof of mouth development, and salivary gland cavitation, and involves regulatory pathways such as BMP signaling and osteoblast differentiation. It also includes immune-related processes (chemokine and IL-6 production, T cell chemotaxis) and apoptosis pathways (extrinsic death receptor signaling, cytochrome c release), suggesting a theme of craniofacial development coupled with immune and apoptotic regulation.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002062","count":3},{"id":"GO:0060021","count":3},{"id":"GO:0045080","count":2},{"id":"GO:0010820","count":2},{"id":"GO:0090200","count":2}]},{"hash":"79952055860364236","title":"Macrophage Activation and NO Production","description":"The top GO terms point to macrophage activation and nitric oxide biosynthesis/production, with arginine catabolism (L-arginine) feeding NO production, a hallmark of inflammatory macrophage responses. Transport-related terms (chloride, polyamine, carnitine, D-alanine transmembrane transport) may reflect membrane logistics in immune cells, but the core theme remains macrophage-driven inflammatory signaling and NO metabolism.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902476","count":3},{"id":"GO:0006809","count":2},{"id":"GO:0043030","count":2},{"id":"GO:0042116","count":2},{"id":"GO:0006527","count":2}]},{"hash":"1815949132237979558","title":"Nociception and mechanosensation with ion homeostasis","description":"Top GO terms show detection of temperature, chemical, and mechanical stimuli linked to pain, plus mechanosensory touch, salty taste perception, and acidic pH response, along with sodium ion homeostasis. This suggests a cohesive theme around sensory detection (nociception, mechanosensation, taste) coupled with ion regulation. Therefore the label reflects both the sensory modalities and the accompanying ion homeostasis processes.","confidence":"High","size":14,"edges":38,"triangles":46,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0050965","count":6},{"id":"GO:1905789","count":6},{"id":"GO:0010447","count":6},{"id":"GO:0046929","count":6},{"id":"GO:0050968","count":6}]},{"hash":"375255058866968395","title":"Coagulation, fibrinolysis, and inflammatory signaling","description":"The terms cluster around blood coagulation, fibrinolysis, vascular responses (vasoconstriction), and innate immune/cytokine signaling (IL-6, G-CSF), suggesting a theme of hemostasis tied to inflammation rather than a single enzymatic function. This reflects a coherent but broad immune\u2013coagulation axis represented in the cluster.","confidence":"Medium","size":13,"edges":4,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042730","count":1},{"id":"GO:0051258","count":1},{"id":"GO:0050714","count":1},{"id":"GO:0070374","count":1},{"id":"GO:0043152","count":1}]},{"hash":"1544386526083103920","title":"Nuclear Transport and Pore Complex Regulation","description":"These 13 proteins show a consistent pattern of GO terms tied to nuclear transport and pore biology: nuclear pore organization, regulation of protein import into the nucleus, NLS-dependent import, tRNA export from the nucleus, and mitotic nuclear membrane disassembly, plus localization to the nuclear inner membrane. This points to a cohesive function in nuclear import/export and pore complex dynamics, potentially involving assembly/regulation of the nuclear envelope during the cell cycle. Some oligomerization terms may reflect interactions within transport machinery components.","confidence":"High","size":13,"edges":70,"triangles":213,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0075733","count":3},{"id":"GO:0051290","count":3},{"id":"GO:0006999","count":3},{"id":"GO:0042306","count":3},{"id":"GO:0051260","count":3}]},{"hash":"1498945030836006276","title":"Chromatin remodeling and transcription regulation","description":"The top GO terms cluster around chromatin remodeling and transcriptional control, such as chromatin remodeling (GO:0043044), regulation related to RNA Pol II CTD phosphorylation (GO:1901407, though obsolete), and negative regulation of heterochromatin formation (GO:0031452). Additional terms point to broader regulatory signaling (insulin receptor signaling, androgen receptor signaling) that can influence gene expression. While some terms are developmental or obsolete, the core theme across the cluster is regulation of gene expression through chromatin state and transcriptional control.","confidence":"Medium","size":13,"edges":38,"triangles":45,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:1901407","count":5},{"id":"GO:0022037","count":4},{"id":"GO:0031452","count":3},{"id":"GO:0005987","count":3},{"id":"GO:0060765","count":3}]},{"hash":"1082786327546877370","title":"Multisystem Development and Differentiation","description":"The top GO terms span nervous system development, placental development, chondrocyte differentiation and cartilage formation, Sertoli cell proliferation, labyrinthine vessel development, and sensory perception of sound, with additional immune and hormonal signaling terms. This pattern suggests a broad developmental/differentiation role across multiple tissues rather than a single, cohesive pathway, so the label reflects a general developmental theme rather than a specific process. Medium","confidence":"Medium","size":13,"edges":29,"triangles":39,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":7},{"id":"GO:0050830","count":4},{"id":"GO:0042699","count":4},{"id":"GO:0060011","count":4},{"id":"GO:0045670","count":4}]},{"hash":"556150147252148975","title":"Ubiquitination in NF-\u03baB signaling","description":"These proteins cluster around ubiquitin-related processes: general ubiquitination, specific linkages (K63, K6, and linear polyubiquitination), and ubiquitin-dependent protein catabolic processes. The presence of GO terms for positive regulation of TNF-mediated signaling and canonical NF-\u03baB signaling, along with negative regulation of necroptosis, points to a coordinated module where ubiquitination modulates inflammatory signaling and cell fate, rather than a single degradation pathway. Confidence: High","confidence":"","size":13,"edges":9,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0036205","count":5},{"id":"GO:0051865","count":5},{"id":"GO:1903265","count":5},{"id":"GO:0043123","count":5},{"id":"GO:0070534","count":5}]},{"hash":"2276043012767087106","title":"Phospholipid Remodeling and Lipid Biosynthesis","description":"This cluster shows strong emphasis on remodeling of phospholipid acyl chains across several headgroups (phosphatidylserine, phosphatidylinositol, phosphatidylethanolamine, cardiolipin) and related biosynthetic processes, along with lipid mediator activities (arachidonate secretion, platelet activating factor biosynthesis). While a couple of terms are more general signaling or transcription-related, the dominant theme is membrane lipid remodeling and lipid-derived signaling. ","confidence":"Medium","size":13,"edges":34,"triangles":29,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":2},{"id":"GO:0034244","count":2},{"id":"GO:0036150","count":1},{"id":"GO:0036149","count":1},{"id":"GO:0006654","count":1}]},{"hash":"1287196368766972190","title":"Innate Immune Activation and Cytokine Production","description":"The cluster is dominated by innate immune and inflammatory signaling terms: innate immune response, pyroptotic inflammatory response, and positive regulation of IL-1\u03b2, IL-1, and IL-18 production, along with related MHC class I biosynthesis. This suggests a module coordinating innate immune activation and cytokine-mediated inflammation, with connections to TH17 differentiation. The mitotic spindle assembly term appears secondary and may reflect multifunctional proteins rather than core cluster function.","confidence":"High","size":13,"edges":55,"triangles":123,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090307","count":8},{"id":"GO:0045087","count":6},{"id":"GO:0070269","count":6},{"id":"GO:0050718","count":6},{"id":"GO:0032621","count":6}]},{"hash":"1610721165480040703","title":"Angiogenesis and immune signaling cluster","description":"This cluster abundantly features terms for blood vessel formation (angiogenesis, positive regulation of angiogenesis, angiotensin maturation), along with adaptive and innate immune responses and intercellular signaling, suggesting a coordinated program of vascular development and host immune communication, possibly in contexts of host-microbe interactions.","confidence":"High","size":13,"edges":19,"triangles":11,"max_degree":7,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0007275","count":7},{"id":"GO:0001525","count":5},{"id":"GO:0046718","count":4},{"id":"GO:0045766","count":4},{"id":"GO:0002250","count":4}]},{"hash":"1482005370428904878","title":"GTPase-driven cytoskeleton remodeling and endocytosis","description":"This cluster is enriched for small GTPase signaling and actin cytoskeleton-associated processes (filopodium and podosome assembly, cell spreading, adhesion, and polarity) along with endocytosis and phagocytic engulfment, suggesting a theme of coordinated cytoskeletal remodeling driving membrane trafficking and immune cell functions.","confidence":"High","size":13,"edges":28,"triangles":26,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007264","count":8},{"id":"GO:0051835","count":8},{"id":"GO:0034260","count":8},{"id":"GO:0045087","count":8},{"id":"GO:0006897","count":8}]},{"hash":"415171176436840977","title":"Neural development and sensory neuron differentiation","description":"The Top Terms show several neural-development-related processes: midbrain dopaminergic neuron differentiation, neurogenesis, ventral spinal cord interneuron specification, and sensory perception of smell. These indicate a cohesive theme around neural development and differentiation of sensory neurons, with other terms (e.g., organogenesis like nephrogenesis or pancreatic development and general cellular processes) being less central to the cluster\u2019s primary signal. Confidence reflects this moderate-to-strong alignment with neural development, tempered by the presence of some non-neural terms. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090334","count":3},{"id":"GO:1904948","count":3},{"id":"GO:0007608","count":2},{"id":"GO:0055091","count":2},{"id":"GO:0010628","count":2}]},{"hash":"1125321704007419746","title":"Neural development and immune signaling","description":"Enrichment for hippocampus development and neurotrophin signaling points to neural development; accompanying TNF signaling, NF-kappaB activity, innate immunity, B cell homeostasis, hypoxia, and apoptosis indicate immune and stress response cross-talk. Together, the proteins seem to occupy signaling roles in neural development with immune/stress integration.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021766","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0033209","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0045087","count":3}]},{"hash":"1528754885118381820","title":"Unknown","description":"The top GO terms cover neuromuscular channel clustering, differentiation and signaling across diverse tissues (muscle, endothelium, lymphoid lineages), miRNA transcription, and even an obsolete BMP pathway, with no obvious shared function or pathway linking them. Therefore, no coherent cluster label can be assigned.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071340","count":3},{"id":"GO:0045678","count":3},{"id":"GO:0043547","count":2},{"id":"GO:1902262","count":2},{"id":"GO:1904996","count":2}]},{"hash":"1145466223925191648","title":"Neural and immune system development","description":"This cluster centers on developmental processes across tissues, notably neural development (neurogenesis, neuron migration, neuron apoptotic regulation, cerebral cortex development) and immune system maturation (thymus development, T cell receptor signaling), with additional heart development and post-embryonic development terms, implying a broad developmental theme rather than a single function.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048538","count":4},{"id":"GO:0050852","count":3},{"id":"GO:0021987","count":3},{"id":"GO:0009791","count":3},{"id":"GO:0016337","count":3}]},{"hash":"25386492018338922","title":"Neural Development and Muscle Signaling","description":"The top GO terms converge on neural development (Purkinje cell layer morphogenesis; glossopharyngeal nerve development) and muscle-related signaling/adaptation (denervation response, regulation of muscle relaxation, baroreceptor-mediated blood pressure), with supporting actin cytoskeleton dynamics and angiotensin-PLC signaling that connect neural cues to vascular/muscular responses.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021692","count":4},{"id":"GO:0031532","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0014894","count":3},{"id":"GO:0021563","count":3}]},{"hash":"1959572226293050872","title":"Regulation of signaling and protein localization","description":"Top GO terms show regulatory roles across diverse pathways (neuron maturation, dopamine signaling, synaptic potential, TLR1 signaling, Wnt signaling) and intracellular processes (chromatin localization, endosome-to-Golgi transport, mitotic regulation, autoubiquitination). The common thread is broad regulation of signaling outputs and protein localization/trafficking rather than a single pathway, justifying a general label for this cluster.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014041","count":4},{"id":"GO:1903215","count":4},{"id":"GO:0071169","count":4},{"id":"GO:0090394","count":4},{"id":"GO:0060161","count":4}]},{"hash":"161789830463569770","title":"Neural development and signaling regulation","description":"This cluster centers on neural development and sensory signaling processes, as shown by terms for peripheral nervous system myelination, visual perception, dendrite morphogenesis, amphetamine response, and calcium/NFAT signaling, with additional hints of transcriptional regulation. The heart development term may reflect shared developmental pathways across tissues but does not dominate the cluster\u2019s theme.","confidence":"High","size":13,"edges":51,"triangles":79,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0022011","count":11},{"id":"GO:0043388","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0007601","count":9},{"id":"GO:0001975","count":8}]},{"hash":"793204156636344908","title":"Angiogenesis and immune development signaling","description":"The cluster features strong enrichment for angiogenesis and thymus/immune development terms (angiogenesis; thymus development; gamma-delta T cell differentiation) alongside key signaling pathways (ERK, Wnt, PI3K) and cytoskeletal organization, suggesting a shared role in coordinating vascular and immune system development through signaling networks.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0014066","count":13},{"id":"GO:0031532","count":13},{"id":"GO:0001525","count":13},{"id":"GO:0048538","count":13},{"id":"GO:0036092","count":13}]},{"hash":"269810563561692411","title":"Embryonic organogenesis and tissue differentiation","description":"Top terms are dominated by developmental and differentiation processes across multiple tissues (kidney morphogenesis, spinal cord interneuron specification, pancreatic islet cell development, head development, atrial cardiomyocyte differentiation, and thyroid hormone response). Although there is an outlier related to cell wall biosynthesis, the prevailing signal points to broad developmental programming rather than a single pathway. Therefore the cluster likely represents a general Development/Differentiation group across organs.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072284","count":7},{"id":"GO:0021521","count":7},{"id":"GO:0003324","count":7},{"id":"GO:0090334","count":7},{"id":"GO:0051017","count":7}]},{"hash":"65907516124723733","title":"Dendritic spine morphogenesis and synaptic plasticity","description":"These terms cluster around neuronal cytoskeleton remodeling and synaptic plasticity; Rho GTPase signaling and actin organization drive dendritic spine morphogenesis, with additional terms supporting synapse structural plasticity and long-term depression. Some terms are broader signaling contexts, but the dominant theme is spine remodeling linked to synaptic plasticity.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030036","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0007266","count":5},{"id":"GO:0090630","count":5},{"id":"GO:0007605","count":5}]},{"hash":"1551905115737865034","title":"Developmental Transcription and Fate Determination","description":"The dominant GO term is transcription by RNA polymerase II, indicating a core transcriptional machinery role, while the other terms point to various developmental fate decisions across tissues (neural, auditory, renal, heart, insect Malpighian tubules). Together they suggest a cluster of proteins coordinating development through transcriptional regulation and cell fate specification.","confidence":"Medium","size":13,"edges":37,"triangles":44,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0072049","count":10},{"id":"GO:0072141","count":10},{"id":"GO:0007400","count":10},{"id":"GO:0071392","count":10}]},{"hash":"541783681035525555","title":"Embryonic patterning and organ morphogenesis","description":"This cluster centers on developmental processes that pattern and shape organs. Top GO terms include eye/lens morphogenesis and proliferation, cranial skeletal development, left/right patterning, and embryonic organ formation (eye, lung, ovary). Immune-related terms (thymus migration, T cell tolerance) may be incidental or reflect broader developmental-immune interactions, but the main signal is morphogenesis and patterning in early development.","confidence":"Medium","size":13,"edges":44,"triangles":59,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:2001111","count":4},{"id":"GO:1904888","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0097535","count":4},{"id":"GO:0048294","count":4}]},{"hash":"1077812735684433588","title":"Developmental signaling regulators","description":"The top GO terms span several developmental contexts (heart, embryonic eye morphogenesis, CNS neuron axonogenesis, vagina development, luteinization) and broad signaling regulation (NF-kappaB, insulin signaling, inflammatory response, lysosomal enzyme secretion). This suggests a set of proteins broadly involved in developmental processes through regulatory signaling rather than a single tissue-specific function. ","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043124","count":4},{"id":"GO:0021952","count":4},{"id":"GO:0060068","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0090340","count":3}]},{"hash":"210021240567056347","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by GO terms for ribosome biogenesis, rRNA processing, snoRNP assembly, and translation, indicating a coherent group of proteins involved in ribosome production and protein synthesis, with supporting terms for translation-related modifications such as pseudouridylation and selenocysteine incorporation.","confidence":"High","size":13,"edges":77,"triangles":275,"max_degree":12,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0042254","count":5},{"id":"GO:0042274","count":3},{"id":"GO:0000447","count":3},{"id":"GO:0006407","count":2}]},{"hash":"523415503198513252","title":"Mitochondrial apoptosis and energy metabolism","description":"The top GO terms cluster around mitochondrial functions: outer membrane translocase assembly, proton motive force-driven ATP synthesis, and regulation of mitochondrial membrane permeability in apoptosis. Some terms also touch on neuronal development and neurotransmitter handling, which aligns with mitochondria\u2019s crucial role in neurons. Altogether, the proteins appear to be linked through mitochondrial maintenance, apoptotic regulation, and energy production, with a neuronal context.","confidence":"High","size":13,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070096","count":2},{"id":"GO:0015986","count":1},{"id":"GO:0021762","count":1},{"id":"GO:0042475","count":1},{"id":"GO:1902110","count":1}]},{"hash":"1858397249994493669","title":"RNA and protein methyltransferases","description":"This cluster is dominated by GO terms related to methylation, including tRNA, rRNA, and mRNA capping methylations, as well as protein methylation and N-terminal methylation. The convergence on various methyltransferase activities suggests a cohesive group of enzymes that catalyze methyl group transfers on RNA and proteins, with some links to cofactor biosynthesis methylation steps.","confidence":"High","size":13,"edges":36,"triangles":36,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0030488","count":7},{"id":"GO:0006370","count":5},{"id":"GO:0070476","count":5},{"id":"GO:0009236","count":5},{"id":"GO:0036265","count":5}]},{"hash":"320920568335153264","title":"Nitrosative stress response and retinoid metabolism","description":"The prominent GO terms are related to nitrosative stress (peptidyl-cysteine S-nitrosylation, response to nitrosative stress) and retinoid metabolism (retinol and retinoic acid metabolic processes), suggesting a cluster focused on redox signaling linked to retinoid pathways. Some terms about LPS response and extracellular signaling imply broader stress-adaptation, but the two main themes are nitrosative signaling and retinoid metabolism.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0018119","count":4},{"id":"GO:0032496","count":4},{"id":"GO:0042572","count":3},{"id":"GO:1900116","count":3},{"id":"GO:0043458","count":3}]},{"hash":"856398262286936607","title":"Kidney morphogenesis with angiogenesis and immune signaling","description":"The top GO terms center on ureteric bud morphogenesis, mesonephric duct development, and adrenal gland development, pointing to kidney/urogenital organogenesis. Nearby themes of angiogenesis regulation, cell-matrix adhesion, and complement activation/macrophage cytokine production suggest coordinated vascular and innate immune processes accompanying development. Overall, the cluster seems to reflect renal/related organogenesis with associated vascular and immune signaling.","confidence":"Medium","size":13,"edges":13,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":3},{"id":"GO:0001970","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0001867","count":3},{"id":"GO:0007160","count":3}]},{"hash":"1143276424882941270","title":"Immune signaling and developmental remodeling","description":"The cluster includes immune-related terms (innate immune response, B cell receptor signaling) alongside developmental processes (placenta development, cell migration, apoptotic processes, telomere maintenance) and general cellular functions (mRNA processing, polarity establishment). This mix suggests proteins involved in immune signaling that also participate in tissue remodeling and development, rather than a single narrow function. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001890","count":6},{"id":"GO:0006915","count":6},{"id":"GO:0010765","count":6},{"id":"GO:2000114","count":6},{"id":"GO:0006397","count":6}]},{"hash":"237159793202400582","title":"Integrin-Mediated ECM Adhesion and Coagulation","description":"Top GO terms indicate integrin signaling, collagen fibril organization and biosynthesis, ECM adhesion, and coagulation with leukocyte recruitment, suggesting a cluster focused on extracellular matrix interactions that drive cell adhesion and clotting/inflammation processes.","confidence":"High","size":13,"edges":28,"triangles":23,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007229","count":6},{"id":"GO:0030199","count":5},{"id":"GO:0090331","count":5},{"id":"GO:0032964","count":5},{"id":"GO:0007596","count":5}]},{"hash":"918503287660670941","title":"Redox balance and diverse catabolic processes","description":"Top GO terms indicate a strong redox/regulatory theme (oxidation-reduction, oxidant detoxification, redox homeostasis) but are mixed with multiple unrelated catabolic pathways (uracil, triglyceride, juvenile hormone, prostaglandin) and even a plant-specific development term. This heterogeneity prevents a single cohesive function from being assigned; the label emphasizes the predominant redox-related metabolism while acknowledging the broader, diverse catabolic signals.","confidence":"Medium","size":13,"edges":24,"triangles":22,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0098869","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006223","count":3},{"id":"GO:0045454","count":2}]},{"hash":"2197013778579886783","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":70,"triangles":213,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0015937","count":5},{"id":"GO:0034628","count":4},{"id":"GO:0046444","count":4},{"id":"GO:0097171","count":4},{"id":"GO:0006747","count":4}]},{"hash":"1163627517259086903","title":"Negative Regulation of Signaling and Actin Cytoskeleton Remodeling","description":"The top GO terms cluster around suppressing signaling pathways (ERK1/ERK2 cascade, STAT phosphorylation, T cell receptor signaling, EGFR activity) and coordinating actin cytoskeleton dynamics (stress fiber and podosome assembly, integrin signaling). This points to a functional group that dampens signaling while modulating cytoskeleton and adhesion structures, hence a label centered on negative signaling regulation plus cytoskeletal remodeling.","confidence":"High","size":13,"edges":65,"triangles":180,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":11},{"id":"GO:0042518","count":11},{"id":"GO:0051492","count":11},{"id":"GO:0043066","count":11},{"id":"GO:0031532","count":11}]},{"hash":"1507892371470152804","title":"Neural development and synapse formation","description":"The proteins cluster around neural development and connectivity: axon guidance (Roundabout signaling), neuron migration cues (chemorepulsion in olfactory bulb interneurons), cell adhesion, and positive regulation of synapse assembly, with BMP signaling in developmental contexts. While a heart-rate term and other developmental categories appear, the dominant pattern points to neuronal development and synaptic organization.","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0086091","count":2},{"id":"GO:0097150","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0006910","count":2},{"id":"GO:0021836","count":2}]},{"hash":"504618291428455523","title":"Brain and heart development with angiogenesis","description":"The top terms include cerebellar cortex development, hippocampus development, and heart development, together with positive regulation of angiogenesis, indicating coordinated organogenesis and vascularization in neural and cardiac tissues. Transcriptional regulation and signaling terms further support a developmental program. Therefore this label reflects the cluster\u2019s common theme. ","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045766","count":8},{"id":"GO:0021695","count":8},{"id":"GO:0045056","count":8},{"id":"GO:0021766","count":8},{"id":"GO:1903936","count":8}]},{"hash":"327147833832673382","title":"Neuronal endosomal trafficking and glutamatergic signaling","description":"The cluster centers on endosome-related processes (Golgi to endosome transport, endosome organization, endocytic recycling, endosome to melanosome transport) and regulation of GTPase activity, plus negative regulation of receptor-mediated endocytosis and links to glutamatergic synaptic transmission. This combination suggests a cohesive module of neuronal vesicle trafficking that governs receptor turnover and synaptic signaling at glutamatergic synapses, with contextual relevance to brain-related behaviors.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001662","count":3},{"id":"GO:1900165","count":2},{"id":"GO:0035646","count":2},{"id":"GO:0043087","count":2},{"id":"GO:0060368","count":2}]},{"hash":"2001169207097906519","title":"Unknown","description":"The GO terms span fibrinolysis, coagulation, cardiovascular regulation, development, signaling, transcription, and immune signaling, with no single cohesive function covering the group. The sparse connectivity (one edge, no triangles) further suggests there isn\u2019t a tight shared role tying these proteins together, so a specific functional label isn\u2019t well-supported.","confidence":"","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042730","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0055123","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0003050","count":2}]},{"hash":"754647222157458717","title":"Innate immune response and vascular remodeling","description":"This cluster is strongly enriched for innate immune terms, notably complement activation via both lectin and classical pathways, defense response to Gram-positive bacteria, and IL-1 beta production, which together indicate an inflammatory/immune response. Additional terms point to vascular remodeling and growth processes (angiogenesis, smooth muscle cell\u2013matrix adhesion, multicellular growth), suggesting simultaneous vascular and tissue remodeling activities accompanying inflammation. Some digestive and blood pressure-related terms may be peripheral or reflective of broader organismal regulation during inflammatory states, but they do not dominate. Confidence: Medium","confidence":"","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0001867","count":11},{"id":"GO:0006958","count":11},{"id":"GO:0050830","count":9},{"id":"GO:0045766","count":9},{"id":"GO:0003050","count":8}]},{"hash":"1740653635982652432","title":"Bone Formation and Remodeling","description":"The terms show bone resorption (GO:0045453) and intramembranous ossification (GO:0001957) as dominant signals, pointing to skeletal development and bone turnover. Other terms like memory or surfactant homeostasis are present but less central, so the core theme is bone formation/remodeling.","confidence":"Medium","size":13,"edges":32,"triangles":27,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0045453","count":4},{"id":"GO:0007614","count":3},{"id":"GO:0043129","count":3},{"id":"GO:0010813","count":3},{"id":"GO:0060448","count":3}]},{"hash":"1051392578986405038","title":"Heart development and immune signaling cluster","description":"The top GO terms cluster around cardiac myofibril assembly and heart development, indicating a cardiomyocyte-related function. At the same time, there are immune-related terms (innate immune response, defense against virus) and signaling pathways (JNK, TGF-beta, insulin signaling), suggesting cross-talk between cardiac biology and immune/stress signaling. The sparse edges imply a cohesive broad theme rather than tightly interconnected modules, making a heart-immune signaling interpretation the most representative.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0055003","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0051607","count":3}]},{"hash":"1865324779717197718","title":"Hormone-regulated development and gene expression","description":"The terms cluster around regulation of gene expression (negative regulation of transcription by RNA Pol II, JUN phosphorylation, circadian regulation of gene expression) and hormone-related responses (cellular response to estradiol, ovarian follicle rupture), with additional development-related terms (lens development, neuronal-glial interactions). This suggests a theme of developmental processes modulated by hormonal and circadian cues, despite some unrelated terms, hence a label focusing on hormone-regulated gene expression during development. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":1},{"id":"GO:0001543","count":1},{"id":"GO:0032922","count":1},{"id":"GO:0071392","count":1},{"id":"GO:0019915","count":1}]},{"hash":"156271320747531498","title":"Neurodevelopment and broad signaling pathways","description":"This cluster includes neural development terms (neural tube closure, dendritic spine morphogenesis) alongside multiple signaling-related terms (VEGF receptor signaling, Wnt pathway regulation, leukocyte chemotaxis). It also lists mitotic checkpoint signaling and spindle\u2013kinetochore attachment, indicating cell-cycle related aspects, plus other varied processes. There isn\u2019t a single dominant function tying all proteins together, so a label emphasizing the mix of neurodevelopmental and broad signaling themes is most representative, with some caveat about the dispersed functions.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051316","count":13},{"id":"GO:0001843","count":13},{"id":"GO:0060997","count":13},{"id":"GO:0002688","count":13},{"id":"GO:0048010","count":13}]},{"hash":"937219781020154794","title":"Innate antiviral signaling and membrane repair","description":"This cluster's GO terms converge on innate immune responses, notably regulation of type I interferon production, antiviral defense including suppression of viral release, and inflammasome regulation, along with membrane repair and protein ubiquitination, suggesting coordinated antiviral signaling and membrane maintenance. Vitamin D response and IGF signaling terms appear as broader immunomodulatory connections but do not override the core antiviral/innate theme.","confidence":"Medium","size":13,"edges":18,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0032479","count":3},{"id":"GO:0033280","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0071641","count":3},{"id":"GO:0001778","count":3}]},{"hash":"1122262097736389041","title":"Inflammation and Blood Coagulation","description":"The top GO terms cluster around immune defense (defense response to Gram-positive bacteria; complement activation) and hemostasis (fibrinolysis; coagulation), suggesting a functional module focused on inflammatory responses and coagulation pathways. Other terms such as Wnt signaling and growth-related processes appear more peripheral, but do not negate the core theme of inflammation and blood clotting.","confidence":"Medium","size":13,"edges":13,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":9},{"id":"GO:0050830","count":9},{"id":"GO:0045944","count":9},{"id":"GO:0003050","count":9},{"id":"GO:0006958","count":9}]},{"hash":"411547285656817336","title":"Embryonic development and organ morphogenesis","description":"This cluster is enriched for GO terms spanning broad developmental processes across multiple tissues and lineages, including endocrine system development, cartilage morphogenesis, EMT in heart cushion formation, placental and pancreatic development, left-right patterning, trophoblast differentiation, nervous system development, cell adhesion, and ossification. The common thread is embryonic development and tissue morphogenesis, reflecting diverse yet related roles in organ and tissue formation during development.","confidence":"High","size":13,"edges":10,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0060972","count":3}]},{"hash":"1166843380815890689","title":"Neural cell adhesion and myelination","description":"The top GO terms cluster around neural development themes: cell adhesion (both homophilic and heterophilic), synapse assembly, paranode axon localization, and myelination, plus axon extension and regeneration. These point to a coherent function in nervous system development and myelination, with some immune-related terms likely reflecting shared signaling pathways rather than core cluster function. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":10},{"id":"GO:0014068","count":10},{"id":"GO:0051965","count":10},{"id":"GO:0002175","count":10},{"id":"GO:0042552","count":10}]},{"hash":"175305007740876827","title":"Developmental Morphogenesis and Polarity","description":"The top GO terms point to a cohesive theme of tissue morphogenesis and cellular polarity, including branching morphogenesis in glands and lungs, epithelial polarization, neuron guidance, astrocyte and endodermal differentiation, and planar cell polarity\u2014suggesting proteins collectively involved in developmental patterning and neural development across multiple lineages.","confidence":"High","size":13,"edges":65,"triangles":175,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0060445","count":9},{"id":"GO:0014002","count":9},{"id":"GO:0014816","count":9},{"id":"GO:0036515","count":9},{"id":"GO:0016322","count":9}]},{"hash":"1247838264822576522","title":"Lipid, Vitamin, and Steroid Metabolism","description":"The terms are dominated by biosynthetic and metabolic processes for lipids (sphingolipid, mycolic acid), vitamins and cofactors (retinol, phylloquinone, tetrahydrobiopterin), and steroid hormones (androgen, testosterone, glucocorticoid), suggesting a cohesive theme of lipid- and hormone-related metabolism with vitamin metabolism as a broader context. Lung development is present but less central, so the core theme remains metabolic rather than a single developmental pathway.","confidence":"Medium","size":13,"edges":76,"triangles":265,"max_degree":12,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0030148","count":13},{"id":"GO:0030324","count":13},{"id":"GO:0042572","count":13},{"id":"GO:0045150","count":13},{"id":"GO:0071768","count":13}]},{"hash":"1252439633249086514","title":"Olfactory system development and axon growth","description":"The top GO terms cluster around olfactory nerve formation, placode morphogenesis, axon extension/regeneration, and myelination, pointing to neural development specific to the olfactory system and neural wiring. Other terms like innate immune response or bone remodeling are less central and may reflect broader roles of the proteins, but the dominant signal is olfactory neural development.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048691","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0042552","count":3},{"id":"GO:0046849","count":2}]},{"hash":"1346501748095883473","title":"Gram-positive cell wall glycosylation and teichoic acid biosynthesis","description":"The cluster is enriched for GO terms related to cell wall organization and multiple glycosylation pathways, including O-linked glycosylation and teichoic acid biosynthesis, plus hyaluronan production and infection-structure formation. These together suggest a theme of surface polysaccharide and wall-component biosynthesis/modification typical of Gram-positive bacteria, hence the chosen focus on wall glycosylation and teichoic acid biosynthesis.","confidence":"High","size":13,"edges":26,"triangles":22,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":8},{"id":"GO:0016266","count":7},{"id":"GO:0075015","count":7},{"id":"GO:0006688","count":6},{"id":"GO:0018242","count":5}]},{"hash":"2097024420932345192","title":"Motor Neuron and Schwann Cell Regulation","description":"This cluster is dominated by terms centered on neuromuscular biology: somatic motor neuron differentiation, musculoskeletal movement, and neuromuscular process controlling posture, along with glutamate reuptake related to synaptic transmission. Additional terms point to Schwann cell behavior during nerve repair (negative regulation of Schwann cell migration, axon regeneration) and ECM/sphingolipid-related processes (collagen biosynthesis, ceramide biosynthesis), suggesting a theme of motor neuron function paired with Schwann cell dynamics during development and regeneration.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0050884","count":5},{"id":"GO:0002238","count":4},{"id":"GO:0032964","count":4},{"id":"GO:0051935","count":4},{"id":"GO:0050881","count":4}]},{"hash":"515436354073816521","title":"Neuronal GPCR Signaling and Neurotransmitter Regulation","description":"This cluster's strongest terms center on GPCR-mediated signaling and neurotransmitter regulation: adenylate cyclase-activating GPCR pathways, dopamine uptake regulation in synaptic transmission, and acetylcholine metabolism, plus a noted response to amphetamine. These terms point to neuronal communication as the core function, with a few peripheral terms (midgut development, immune responses, blood pressure) likely reflecting broader cellular roles rather than defining the cluster.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":12},{"id":"GO:0010579","count":12},{"id":"GO:0045777","count":12},{"id":"GO:0042742","count":11},{"id":"GO:0001975","count":10}]},{"hash":"1889649141160089329","title":"Antigen Presentation and Immune Activation","description":"This cluster centers on immune defense and antigen processing/presentation, spanning innate responses (phagocytosis, LPS response, type I IFN signaling) and adaptive responses (MHC I\u2013restricted antigen presentation, B cell maturation, T cell cytotoxicity). The retina homeostasis term appears as an outlier but does not override the dominant immune theme.","confidence":"High","size":13,"edges":45,"triangles":77,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001895","count":13},{"id":"GO:0050690","count":13},{"id":"GO:0050829","count":13},{"id":"GO:0006911","count":13},{"id":"GO:0002485","count":13}]},{"hash":"601216644076926216","title":"Gut epithelial immune response","description":"The top terms cluster around innate immune activation (innate immune response, type II interferon production), effector functions (phagocytosis, complement activation, T cell proliferation), and epithelial barrier aspects (maintenance of GI epithelium, cell junction localization, adhesion). This suggests a coordinated immune response at the gut epithelial interface, linking barrier integrity with both innate and adaptive immunity.","confidence":"Medium","size":13,"edges":9,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0072643","count":7},{"id":"GO:0006910","count":7},{"id":"GO:0006958","count":7},{"id":"GO:0007157","count":7}]},{"hash":"987708318814576412","title":"Organogenesis and signaling","description":"This cluster shows enrichment in developmental processes across tissues (heart development, nipple morphogenesis, primary ovarian follicle growth, lung connective tissue development) and signaling pathways (ERK cascade, IP3 biosynthesis). These common themes point to organ development and related signaling as the core function, with a few terms like defense response to bacterium and glomerular filtration being less cohesive but not contradicting the main theme.","confidence":"Medium","size":13,"edges":11,"triangles":1,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042742","count":7},{"id":"GO:0070374","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0060408","count":6},{"id":"GO:0001545","count":6}]},{"hash":"2130440785013225594","title":"Neural development and cell adhesion","description":"Based on the top GO terms, the cluster centers on nervous system development and morphogenesis (retina morphogenesis, olfactory nerve formation, axon extension) and proteins relevant to cell-cell adhesion and protein localization at cell junctions. A few terms, such as behavior or virion attachment, appear ancillary or broader, but the dominant theme ties to neural development and cell adhesion.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0038091","count":10},{"id":"GO:0046814","count":10},{"id":"GO:0048691","count":10},{"id":"GO:0007610","count":10},{"id":"GO:1904604","count":10}]},{"hash":"1471294327263760895","title":"Embryogenesis and Organogenesis","description":"This cluster\u2019s top GO terms center on developmental processes across multiple tissues and organs\u2014palate/roof of mouth development, left/right patterning, mesoderm and placental development, hair follicle morphogenesis, pancreatic endocrine development, trophoblast differentiation, and EMT in heart development. The common thread is broad embryonic development and morphogenesis across diverse organ systems, rather than a single specific pathway.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0060021","count":13},{"id":"GO:0010957","count":13},{"id":"GO:0060972","count":13},{"id":"GO:0060806","count":13},{"id":"GO:0007498","count":13}]},{"hash":"1185029637677162971","title":"Mitochondrial dynamics and apoptosis","description":"The top GO terms cluster around mitochondrial function: apoptotic process, regulation of cytochrome c release from mitochondria, intracellular distribution and fission of mitochondria, and regulation of peroxisome organization. Additional terms relate to protein oligomerization and calcium signaling, which commonly accompany mitochondrial dynamics and apoptotic signaling. Together, these features point to a module centered on mitochondrial dynamics and programmed cell death, with some ancillary links to membrane organization and neuronal signaling.","confidence":"Medium","size":12,"edges":20,"triangles":14,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":5},{"id":"GO:0060988","count":5},{"id":"GO:0051262","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0090199","count":4}]},{"hash":"640185811971841010","title":"Immune signaling and hormonal regulation","description":"Because the terms cluster around immune activation and regulation (positive regulation of NK cell cytotoxicity, negative regulation of B cell receptor signaling, Th1 lineage commitment, regulation of phagocytosis) and hormonal pathways (prolactin signaling, insulin receptor signaling, PI3K/Ras signaling), suggesting cross-talk between immune signaling and endocrine cues. The theme is coherent though some generic signaling terms are present, giving a robust but not exclusive link between immunity and hormone signaling.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0046628","count":12},{"id":"GO:0071260","count":12},{"id":"GO:0014066","count":12},{"id":"GO:0050859","count":12},{"id":"GO:0046580","count":12}]},{"hash":"773965844702316900","title":"Cardiac development and stress-response network","description":"This cluster is enriched for cardiac development terms (secondary heart field specification, cardiac right ventricle formation, atrial septum development) alongside DNA damage response, hypoxia, and chromatin remodeling terms, suggesting a module where heart morphogenesis intersects with cellular stress signaling and transcriptional regulation.","confidence":"Medium","size":12,"edges":59,"triangles":160,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006977","count":5},{"id":"GO:0043066","count":5},{"id":"GO:0071456","count":5},{"id":"GO:0003139","count":4},{"id":"GO:0043044","count":4}]},{"hash":"872839843298488840","title":"Neural signaling and sensory processing","description":"The top GO terms center on calcium influx and excitatory neural activity (calcium import across the plasma membrane; excitatory postsynaptic potential), along with sensory perception and startle responses (mechanical stimulus detection in sound, startle response, CNS development). This suggests a cohesive theme around neural excitability and auditory/sensory processing. Some terms (e.g., NOD2 signaling, vitamin D response, melanocyte differentiation) are peripheral and may reflect broader signaling roles, but do not override the core neural/sensory focus.","confidence":"Medium","size":12,"edges":17,"triangles":5,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0098703","count":4},{"id":"GO:0002087","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0001964","count":3},{"id":"GO:0033280","count":3}]},{"hash":"326063621628762763","title":"Innate Antiviral Signaling and Dendritic Activation","description":"The cluster is enriched for antiviral and innate immune terms (defense response to virus, innate immune response, cellular response to lipopolysaccharide), along with dendritic cell differentiation and IL-12 production, ubiquitination, and necroptosis, all pointing to a coherent antiviral immune signaling and dendritic cell\u2013driven inflammatory response. The microtubule localization term may reflect trafficking of signaling complexes. Overall, a focused theme around innate antiviral defense and dendritic cell activation fits best.","confidence":"High","size":12,"edges":25,"triangles":23,"max_degree":7,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051607","count":5},{"id":"GO:0035372","count":5},{"id":"GO:0006915","count":4},{"id":"GO:0071222","count":4},{"id":"GO:0045087","count":4}]},{"hash":"2018159275472663493","title":"Unknown","description":"The Top Terms span diverse and mostly unrelated processes (DNA repair and replication, mitotic spindle attachment, proteasomal degradation, immune/LPS responses, skin and brain development), with no single cohesive function linking them. Thus there isn\u2019t a clear, interpretable label beyond Unknown.","confidence":"","size":12,"edges":34,"triangles":36,"max_degree":8,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":3},{"id":"GO:0097324","count":3},{"id":"GO:0021766","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0032298","count":3}]},{"hash":"1573266500777998399","title":"Cytoskeleton dynamics and signaling","description":"The cluster is enriched for actin and microtubule dynamics terms (actin filament depolymerization, spindle assembly, microtubule-based movement), and for signaling pathways that regulate Rho GTPases and cytoskeletal remodeling (thrombin-activated receptor signaling, positive regulation of GTPase activity). The presence of related developmental and defense-related terms fits cytoskeletal roles in cell movement, immune responses, and mitosis. Overall, the proteins likely function together in coordinating cytoskeletal remodeling and signaling.","confidence":"High","size":12,"edges":26,"triangles":22,"max_degree":9,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0050830","count":6},{"id":"GO:0070493","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0031532","count":5},{"id":"GO:0090307","count":5}]},{"hash":"1404483290107389452","title":"ECM remodeling in angiogenesis and neural development","description":"The cluster shows enrichment for collagen fibril organization, angiogenesis, and blood vessel maturation, along with signals tied to mechanotransduction, EGFR pathway regulation, and neural development (neuronal stem cell maintenance, axon fasciculation). This pattern suggests a cohesive theme where extracellular matrix remodeling and mechanical cues coordinate vascular formation with neural development. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0001955","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0045742","count":3}]},{"hash":"1324969817028592945","title":"Cross-Tissue Development","description":"GO terms indicate embryonic organogenesis and tissue differentiation across multiple organs (eye, forelimb, heart, uterus, skeletal muscle, forebrain) plus sex determination. This suggests a cluster enriched for developmental processes spanning diverse tissues, with some metabolic terms likely incidental. Overall, a cross-tissue development label is reasonable, though not exclusive. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":5},{"id":"GO:0035115","count":4},{"id":"GO:0060065","count":4},{"id":"GO:0001654","count":4},{"id":"GO:0021846","count":4}]},{"hash":"352463664413240848","title":"Embryonic Organ Development and Morphogenesis","description":"These terms point to broad developmental roles across multiple organs and tissues (neural, pancreatic, kidney/ureteric, palate, primitive streak, blood vessels), centered on morphogenesis and embryonic growth rather than a single molecular function. This suggests a cluster focused on organogenesis and developmental processes.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0090190","count":6},{"id":"GO:0021986","count":6},{"id":"GO:0031018","count":5},{"id":"GO:1902262","count":4}]},{"hash":"1527627755290969786","title":"SMAD-regulated Development and Epithelial Morphogenesis","description":"The top GO terms cluster around SMAD signaling regulation and broad developmental processes affecting epithelia and morphogenesis, including GI epithelium maintenance, EMT inhibition, neural tube development, endocrine development, and cartilage formation, suggesting a theme of SMAD/TGF-beta\u2013guided tissue development and epithelial\u2013mesenchymal dynamics (with one outlier term related to phenazine biosynthesis).","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002047","count":2},{"id":"GO:0060392","count":2},{"id":"GO:0030277","count":2},{"id":"GO:0060394","count":2},{"id":"GO:0009405","count":2}]},{"hash":"2159173511140687239","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":24,"triangles":18,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0050868","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0050728","count":3},{"id":"GO:0051897","count":3}]},{"hash":"1209017556331757123","title":"Embryonic Morphogenesis and Organ Development","description":"Top GO terms point to diverse embryonic and organ morphogenesis processes (midbrain development, embryonic digit morphogenesis, salivary gland branching, epithelial migration in developing tracheal systems, roof of mouth formation, and germ cell migration). Although a metabolism-related term appears, the dominant signal is developmental morphogenesis across tissues, suggesting these proteins cluster around embryogenesis pathways and organ formation.","confidence":"Medium","size":12,"edges":31,"triangles":20,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006796","count":2},{"id":"GO:0030901","count":2},{"id":"GO:0030238","count":1},{"id":"GO:0060445","count":1},{"id":"GO:0042993","count":1}]},{"hash":"913303256679768508","title":"Organ Development and Signaling","description":"These terms point to developmental and organogenesis processes across tissues (heart, vasculature, thyroid, visual/neural). The recurring themes are organismal development and tissue differentiation coupled with signaling events (cell cycle, phosphorylation, apoptosis, synaptic plasticity). A plant ABA signaling term and neuronal plasticity term may reflect broader signaling annotation overlaps but do not change the main theme.","confidence":"Medium","size":12,"edges":21,"triangles":10,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0007601","count":10},{"id":"GO:0030878","count":8},{"id":"GO:0001569","count":7}]},{"hash":"1888221712270989833","title":"Golgi-to-lysosome trafficking and autophagy","description":"This cluster centers on vesicle trafficking between the Golgi, lysosome, and ER (Golgi organization, Golgi-to-lysosome transport, protein targeting to lysosome, ER tubular network formation) and autophagic processes (aggrephagy, PI5P metabolism), suggesting a cohesive module around intracellular transport and lysosome-related autophagy. Some terms like DNA integration and an obsolete SMAD-related term may be noise, but the dominant signals point to membrane trafficking and autophagy functions.","confidence":"High","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:0071787","count":1},{"id":"GO:0007183","count":1},{"id":"GO:0030035","count":1},{"id":"GO:1904562","count":1}]},{"hash":"1827357496244831277","title":"Ubiquitin-Dependent Proteolysis","description":"The top GO terms cluster around ubiquitin-mediated protein regulation and degradation (ubiquitin-dependent protein catabolic process, K33-linked ubiquitination, and regulation of ubiquitination), suggesting a cohesive theme of ubiquitin-driven protein turnover across tissues, even though some terms reference muscle, kidney, or immune processes. ","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007519","count":4},{"id":"GO:0072156","count":3},{"id":"GO:0002467","count":3},{"id":"GO:2000312","count":3},{"id":"GO:0031397","count":3}]},{"hash":"159271040652576248","title":"Embryonic Development and Organ Morphogenesis","description":"The top GO terms converge on broad developmental processes\u2014endocrine system development, cartilage morphogenesis, EMT in heart cushion formation, mesoderm development, left-right patterning, palate development, and placental/trophoblast differentiation\u2014indicating a theme of embryogenesis and tissue morphogenesis across multiple organs. The ribosomal export term appears as a minor outlier rather than a core function of the cluster.","confidence":"High","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0003198","count":6},{"id":"GO:0060806","count":6},{"id":"GO:0060972","count":6}]},{"hash":"1055120926147379761","title":"Developmental signaling and cell division","description":"The top GO terms point to both development-related processes (neural tube closure, dendritic spine morphogenesis, VEGF signaling, Wnt pathway regulation) and fundamental cell cycle activities (DNA replication, spindle-kinetochore attachment). While some terms reflect broader cellular regulation (autophagy, nucleotide biosynthesis), the recurring theme is coordination of signaling pathways with cell division and morphogenesis, fitting a label focused on developmental signaling intersecting with cell division.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":12},{"id":"GO:0051316","count":11},{"id":"GO:0001843","count":11},{"id":"GO:0060997","count":11},{"id":"GO:0002688","count":11}]},{"hash":"1838082454535500582","title":"mRNA Splicing and Export Regulation","description":"Proteins in this cluster are enriched for GO terms related to mRNA splicing via spliceosome and regulation of splicing, mRNA export from the nucleus, and stress-related mRNA stability regulation, with an additional term on translation preinitiation complex formation. This combination points to a cohesive module governing mRNA maturation and export, with a relevant link to translation initiation, supporting a label focused on RNA processing and export functions.","confidence":"Medium","size":12,"edges":53,"triangles":141,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":8},{"id":"GO:0010610","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0000398","count":6},{"id":"GO:0001731","count":5}]},{"hash":"467602371165548553","title":"Epithelial cytoskeleton and polarity","description":"The GO terms cluster around actin/cytoskeleton dynamics (Rho signaling, microspike assembly, actin patch localization), cell shape and polarity (cell polarity establishment/maintenance), and brush-border components (microvillus length regulation, intestinal glucose absorption), with related pathways like Wnt and thrombin receptor signaling providing contextual signaling. This points to a cohesive theme of epithelial cell architecture and polarity, though there is some broader signaling context beyond cytoskeleton. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":9},{"id":"GO:0070493","count":7},{"id":"GO:0051666","count":6},{"id":"GO:1900042","count":6},{"id":"GO:0016055","count":6}]},{"hash":"1177756090033413839","title":"Collagen\u2013Integrin Signaling in Neural Development","description":"The cluster centers on GO terms for integrin-mediated signaling and collagen fibril organization/biosynthesis, pointing to extracellular matrix (ECM) interactions critical for neural development. The inclusion of terms related to myelination, retinal ganglion cell axon guidance, and negative regulation of growth factor responses suggests these proteins influence neural maturation and connectivity through ECM signaling and cell-survival pathways. Overall, the proteins are likely involved in collagen-ECM assembly and integrin signaling that guide neural development and maintenance.","confidence":"High","size":12,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":4},{"id":"GO:0030199","count":4},{"id":"GO:0045617","count":4},{"id":"GO:0022011","count":4},{"id":"GO:0031290","count":4}]},{"hash":"2110055536627283785","title":"Metabolic Energy Pathways and Organ Development","description":"The set of terms centers on core energy metabolism\u2014fatty acid beta-oxidation, fatty-acyl-CoA biosynthesis, leucine catabolism, and glycogen biosynthesis\u2014indicating a focus on energy production and storage. Additional terms about response to cold and starvation point to metabolic regulation under stress, while liver development, heart development, and post-embryonic development suggest a developmental, tissue-specific context (likely vertebrate). The dibenzothiophene catabolic process appears to be an outlier. Overall, the cluster seems to combine metabolic pathways with organ development cues.","confidence":"Medium","size":12,"edges":17,"triangles":8,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0018896","count":3},{"id":"GO:0006552","count":3},{"id":"GO:0033539","count":3},{"id":"GO:0005978","count":3},{"id":"GO:0009409","count":3}]},{"hash":"2292852130922714167","title":"Embryonic Organogenesis and Neural Development","description":"The top GO terms cluster around embryonic morphogenesis across neural and non-neural tissues (neural crest migration, hypothalamus development, endocrine pancreas development, palate and digestive tract morphogenesis) and include primitive streak formation, indicating early development with transcriptional regulation of these programs. This suggests a coherent theme of embryonic organogenesis and neural differentiation.","confidence":"High","size":12,"edges":65,"triangles":210,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0048935","count":6},{"id":"GO:0090009","count":6},{"id":"GO:0060021","count":6},{"id":"GO:0001755","count":6}]},{"hash":"1766237786348208808","title":"Developmental gene regulation and signaling","description":"Most terms cluster around developmental processes (neural tube closure, forebrain and skeletal system development, multicellular organism development) and transcriptional regulation (DNA-templated transcription, imprinting regulation). Additional terms point to signaling and stress responses, but the common theme is genes regulating development via transcription and signaling pathways.","confidence":"High","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006349","count":8},{"id":"GO:0001843","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0071276","count":7},{"id":"GO:0030900","count":7}]},{"hash":"504865299847090469","title":"Multisystem Development and Differentiation","description":"This cluster shows a mix of tissue-specific development terms (thymus, skeletal muscle, fat cell, mammary gland duct morphogenesis) together with gene-regulation processes (mRNA processing, transcription, imprinting). The common theme is broad developmental/differentiation programs across multiple tissues rather than a single, cohesive pathway, justifying a multisystem development label.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006397","count":6},{"id":"GO:0048538","count":6},{"id":"GO:0050853","count":6},{"id":"GO:0060997","count":5},{"id":"GO:0006351","count":5}]},{"hash":"397102298308826787","title":"Cardiac Electrical Activity and Mechanotransduction","description":"The cluster is dominated by terms tied to cardiac electrophysiology, including regulation of SA node action potential, membrane depolarization in cardiac muscle, and communication between SA node and atrial tissue. These points indicate a cohesive theme around heart electrical activity and how cardiac cells respond to mechanical cues; other GO terms (Wnt signaling, vitamin D response, ubiquitination, pinocytosis) may reflect broader cellular signaling involved in cardiac biology but do not override the central cardiac function signal.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":6},{"id":"GO:0016055","count":6},{"id":"GO:0098907","count":6},{"id":"GO:0048549","count":6},{"id":"GO:0016567","count":6}]},{"hash":"303851694709815256","title":"Metanephric tubule morphogenesis and inflammatory signaling","description":"The top GO terms cluster around metanephric tubule morphogenesis (kidney development) and collagen fibril organization (ECM remodeling), with accompanying innate immune and inflammatory terms (LPS response, inflammatory regulation, platelet activation). This suggests a theme of organ morphogenesis coupled with ECM remodeling and inflammatory signaling. ","confidence":"Medium","size":12,"edges":7,"triangles":1,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0072237","count":6},{"id":"GO:0036303","count":6},{"id":"GO:0030199","count":6},{"id":"GO:0072287","count":6},{"id":"GO:0045087","count":4}]},{"hash":"838399781118448522","title":"Neurovascular development and synapse formation","description":"Based on the GO terms, the cluster shows signals of neural development (central nervous system development, retina morphogenesis) alongside vascular/angiogenesis cues (blood coagulation, endothelial proliferation, cell-matrix adhesion), and synaptic organization/assembly\u2014together suggesting coordinated neurovascular development and synapse formation. Immune-related terms are present but less dominant, likely secondary.","confidence":"High","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":6},{"id":"GO:0035987","count":5},{"id":"GO:0051965","count":5},{"id":"GO:0042742","count":4},{"id":"GO:0007161","count":4}]},{"hash":"630923128840375370","title":"Dendritic Spine Morphogenesis and Actin Remodeling","description":"The top GO terms are dominated by actin cytoskeleton dynamics (lamellipodium assembly, actin filament polymerization, barbed-end capping, actin cytoskeleton organization) and neuronal development (dendritic spine morphogenesis, dendrite extension), with a neuronal plasticity cue from cellular response to BDNF. A T cell receptor signaling term appears but does not define the overall theme. Together, these terms point to proteins coordinating actin remodeling to drive dendritic spine formation in neurons. ","confidence":"High","size":12,"edges":65,"triangles":210,"max_degree":11,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060997","count":10},{"id":"GO:1900029","count":8},{"id":"GO:0030032","count":8},{"id":"GO:0051016","count":8},{"id":"GO:0030036","count":8}]},{"hash":"372864942205036419","title":"Angiogenesis and vascular development","description":"The cluster shows multiple terms centered on blood vessel formation and endothelial cell movement (angiogenesis, endothelial chemotaxis/migration), supported by signaling (ERK cascade) and related proliferative processes. While some terms pertain to other developmental contexts (palate, ureteric bud, neuronal differentiation), the vascular-related terms dominate, suggesting a vascular development theme. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0048146","count":4},{"id":"GO:0060021","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0071230","count":3}]},{"hash":"450191374132905816","title":"Embryonic Development and Angiogenesis","description":"The cluster shows strong representation of GO terms related to development across multiple tissues (olfactory pit, face, forebrain, midgut) and vascularization (blood vessel development, endothelial proliferation). Retinoic acid signaling and retinol metabolism terms point to regulatory pathways common in embryogenesis, supporting a cohesive theme of embryonic development and angiogenesis. The presence of hypoxia response terms may reflect developmental contexts where oxygen levels guide tissue growth.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0060166","count":12},{"id":"GO:0042572","count":12},{"id":"GO:0036293","count":12},{"id":"GO:0071300","count":12},{"id":"GO:0060324","count":12}]},{"hash":"1767973275323062243","title":"PNS Myelination and Skin Development","description":"The cluster is enriched for GO terms tied to peripheral nervous system myelination, skin development, EMT, and transcriptional regulation, with supporting signals from protein autoprocessing and self-proteolysis. This combination points to developmental remodeling at neural-epithelial interfaces and related signaling rather than a single enzymatic pathway, justifying a label that emphasizes both PNS myelination and epidermal remodeling.","confidence":"Medium","size":12,"edges":5,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0022011","count":5},{"id":"GO:0050731","count":5},{"id":"GO:0097264","count":5},{"id":"GO:0043588","count":5},{"id":"GO:0001837","count":4}]},{"hash":"535961986117302061","title":"Neuronal GPCR Signaling and Stimulus Response","description":"The top GO terms cluster around G protein-coupled receptor (GPCR) signaling, especially adenosine and dopamine receptor pathways, plus downstream intracellular signal transduction. There are neural-related processes such as conditioned taste aversion and axon midline guidance, and responses to ethanol and hypoxia, all linking through ligand-activated GPCR signaling and second messenger cascades in neural contexts. Some terms relate to broader physiological signaling (glucagon signaling, urine volume regulation), but the dominant theme remains ligand-triggered GPCR signaling shaping neural and cellular responses.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0070483","count":12},{"id":"GO:0001973","count":12},{"id":"GO:0001661","count":12},{"id":"GO:0071361","count":12},{"id":"GO:0016199","count":12}]},{"hash":"2294043805472961401","title":"Unknown","description":"The annotated functions are a mix of stress responses (e.g., dexamethasone stimulus, defense against virus), various acetylation-related processes, metabolism (acetoin catabolism), developmental sporulation, and chromatin organization. There is no clear, single theme tying these terms together, aside from a few acetylation-related terms, so a cohesive label is not justified.","confidence":"","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043200","count":2},{"id":"GO:0071549","count":2},{"id":"GO:0033603","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0045071","count":2}]},{"hash":"2219833732519878718","title":"Embryogenesis and Morphogenesis","description":"The top GO terms point to developmental processes and tissue formation across multiple lineages\u2014mesoderm development, cartilage and hair follicle morphogenesis, palate/roof of mouth development, endocardial cushion EMT, left-right pattern formation, endocrine system development, and placental differentiation regulation\u2014indicating proteins tied to embryonic development and morphogenesis. An outlier term about ribosomal subunit export from the nucleus is present but does not override the overall developmental theme.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":11},{"id":"GO:0035270","count":11},{"id":"GO:0060021","count":11},{"id":"GO:0060536","count":11},{"id":"GO:0003198","count":11}]},{"hash":"520207022107043416","title":"Phosphate Transport and Heavy Metal Response","description":"The GO terms show a clear emphasis on phosphate handling (sodium-dependent phosphate transport, phosphate transport, phosphate ion homeostasis) alongside responses to metal ions (lead, mercury) and xenobiotic transport, with dentinogenesis linking to mineralization. This points to a cluster of proteins involved in phosphate transport and metal/stress responses, rather than a single highly specific process, hence a label focusing on phosphate transport plus metal ion stress is appropriate.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":2},{"id":"GO:2000120","count":2},{"id":"GO:0030643","count":2},{"id":"GO:0097187","count":2},{"id":"GO:0010288","count":2}]},{"hash":"2292360865961156356","title":"Dopaminergic and cholinergic signaling","description":"The top GO terms cluster around dopamine and acetylcholine signaling: response to amphetamine, regulation of dopamine uptake in synaptic transmission, GPCR acetylcholine receptor signaling, and regulation of acetylcholine metabolism. These indicate a core theme of monoaminergic and cholinergic neurotransmission. Some terms (e.g., development, IgA switching, inflammatory regulation) appear ancillary or incidental, so the label centers on the dominant neural signaling functions.","confidence":"Medium","size":12,"edges":54,"triangles":122,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":12},{"id":"GO:0007497","count":12},{"id":"GO:0050728","count":12},{"id":"GO:1901652","count":12},{"id":"GO:0051586","count":12}]},{"hash":"1622664460289689959","title":"Immune Activation and Phagocytosis","description":"This cluster centers on innate immune defense and phagocytosis, with strong representation of innate response, phagocytosis recognition/engulfment, and complement activation. It also includes adaptive immune signaling components, such as positive regulation of B cell activation and B cell receptor signaling, as well as T cell\u2013related cytotoxicity regulation. A few development-related GO terms appear, which may reflect multifunctional proteins or annotation noise, but the dominant theme is immune system activation and pathogen defense. ","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0006910","count":7},{"id":"GO:0006911","count":7},{"id":"GO:0050871","count":7},{"id":"GO:0050853","count":7}]},{"hash":"885333891523331405","title":"Embryonic development and patterning regulators","description":"The cluster shows multiple developmental terms (roof of the mouth/palate development, left/right patterning, mesoderm development, hair follicle morphogenesis, embryonic placenta-related differentiation) suggesting a theme of tissue patterning and morphogenesis. Coupled with terms related to transcriptional and RNA processing control (RNA polymerase II regulation, mRNA splicing, ribosomal export), the proteins appear tied to coordinating gene expression during development. Overall, it points to a group of factors involved in embryonic development and patterning with regulatory roles.","confidence":"Medium","size":12,"edges":27,"triangles":19,"max_degree":9,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0060021","count":12},{"id":"GO:1903026","count":12},{"id":"GO:0010957","count":12},{"id":"GO:0032298","count":12},{"id":"GO:0060972","count":12}]},{"hash":"111859713816026911","title":"Cardiac morphogenesis and endocardial EMT regulation","description":"The dominant GO terms center on heart development, especially endocardial cushion formation, EMT, and cell migration related to cardiac morphogenesis (e.g., atrial cardiac muscle morphogenesis, endocardial cushion formation, EMT). While some terms touch on immune signaling or other tissues, the strongest and most coherent theme is cardiac development and EMT-associated cell movements. Medium","confidence":"","size":12,"edges":13,"triangles":11,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0032354","count":6},{"id":"GO:0022009","count":6},{"id":"GO:0060389","count":6},{"id":"GO:0042102","count":6},{"id":"GO:0055009","count":6}]},{"hash":"365753864036602352","title":"Neurovascular Development and Cell-Cycle Signaling","description":"This cluster includes neural development processes (neural tube closure, dendritic spine morphogenesis), vascular signaling (VEGF receptor signaling), and broader developmental signaling (Wnt pathway regulation) alongside immune cell movement and cell cycle checkpoints (mitotic intra-S checkpoint, spindle\u2013kinetochore attachment). Together these terms suggest a theme of signaling and cytoskeletal dynamics coordinating growth, differentiation, and cell division, rather than a single, narrow pathway. The presence of one obsolete term and a nucleotide biosynthetic process adds some noise, but the overall pattern supports a developmental signaling/cytoskeletal theme.","confidence":"Medium","size":11,"edges":47,"triangles":121,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051316","count":11},{"id":"GO:0001843","count":11},{"id":"GO:0060997","count":11},{"id":"GO:0002688","count":11},{"id":"GO:0048010","count":11}]},{"hash":"739501721382668059","title":"MAPK-SMAD signaling with cytoskeleton remodeling","description":"The top GO terms point to regulation of SMAD signaling and positive regulation of the p38 MAPK cascade, indicating MAPK/SMAD signaling activity. Coupled with terms like lamellipodium assembly and regulation of cell morphogenesis, the cluster appears tied to signaling-driven cytoskeletal remodeling and changes in cell shape. Some other terms (nucleotide-excision repair, transcription) may reflect broader cellular roles, but the dominant theme centers on signaling pathways influencing cytoskeleton dynamics and morphology.","confidence":"Medium","size":11,"edges":26,"triangles":24,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007184","count":2},{"id":"GO:1900745","count":2},{"id":"GO:0070816","count":1},{"id":"GO:0006289","count":1},{"id":"GO:0006360","count":1}]},{"hash":"67034249151463865","title":"Protein quality control and stress response","description":"This cluster is dominated by terms tied to protein folding, quality control, and cellular stress signaling (detection of misfolded proteins, chaperone-mediated assembly, mitochondrial intermembrane space protein import) with related inflammatory and ischemic response terms (IL-6 production, response to ischemia). Telomere maintenance and apoptosis modulation appear as broader stress/aging-related connections, suggesting a cohesive theme of protein homeostasis under stress.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019068","count":9},{"id":"GO:0045041","count":8},{"id":"GO:2000778","count":8},{"id":"GO:0002931","count":8},{"id":"GO:0032212","count":8}]},{"hash":"819109214907671820","title":"Negative Regulation of Immune Signaling and ER Stress Responses","description":"These proteins appear to function primarily as inhibitors of signaling pathways and stress responses: multiple GO terms point to negative regulation of MAPK/ERK signaling, B cell receptor signaling, STAT signaling, and interleukin pathways, along with IRE1-mediated unfolded protein response and ER stress\u2013related apoptotic signaling. The shared theme is suppression of signaling cascades, particularly in immune-related contexts, coupled with cellular stress management via the unfolded protein response. ","confidence":"High","size":11,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":9},{"id":"GO:0033277","count":9},{"id":"GO:0051463","count":9},{"id":"GO:1902237","count":9},{"id":"GO:0050859","count":9}]},{"hash":"1731011075996778567","title":"Immune signaling and tissue remodeling","description":"The terms point to immune activation (T cell proliferation, IL-2 production) and inflammatory signaling (prostaglandin biosynthesis) alongside tissue remodeling processes (collagen fibril organization, fibrinolysis, myoblast migration). This suggests a theme where immune signaling is tied to remodeling and repair activities.","confidence":"Medium","size":11,"edges":26,"triangles":20,"max_degree":9,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0070459","count":8},{"id":"GO:0042102","count":5},{"id":"GO:0042730","count":5},{"id":"GO:0032743","count":5},{"id":"GO:0031394","count":5}]},{"hash":"2106982235076529910","title":"Protein Quality Control and Mitochondrial Turnover","description":"The cluster centers on protein homeostasis and mitochondrial quality control, highlighted by translation and ribosome assembly terms alongside protein modification (sumoylation, ubiquitination), ERAD-related unfolded protein maintenance, and autophagy/mitophagy regulation. The presence of mitophagy and autophagosome maturation regulation points to degradation-mediated quality control, coordinating both cytosolic/ER protein handling and mitochondrial turnover; a stress-response transcription link is possible but secondary. ","confidence":"Medium","size":11,"edges":53,"triangles":148,"max_degree":10,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0016925","count":5},{"id":"GO:1904378","count":5},{"id":"GO:0000028","count":5},{"id":"GO:0051865","count":4}]},{"hash":"1124419551713812515","title":"Developmental signaling and immune-related processes","description":"This cluster\u2019s top GO terms cover innate immune response, developmental maintenance (organ identity), neuron-related morphogenesis (dendritic spines), and broad cell signaling (GTPase activity, insulin signaling). The mix points to a group involved in signaling dynamics that intersect development and immune-related functions, with additional cell migration and cycle processes that are broadly tied to growth and differentiation. Confidence: Medium","confidence":"","size":11,"edges":16,"triangles":3,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0046626","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1893989232599674891","title":"Regulation of signaling and differentiation","description":"The terms cluster around regulation\u2014both positive and negative\u2014of signaling pathways (ERK cascade, PDGFR signaling) and cellular processes (platelet aggregation, cell adhesion). They also touch on development and differentiation in multiple tissues (endoderm, fat cells) and on neuronal structure formation (dendritic spine morphogenesis), plus metabolic regulation (glucose import, renal albumin absorption). This suggests a broad regulatory theme rather than a single pathway or tissue, justifying a general label about regulation of signaling and differentiation.","confidence":"Medium","size":11,"edges":31,"triangles":38,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0070373","count":9},{"id":"GO:0061003","count":9},{"id":"GO:0046326","count":9},{"id":"GO:0010745","count":9},{"id":"GO:0090331","count":9}]},{"hash":"811615294820013849","title":"ECM remodeling and cell migration","description":"This cluster is strongly tied to extracellular matrix remodeling and cell movement: hyaluronan metabolism, metallopeptidase activity, and integrin-mediated signaling point to adhesion and ECM remodeling, while extravasation and substrate-dependent cell migration indicate migratory behavior; blood coagulation fits the vascular context, and ubiquitin-protein turnover/proteasome assembly suggest regulation of these processes. Some developmental terms appear, reflecting broader roles in differentiation and regeneration, but the dominant signal is ECM-adhesion and cell migration.","confidence":"High","size":11,"edges":51,"triangles":135,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006511","count":5},{"id":"GO:1905050","count":5},{"id":"GO:0045123","count":5},{"id":"GO:0007229","count":5},{"id":"GO:0031104","count":5}]},{"hash":"912641325643165221","title":"Dephosphorylation-Driven Signaling Regulators","description":"This cluster centers on enzymes and regulators that remove phosphate groups from proteins and lipids, highlighted by peptidyl-tyrosine dephosphorylation and phosphoinositide/inositol phosphate dephosphorylation terms, and is linked to modulation of signaling pathways (e.g., TGF-beta receptor signaling) as well as processes like autophagy and engulfment. The common thread appears to be phosphatase-mediated regulation of signaling and turnover, hence the chosen name.","confidence":"Medium","size":11,"edges":35,"triangles":47,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0035335","count":4},{"id":"GO:1902902","count":3},{"id":"GO:0070584","count":3},{"id":"GO:0046856","count":3},{"id":"GO:0007179","count":3}]},{"hash":"878551184938286057","title":"Innate Immune Signaling","description":"The top GO terms are dominated by innate immune pathways (TLR4 signaling; interferon production; IL-1\u03b2 and IL-6 regulation; B cell proliferation), suggesting the cluster centers on immune signaling processes. Some nuclear import and protein turnover terms appear as ancillary, but the core theme is immune response signaling.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006610","count":2},{"id":"GO:0006607","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0031146","count":1},{"id":"GO:0045078","count":1}]},{"hash":"1975924281349644129","title":"Signal transduction and cytoskeletal remodeling","description":"The proteins show enrichment in diverse signaling pathways (small GTPases, insulin, T cell receptor signaling) alongside processes that remodel the cytoskeleton and cell junctions (podosome assembly, dendritic spine morphogenesis, postsynaptic density assembly, endothelial barrier establishment). This suggests a cohesive theme of signaling-driven control of cytoskeletal dynamics across immune, neural, and vascular contexts, with ER stress-related pathways reflecting integrated stress signaling rather than a separate module.","confidence":"Medium","size":11,"edges":5,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1903898","count":10},{"id":"GO:1902237","count":10},{"id":"GO:0050852","count":10},{"id":"GO:1903753","count":9},{"id":"GO:0090557","count":9}]},{"hash":"459554447300860406","title":"Neural and cardiac cell fate specification","description":"Most of the top GO terms point to cell fate specification and determination across developing tissues, notably neural lineages (spinal cord motor neuron fate specification, neuroblast fate determination, auditory receptor fate) and cardiac development (endocardial cushion formation and EMT-related heart valve formation). This suggests a shared theme of lineage specification across organs during development, with some terms being tangential. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021520","count":4},{"id":"GO:0003198","count":3},{"id":"GO:0072049","count":3},{"id":"GO:0072141","count":3},{"id":"GO:0007400","count":3}]},{"hash":"1140530626302233822","title":"Embryonic development and tissue morphogenesis","description":"This cluster centers on processes governing organismal development and tissue formation across multiple organs (uterus, bladder, neural tube, heart), including epithelial polarity establishment, actin cytoskeleton organization, and cell migration, with TGF-beta signaling likely modulating these morphogenic events. The inclusion of a CDK activity regulation term fits with cell-cycle control during development, reinforcing a theme of coordinated growth and morphogenesis. Overall, the GO terms point to diverse but connected developmental and morphogenetic programs.","confidence":"High","size":11,"edges":6,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045736","count":5},{"id":"GO:0060065","count":5},{"id":"GO:0051017","count":4},{"id":"GO:0090162","count":4},{"id":"GO:0016477","count":4}]},{"hash":"541021620075100124","title":"Placental Development and Cell-Cycle Regulation","description":"These proteins cluster around transcriptional control, cell-cycle progression (mitotic cycle, spindle assembly, exit from mitosis), and apoptosis, with specific ties to placental development and labyrinthine layer formation, plus Wnt signaling regulation. This suggests a cohesive role in developmental proliferation and differentiation within placental tissues, coordinated by transcriptional programs and cell-cycle control. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0006915","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0001890","count":6}]},{"hash":"458212829571012787","title":"mRNA Splicing and Export Machinery","description":"These proteins clearly cluster around RNA processing: several GO terms point to spliceosome-mediated mRNA splicing (cis/spliceosome), regulation of splicing, and mRNA export from the nucleus, with an additional hint from translation initiation. This suggests a cohesive module of mRNA processing and export that also feeds into translation readiness. ","confidence":"High","size":11,"edges":22,"triangles":17,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":7},{"id":"GO:1905663","count":7},{"id":"GO:1900363","count":7},{"id":"GO:0048026","count":7},{"id":"GO:0006406","count":7}]},{"hash":"827443867359072014","title":"Glycolysis and TCA Cycle Core Metabolism","description":"The cluster is strongly enriched for glycolysis (GO:0006096), the tricarboxylic acid cycle (GO:0006099), and acetyl-CoA\u2013related steps such as pyruvate decarboxylation to acetyl-CoA (GO:0006086) and gluconeogenesis (GO:0006094). It also includes 2-oxoglutarate and malonyl-CoA\u2013related processes, and even amino-acid catabolism to acetyl-CoA (lysine and leucine). Together these terms point to a cohesive central carbon metabolism module focused on energy production and acetyl-CoA flux; sodium ion transport appears incidental rather than defining the cluster.","confidence":"High","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":8},{"id":"GO:0006096","count":6},{"id":"GO:0033512","count":4},{"id":"GO:0006213","count":4},{"id":"GO:0006086","count":4}]},{"hash":"1956704258571189538","title":"Gametogenesis-associated chromatin condensation","description":"This cluster centers on chromatin assembly and condensation processes (CENP-A chromatin assembly, heterochromatin formation, and regulation of chromosome condensation) with explicit links to spermatid development, sperm DNA condensation, and oogenesis, suggesting a shared role in chromatin dynamics during gamete formation. Broader developmental terms like osteoblast differentiation and growth appear ancillary but do not define the core theme.","confidence":"High","size":11,"edges":35,"triangles":50,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0061641","count":3},{"id":"GO:0000183","count":3},{"id":"GO:1902340","count":2},{"id":"GO:0007286","count":2},{"id":"GO:0035093","count":2}]},{"hash":"269077660240526020","title":"Transcriptional Regulation, RNA Turnover, and Ubiquitination","description":"The GO terms cluster around DNA-templated transcription, transcription antitermination, mRNA stabilization, and miRNA catabolism, complemented by protein ubiquitination, suggesting a core theme of transcriptional control coupled with RNA turnover and post-translational regulation. NOD2 signaling and osmotic-stress\u2013related apoptotic regulation appear more peripheral. Therefore, the label reflects the primary functional coherence of the cluster.","confidence":"Medium","size":11,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045820","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0070431","count":2},{"id":"GO:0070934","count":1}]},{"hash":"189137405897689893","title":"Innate antiviral and LPS-triggered immune signaling","description":"This cluster centers on innate immune sensing and antiviral/bacterial responses (virus defense; dsRNA and LPS recognition; interferon signaling; TLR pathway regulation). The co-occurrence of dendritic cell differentiation and regulatory signals suggests a coordinated immune-response module rather than a single pathway.","confidence":"High","size":11,"edges":14,"triangles":4,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051607","count":4},{"id":"GO:0071222","count":4},{"id":"GO:0043330","count":4},{"id":"GO:0031663","count":4},{"id":"GO:0006915","count":3}]},{"hash":"1622638936957065587","title":"Neuronal development and synaptic signaling","description":"The dominant terms relate to neuronal development and synaptic function (dendritic spine growth, neuron maturation, and regulation of synaptic vesicle exocytosis, plus mechanosensitive signaling). Immune-related terms and cytoskeletal/mitotic processes are present but appear secondary, suggesting a primary theme of nervous system development with ancillary signaling roles.","confidence":"Medium","size":11,"edges":49,"triangles":118,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":11},{"id":"GO:0060999","count":11},{"id":"GO:0014041","count":11},{"id":"GO:0051988","count":11},{"id":"GO:0043124","count":11}]},{"hash":"1371263665673486446","title":"Cell cycle control and p53-mediated stress response","description":"The top GO terms cluster around regulation of the cell cycle and p53-mediated signaling, implying a module that coordinates cell division with DNA damage response. Additional terms on ubiquitin-mediated proteostasis and protein stabilization point to checkpoint regulation at the proteome level, while translation and siRNA processing suggest broader post-transcriptional regulatory layers under stress. Overall, the cluster appears to represent a regulatory network linking cell cycle control with DNA damage response and proteostasis.","confidence":"Medium","size":11,"edges":45,"triangles":100,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0071157","count":2},{"id":"GO:0006412","count":1},{"id":"GO:0072717","count":1},{"id":"GO:1904667","count":1},{"id":"GO:0032986","count":1}]},{"hash":"747237889172439759","title":"Innate Immunity and Inflammatory Cytokine Regulation","description":"This cluster is strongly tied to innate immune signaling and inflammatory cytokine production/regulation, with multiple terms for IL-1\u03b2, IL-4, IL-5, IL-18, and pyroptosis, along with protein ubiquitination and modulation of the ERK pathway. While mitotic spindle assembly appears as a less central term, the dominant pattern points to immune and inflammatory control rather than core cell cycle processes.","confidence":"High","size":11,"edges":29,"triangles":32,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0016567","count":9},{"id":"GO:0070373","count":8},{"id":"GO:0045087","count":8},{"id":"GO:0045381","count":8},{"id":"GO:0045630","count":8}]},{"hash":"1741818228371740170","title":"Developmental cell fate specification","description":"The proteins cluster around cell fate determination and tissue development across diverse species (neuroblast and auditory receptor fate, renal fibroblast development, heart valve formation, Malpighian tubule differentiation), with transcription by RNA polymerase II providing the common regulatory basis. This points to a general theme of developmentally programmed differentiation rather than a single pathway.","confidence":"High","size":11,"edges":37,"triangles":78,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":9},{"id":"GO:0072049","count":8},{"id":"GO:0072141","count":8},{"id":"GO:0007400","count":8},{"id":"GO:0071392","count":8}]},{"hash":"1724173749844142606","title":"Axonogenesis and Innate Immune Signaling","description":"This cluster centers on neuronal development, notably axonogenesis and motor neuron axon guidance, with accompanying signals of immune/inflammatory activity (innate immune response, IL-8 and IFN-\u03b2 regulation) and related receptor signaling and cell-matrix interactions. While there are also terms related to DNA replication regulation and growth signaling, the convergent pattern appears to be neural development coupled with innate immune modulation.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007409","count":3},{"id":"GO:0006954","count":3},{"id":"GO:0032298","count":3},{"id":"GO:0008045","count":2},{"id":"GO:0060396","count":2}]},{"hash":"907886870994362789","title":"RNA pseudouridylation and snoRNP assembly","description":"Based on the prevalence of GO terms related to snRNA and snoRNA-guided pseudouridine synthesis, box H/ACA snoRNP assembly, and telomerase RNA localization/stabilization, the cluster appears centered on RNA modification machinery involving pseudouridylation and snoRNPs. Some unrelated terms (actomyosin, myelination, hearing, toxin response, DNA methylation) likely represent noise or mixed content. ","confidence":"High","size":11,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031032","count":2},{"id":"GO:0042552","count":1},{"id":"GO:0007605","count":1},{"id":"GO:0009636","count":1},{"id":"GO:0090116","count":1}]},{"hash":"1391356892529209050","title":"TNF-NF-\u03baB innate immune signaling","description":"These proteins show enrichment for TNF-mediated signaling, NF-\u03baB pathway activation (I\u03baB phosphorylation, IKK activity), and JNK regulation, all central to innate immune responses. The inclusion of protein autoubiquitination supports ubiquitin-dependent regulation typical of TNF/NF-\u03baB signaling. Collectively, they point to a TNF\u2013NF-\u03baB inflammatory signaling module.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":10},{"id":"GO:0033209","count":10},{"id":"GO:0090073","count":10},{"id":"GO:0007250","count":10},{"id":"GO:1903265","count":10}]},{"hash":"1095982810342137014","title":"Chromatin remodeling and transcription regulation","description":"GO terms converge on transcription control via RNA Pol II and chromatin state (nucleosome mobilization, rDNA heterochromatin, histone modification), with circadian and photomorphogenesis links indicating time-of-day regulation.","confidence":"High","size":11,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0032922","count":2},{"id":"GO:0000183","count":2},{"id":"GO:0035902","count":2},{"id":"GO:0060005","count":2}]},{"hash":"328617074049665141","title":"Retinoid and lipid metabolism","description":"The top GO terms cluster around retinol metabolism and regulation of retinoic acid receptor signaling, plus prostaglandin biosynthesis, bile acid catabolism, and glucuronate catabolic processes, pointing to lipid- and vitamin A\u2013related metabolism and signaling. Additional terms like digestion and cadmium response suggest broader metabolic/detox pathways that often intersect with lipid and vitamin metabolism, supporting the label as representative of the cluster\u2019s function.","confidence":"Medium","size":11,"edges":29,"triangles":39,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0070485","count":7},{"id":"GO:0035229","count":7},{"id":"GO:0042572","count":7},{"id":"GO:0048385","count":7},{"id":"GO:0030573","count":7}]},{"hash":"1431048144583509702","title":"Developmental morphogenesis and cytoskeletal dynamics","description":"The cluster contains GO terms tied to development and tissue morphogenesis (cochlea morphogenesis, endothelial tube lumen extension, multicellular organism growth, sprouting angiogenesis) as well as foundational cellular processes like actin cytoskeleton organization and Golgi localization. While some terms are diverse (e.g., neurotransmitter transport, ribosomal export), the recurring theme is how cells shape, move, and organize themselves during development, supported by cytoskeletal dynamics and intracellular trafficking. This makes a concise label focusing on developmental morphogenesis with cytoskeletal coordination appropriate. ","confidence":"Medium","size":11,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0098887","count":3},{"id":"GO:0097498","count":3},{"id":"GO:0090051","count":3},{"id":"GO:0090334","count":3},{"id":"GO:0051683","count":3}]},{"hash":"670666049341727465","title":"Pro-inflammatory cytokine signaling and DC migration","description":"This cluster is enriched for cytokine production (IL-1\u03b2, IL-5, IL-13), LPS response, pyroptosis, and dendritic cell migration, pointing to a coordinated innate immune activation and antigen-presenting function. Negative regulation of ERK1/2 signaling and non-canonical NF-kappaB signaling suggests feedback control to limit inflammation; the presence of a mitotic spindle assembly term may reflect broader signaling roles or annotation noise.","confidence":"High","size":11,"edges":15,"triangles":6,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032736","count":10},{"id":"GO:0006915","count":10},{"id":"GO:0070269","count":10},{"id":"GO:0070373","count":10},{"id":"GO:0050718","count":10}]},{"hash":"1851746162957035913","title":"Unknown","description":"The top GO terms cover proteolysis, glutathione metabolism, and leukotriene biosynthesis, alongside DNA repair and telomere maintenance, indicating a mix of metabolic and nuclear DNA processes with no single unifying function. Because the terms do not point to a coherent, shared biological role for the cluster, a specific label isn\u2019t reliable.","confidence":"","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0006751","count":2},{"id":"GO:0006750","count":2},{"id":"GO:1901750","count":2},{"id":"GO:0007004","count":1}]},{"hash":"551155119021154642","title":"Receptor internalization and lysosome/endosome trafficking","description":"This cluster centers on cell surface receptor signaling coupled with internalization and transport of receptors through endosomes to lysosomes, supported by terms for receptor internalization and lysosomal localization, as well as endosome-to-melanosome transport. It also touches on related signaling regulation (NF-kappaB, VEGF) and development aspects, suggesting a cohesive theme of receptor trafficking and downstream signaling modulation.","confidence":"High","size":11,"edges":49,"triangles":120,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0007166","count":8},{"id":"GO:0061462","count":8},{"id":"GO:0035646","count":8},{"id":"GO:0090528","count":8},{"id":"GO:2000680","count":8}]},{"hash":"677154923027165959","title":"Drosophila Developmental Morphogenesis","description":"The top GO terms point to tissue morphogenesis and developmental processes in Drosophila, including imaginal disc fusion, thorax and eye morphogenesis, and outflow tract morphogenesis, suggesting a coordinating role in developmental patterning. Regulatory activities such as miRNA transcription and histone deacetylation further support a gene-expression control theme in development, with a few terms touching on neuromuscular or locomotor aspects that relate to maturation of function. Overall, the cluster appears to group proteins involved in developmental morphogenesis and its regulation.","confidence":"Medium","size":11,"edges":28,"triangles":42,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035994","count":4},{"id":"GO:0061614","count":4},{"id":"GO:0046529","count":4},{"id":"GO:0045475","count":4},{"id":"GO:1903694","count":4}]},{"hash":"1464496580570134950","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":46,"triangles":108,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0046944","count":1},{"id":"GO:0070126","count":1},{"id":"GO:0070125","count":1},{"id":"GO:0046330","count":1}]},{"hash":"2299055939302785774","title":"Immune cell development and organogenesis","description":"The top GO terms point to immune system development (germinal center formation, pro-T cell differentiation, activation-induced T cell death, inflammatory response) and organ development (spinal cord and heart development). While some terms are outliers (e.g., brassinosteroid signaling), the dominant pattern is development of immune components alongside tissue/organ formation, justifying a combined label.","confidence":"Medium","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0002467","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0006954","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0006924","count":2}]},{"hash":"1513598836261333337","title":"Innate immunity and macrophage activation","description":"The cluster is enriched for GO terms centered on innate immune response, macrophage activation, and inflammatory signaling (e.g., NF-kappaB regulation, IL-8 production, MIP-1 alpha), along with interferon production regulation and vitamin D response, all pointing to immune signaling and macrophage function. A few terms like plasma membrane repair may reflect cellular stress responses during activation, but the core theme is innate immune activation and macrophage-associated signaling.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032479","count":11},{"id":"GO:0009729","count":11},{"id":"GO:0042116","count":11},{"id":"GO:0051770","count":11},{"id":"GO:0033280","count":11}]},{"hash":"1639498396287498741","title":"EGFR-ERK signaling and cytoskeletal remodeling","description":"The top GO terms cluster around epidermal growth factor receptor signaling and downstream ERK activation (EGF stimulus response, ERK1/ERK2 cascade) together with cytoskeletal and adhesion dynamics (focal adhesion assembly, filopodium regulation). Some sensory terms may reflect tissue-specific roles or noise, but the core theme is growth-factor\u2013driven signaling linked to cytoskeletal remodeling. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0070493","count":3},{"id":"GO:0050957","count":2},{"id":"GO:0051489","count":2},{"id":"GO:2000301","count":2}]},{"hash":"291018334806126495","title":"Signaling and cytoskeleton dynamics in development and immunity","description":"This cluster centers on GO terms related to signaling pathways (insulin receptor signaling, cellular response to glucose), cytoskeletal organization (cortical actin cytoskeleton), and cell migration, spanning developmental processes (neural tube closure, visual learning) and immune contexts (thymocyte migration, humoral immune response). While the terms cover a broad range, the common theme is regulation of signaling and cytoskeletal dynamics that influence cell movement and differentiation across development and immune function.","confidence":"Medium","size":11,"edges":18,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001843","count":4},{"id":"GO:0008542","count":4},{"id":"GO:0046826","count":4},{"id":"GO:0071333","count":4},{"id":"GO:0030866","count":3}]},{"hash":"1980426614797424869","title":"Craniofacial skeletogenesis and palate development","description":"This cluster is enriched for processes linked to craniofacial development and bone formation, with strong signals for intramembranous and endochondral ossification and palate formation. Endodermal differentiation and cadherin-mediated cell adhesion support epithelial\u2013mesenchymal interactions in morphogenesis, while keratinocyte migration and STAT signaling reflect associated developmental signaling and surface tissue dynamics. Overall, the dominant theme is craniofacial skeletogenesis and related morphogenetic processes.","confidence":"Medium","size":11,"edges":45,"triangles":96,"max_degree":10,"top_function":"wound healing","top_go_terms":[{"id":"GO:0010760","count":10},{"id":"GO:0002633","count":10},{"id":"GO:0035987","count":10},{"id":"GO:0060022","count":10},{"id":"GO:0051549","count":10}]},{"hash":"881446206171862818","title":"Neural morphogenesis and developmental signaling","description":"The top GO terms cluster around neural development (dendritic spine morphogenesis, motor neuron axon fasciculation) and broad developmental signaling processes (MAPK cascade, angiogenesis, osmosensory signaling, mesoderm formation, telomere maintenance, hormone response, apoptosis), suggesting a cohesive theme of neural development coupled with signaling pathways guiding morphogenesis and differentiation.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060997","count":10},{"id":"GO:0000196","count":10},{"id":"GO:0045766","count":10},{"id":"GO:0097156","count":10},{"id":"GO:0006915","count":10}]},{"hash":"220817341197527921","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":24,"triangles":17,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0052889","count":2},{"id":"GO:0040037","count":2},{"id":"GO:0002063","count":2},{"id":"GO:0060686","count":2},{"id":"GO:0060384","count":2}]},{"hash":"2215822418668447873","title":"Ribosome biogenesis, translation, and RNA modification","description":"The top GO terms cluster around ribosome assembly (ribosomal large subunit assembly), cytoplasmic and mitochondrial translation, translational termination, and RNA modification (mRNA pseudouridine synthesis), pointing to a coherent theme of ribosome biogenesis and protein synthesis machinery, with RNA modification supporting ribosome function.","confidence":"High","size":11,"edges":29,"triangles":33,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0051382","count":1},{"id":"GO:0000278","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0071549","count":1},{"id":"GO:0006412","count":1}]},{"hash":"55543373885409404","title":"Steroid and Lipid Biosynthesis","description":"The cluster shows strong enrichment for biosynthetic and metabolic processes, especially lipid and steroid pathways (sphingolipid, mycolic acid, retinol, phylloquinone, tetrahydrobiopterin, testosterone and glucocorticoid biosynthesis). This points to a cohesive role in lipid/steroid metabolism and related vitamin/cofactor pathways, with lung development likely being a less connected annotation.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0030148","count":11},{"id":"GO:0030324","count":11},{"id":"GO:0042572","count":11},{"id":"GO:0045150","count":11},{"id":"GO:0071768","count":11}]},{"hash":"1817670471195381546","title":"Neuronal signaling and synaptic transmission","description":"This cluster centers on neural communication and regulation of neurotransmitter release, with glycinergic and dopaminergic synapses, norepinephrine secretion, calcium-dependent signaling, and sensory/behavioral responses (sound perception, ethanol-related changes), suggesting a cohesive neural signaling module. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003009","count":8},{"id":"GO:0098703","count":8},{"id":"GO:0014061","count":7},{"id":"GO:0060012","count":7},{"id":"GO:0001661","count":7}]},{"hash":"2053965271678888541","title":"Innate immune signaling and epithelial remodeling","description":"Based on the GO terms, the cluster is dominated by innate immune processes (complement activation, innate immune response, Fc-epsilon receptor signaling) while also including terms related to epithelial remodeling and development (epithelial-to-mesenchymal transition, maintenance of gastrointestinal epithelium, heart development). A few terms touch on neural signaling and virus attachment, but the core theme appears to be immune signaling with associated tissue remodeling. ","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":7},{"id":"GO:0045087","count":6},{"id":"GO:0038095","count":4},{"id":"GO:0001837","count":4},{"id":"GO:0043031","count":4}]},{"hash":"1235505989380056128","title":"Calcium and Cation Transport","description":"This cluster is dominated by GO terms for calcium ion homeostasis and calcium/sodium/zinc transmembrane transport, as well as calcium-dependent processes related to fast-twitch muscle contraction. The convergence on calcium and other cation transport across membranes suggests a core function in ion homeostasis and signaling that modulates muscle physiology; a separate nerve development term is present but less central to the cluster's main theme.","confidence":"Medium","size":11,"edges":48,"triangles":114,"max_degree":10,"top_function":"establishment or maintenance of cell polarity","top_go_terms":[{"id":"GO:0006874","count":8},{"id":"GO:0021650","count":8},{"id":"GO:0061092","count":8},{"id":"GO:0031448","count":8},{"id":"GO:0099132","count":8}]},{"hash":"1883327390282895244","title":"Embryonic morphogenesis and neural development","description":"The GO terms point to broad embryonic development across tissues (eye, heart/foregut, somite formation) with strong emphasis on nervous system maturation (myelination, forebrain glial division) and vascular regulation (angiogenesis). This suggests a cohesive theme of embryonic morphogenesis tied to nervous system development.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016525","count":2},{"id":"GO:0042552","count":2},{"id":"GO:0035754","count":1},{"id":"GO:0048048","count":1},{"id":"GO:0003273","count":1}]},{"hash":"1911410209048730200","title":"Neuronal GTPase signaling and spine morphogenesis","description":"The cluster shows strong signals for striatal neuron differentiation, dendritic spine morphogenesis, and small GTPase\u2013mediated signaling, with CAAX-box processing hinting at prenylation of GTPases that drive cytoskeletal changes and synaptic plasticity (e.g., long-term synaptic depression). A few terms reference other cell types or traits, but the core theme is neuronal signaling and spine development.","confidence":"Medium","size":11,"edges":48,"triangles":113,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0071586","count":3},{"id":"GO:0021773","count":2},{"id":"GO:0060292","count":2},{"id":"GO:1904424","count":2},{"id":"GO:0060997","count":2}]},{"hash":"2282478238570065939","title":"Sperm-Egg Recognition and Fertilization","description":"This cluster is dominated by GO terms for sperm-egg recognition, single fertilization, and fusion of sperm to the egg plasma membrane, pointing to proteins involved in gamete interaction and fertilization. The immune-related terms are present but less frequent, likely representing secondary annotations. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034113","count":3},{"id":"GO:0035036","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0007342","count":3},{"id":"GO:0042102","count":2}]},{"hash":"1120817208568019274","title":"Neural Development and Signaling","description":"The cluster centers on neural-development related processes (axon extension, retina morphogenesis, olfactory nerve formation, behavior) and broader cell signaling/adhesion activities (VEGF/PDGFR-regulated proliferation, CCR7 signaling, T cell proliferation), suggesting a cohesive theme of signaling and cell interactions during neural development, with additional context from adhesion and immune signaling.","confidence":"Medium","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0038091","count":8},{"id":"GO:0030277","count":8},{"id":"GO:0048691","count":8},{"id":"GO:0046814","count":8},{"id":"GO:0042102","count":8}]},{"hash":"685396884912979963","title":"Innate Immunity and B Cell Activation","description":"The terms strongly cluster around immune functions: innate immune response, phagocytosis (recognition and engulfment), and complement activation, plus signals for B cell activation and B cell receptor signaling. This suggests a cohesive module of immune activation spanning innate phagocytic processes and adaptive B cell signaling, with a few terms related to host-pathogen interactions that may reflect annotation noise but do not overwhelm the central immune theme.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":10},{"id":"GO:0006910","count":10},{"id":"GO:0006911","count":10},{"id":"GO:0050871","count":10},{"id":"GO:0050853","count":10}]},{"hash":"1412893053346416227","title":"Embryonic morphogenesis and patterning","description":"The terms are dominated by embryonic development and tissue morphogenesis across multiple lineages (mesoderm, palate/cartilage, hair follicle, endocardial cushion EMT, left-right patterning), suggesting the cluster reflects proteins involved in developmental morphogenesis rather than a single tissue-specific function; one ribosome export term appears incidental.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0000055","count":11},{"id":"GO:0035270","count":11},{"id":"GO:0060021","count":11},{"id":"GO:0060536","count":11},{"id":"GO:0003198","count":11}]},{"hash":"1557556818312087450","title":"Multisystem Signaling Regulation","description":"The top GO terms point to neurotransmitter-related signaling (dopamine uptake, acetylcholine metabolism, GPCR signaling) as well as regulatory processes (inflammatory response, vasoconstriction) and developmental/immune roles. This suggests a unifying theme of regulation and modulation of signaling across multiple organ systems, rather than a single, cohesive pathway. ","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":10},{"id":"GO:0007497","count":10},{"id":"GO:0050728","count":10},{"id":"GO:1901652","count":10},{"id":"GO:0051586","count":10}]},{"hash":"2138018869093488478","title":"T cell and NK cell cytotoxic regulation","description":"The cluster is dominated by GO terms related to T cell costimulation, positive regulation of T cell proliferation, and NK/CTL cytotoxic regulation (including both promotion and negative modulation of cytotoxicity and degranulation), pointing to proteins involved in shaping adaptive and innate cytotoxic immune responses. Some terms about virion attachment and host-cell entry appear, but the prevailing signal is modulation of cytotoxic activity by T cells and NK cells, justifying a label focused on cytotoxic immune regulation.","confidence":"High","size":11,"edges":11,"triangles":5,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0031295","count":9},{"id":"GO:0046814","count":8},{"id":"GO:0042102","count":8},{"id":"GO:1902414","count":8},{"id":"GO:0046718","count":8}]},{"hash":"536402121907420827","title":"Chromatin modification and transcription regulation","description":"The cluster is dominated by GO terms for histone modifications (H3K27, H3K4) and DNA-templated transcription, plus nucleosome assembly, pointing to chromatin-based control of gene expression. Development-related terms like embryonic placenta morphogenesis and optic nerve development suggest roles in epigenetic regulation of developmental programs. A few other terms (e.g., drug response) are peripheral but don't conflict with the main theme. Overall, the proteins likely function together as chromatin modifiers/transcription regulators.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006334","count":2},{"id":"GO:0060669","count":2},{"id":"GO:0098532","count":2},{"id":"GO:1901674","count":2}]},{"hash":"1517110165571610832","title":"Multisystem morphogenesis","description":"The top GO terms point to development and morphogenesis in diverse organisms and tissues (lens, muscle, haltere, blood vessels, floral meristems, neural crest migration), with some hormone-stimulated signaling; together they imply a common theme of morphogenetic processes rather than a single pathway.","confidence":"Medium","size":10,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0002089","count":3},{"id":"GO:0007519","count":2},{"id":"GO:0009722","count":2},{"id":"GO:1901166","count":2},{"id":"GO:0009727","count":2}]},{"hash":"1614871791506716409","title":"DNA replication and repair under cellular stress","description":"The cluster centers on core genome maintenance processes (DNA replication, double-strand break repair in meiotic recombination, telomere maintenance regulation) and transcriptional control, alongside stress responses (response to heat) and anti-apoptotic regulation. This suggests a cohesive module focused on preserving genome integrity and adjusting transcription/protein turnover under stress, rather than disparate functions.","confidence":"Medium","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0050728","count":3},{"id":"GO:0009408","count":3},{"id":"GO:0000122","count":3},{"id":"GO:1990918","count":3}]},{"hash":"1268476928228923951","title":"Neural development and synaptic signaling","description":"The cluster is enriched for terms tied to brain and sensory organ development (brain, substantia nigra, cochlea morphogenesis) and neural communication (axon guidance, excitatory postsynaptic potential), pointing to a cohesive theme of neural development and synaptic signaling. Additional terms for vesicle transport and xenobiotic response appear as broader cellular context, but the dominant pattern is neural formation and signaling dynamics.","confidence":"High","size":10,"edges":33,"triangles":46,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0001889","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0090103","count":2},{"id":"GO:0021762","count":2}]},{"hash":"1110069951927933096","title":"Innate Immune Signaling and Transcriptional Regulation","description":"The cluster shows a core of innate immune and transcription-related terms: MyD88-dependent TLR4 signaling and negative regulation of viral genome replication point to immune sensing and response, while GO: regulation of DNA-templated transcription and DNA-templated transcription suggest coordination of transcriptional programs. Additional terms like ephrin receptor signaling and chemotaxis indicate broader signaling and cell movement contexts. Some items (muscle development, platelet regulation) may reflect shared signaling components rather than core function, but the dominant theme is immune signaling coupled with transcriptional control.","confidence":"Medium","size":10,"edges":18,"triangles":13,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0006935","count":2},{"id":"GO:0043619","count":2},{"id":"GO:0048013","count":2}]},{"hash":"918387843751090782","title":"Immune cytokine signaling and differentiation","description":"The dominant GO terms point to hematopoietic and immune processes: cellular responses to GM-CSF and IL-7, hemopoiesis, NK T cell differentiation, and receptor clustering with phosphorylation, suggesting immune cell development and cytokine-driven signaling. Dendritic spine morphogenesis may reflect immune synapse dynamics rather than neuronal function. Overall, the cluster seems to represent immune differentiation and signaling pathways.","confidence":"Medium","size":10,"edges":16,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0097011","count":4},{"id":"GO:0046827","count":4},{"id":"GO:0060997","count":3},{"id":"GO:0098761","count":3},{"id":"GO:0030097","count":3}]},{"hash":"2026511261065761159","title":"Intracellular vesicle trafficking","description":"The top GO terms cluster around vesicular transport within the cell, including endosome-to-Golgi retrograde transport, endocytic recycling, lysosomal transport, Golgi-to-vacuole transport, and dense core granule transport. This points to a shared role in vesicle movement and sorting within the endomembrane system, with additional terms like synapse assembly and B cell differentiation likely reflecting context-specific roles in certain cell types. Overall, the core theme is intracellular vesicle trafficking.","confidence":"High","size":10,"edges":42,"triangles":98,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0090326","count":3},{"id":"GO:0042147","count":3},{"id":"GO:0032456","count":3},{"id":"GO:0007041","count":3},{"id":"GO:0006896","count":3}]},{"hash":"595851678715278989","title":"Proteostasis and protein trafficking","description":"The top GO terms cluster around protein quality control and folding (ERAD pathway, misfolded protein response, chaperone-mediated assembly), with additional signals of protein transport and localization (peroxisome import, vesicle transport) and basic biosynthetic processes (ribosome assembly, mRNA export). This suggests a coherent theme centered on maintaining protein homeostasis and directing proteins to correct cellular destinations, despite some broader terms included. ","confidence":"Medium","size":10,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:1990048","count":2},{"id":"GO:1903715","count":2},{"id":"GO:0016562","count":2},{"id":"GO:0006406","count":2}]},{"hash":"612681122214353738","title":"Cardiovascular development and hemostasis","description":"The top GO terms point to blood coagulation and fibrinolysis, regulation of arterial blood pressure (ANP), and developmental signaling (Wnt, digestive system development, multicellular growth). This suggests a cluster centered on cardiovascular development and tissue remodeling with hemostatic processes, though some transcriptional regulation terms may reflect shared regulatory proteins common to many processes. Overall, a cardiovascular development/hemostasis theme fits best, with some functional diversity.","confidence":"Medium","size":10,"edges":17,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0042730","count":7},{"id":"GO:0045944","count":7},{"id":"GO:0055123","count":7},{"id":"GO:0035264","count":7}]},{"hash":"88873318143489960","title":"Rho/Rac GTPase Signaling Regulation","description":"The top terms cluster around modulation of GTPase activity and regulators of Rho and Rac signaling, pointing to a group involved in cytoskeletal dynamics and signaling pathways. A few outlier terms (spinal cord development, lactate metabolism, arabinan biosynthesis, cell wall organization) may reflect cross-species annotations or multifunctional proteins, but the core theme remains GTPase pathway regulation.","confidence":"Medium","size":10,"edges":36,"triangles":57,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0021510","count":2},{"id":"GO:0035021","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0043547","count":2},{"id":"GO:1903457","count":1}]},{"hash":"2025242850888270469","title":"Developmental transcription and organogenesis","description":"The cluster features transcription-related GO terms (positive regulation of transcription by RNA polymerase II, DNA-templated transcription) alongside multiple organ-development terms (heart development, thymus development, liver regeneration, placenta morphogenesis, lens fiber cell differentiation, osteoclast differentiation). This pattern suggests a set of proteins that coordinate gene expression programs during development and tissue differentiation across several organs, rather than a single precise pathway.","confidence":"Medium","size":10,"edges":11,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0090309","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0060669","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0006351","count":2}]},{"hash":"279765095088443931","title":"GTPase signaling and cytoskeletal remodeling in immune cells","description":"The cluster is dominated by GTPase-mediated signaling and actin cytoskeleton organization, with multiple immune/hematopoietic-related terms (GM-CSF response, neutrophil degranulation) and platelet-related processes (protein secretion by platelets). The presence of IGF receptor signaling and vascular/muscle regulation terms suggests a broader signaling network that coordinates cytoskeletal dynamics across immune cells and platelets, as well as links to mitochondrial fission and apoptotic mitochondrial changes. This supports a cohesive theme around signaling-driven cytoskeletal remodeling in immune and platelet contexts.","confidence":"Medium","size":10,"edges":7,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":3},{"id":"GO:0048009","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0097011","count":3},{"id":"GO:0045988","count":3}]},{"hash":"1686900064162209709","title":"Macrophage Innate Immunity and NF-kB Signaling","description":"The cluster\u2019s top GO terms cluster around innate immune response, macrophage activation, and regulation of NF-kappaB signaling (canonical and non-canonical), along with cytokine production (IL-8, interferon-beta) and defense against Gram-positive bacteria. These collectively point to macrophage-driven innate immune activation and inflammatory signaling, despite a few outlier terms like RNA nuclear import and actin dynamics. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006404","count":5},{"id":"GO:0042116","count":4},{"id":"GO:0051770","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0043124","count":4}]},{"hash":"817287757146655271","title":"Skeletal and dental mesenchymal differentiation","description":"Based on the top GO terms, the proteins are enriched for development and differentiation of mesenchymal derivatives: chondrocyte development, osteoblast differentiation, odontogenesis, and stem cell differentiation, with SHH signaling regulation and cell maturation. While some terms touch immune signaling, the strongest core theme is differentiation along bone, cartilage, and tooth lineages, supporting a skeletal/dental mesenchymal function.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002063","count":3},{"id":"GO:0045669","count":3},{"id":"GO:0048863","count":3},{"id":"GO:1903758","count":2},{"id":"GO:0042475","count":2}]},{"hash":"604423290412190131","title":"Vertebrate organogenesis","description":"The top GO terms cluster around development and morphogenesis across multiple vertebrate organs (cranial skeleton, heart field, ovary, hypothalamus, lung, eye, mesenchyme), indicating a common theme of embryonic organogenesis rather than a single specific pathway. Some terms are outliers (immune regulation, fungal growth), but the dominant signal points to multi-organ developmental processes.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904888","count":5},{"id":"GO:0003139","count":5},{"id":"GO:0001542","count":5},{"id":"GO:0021855","count":4},{"id":"GO:1901248","count":4}]},{"hash":"276483564369380096","title":"Nuclear RNA Splicing and Processing","description":"This cluster is dominated by GO terms for mRNA splicing via the spliceosome, spliceosomal complex assembly, snRNP assembly, and related RNA processing steps (tRNA and rRNA maturation) as well as nuclear import, indicating a core group of nuclear RNA processing/splicing factors. Plant-stress terms (ABA response, water deprivation) may reflect regulatory modulation rather than core function. Overall, the set centers on spliceosome-associated RNA processing in the nucleus.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":6},{"id":"GO:0006369","count":5},{"id":"GO:0000245","count":5},{"id":"GO:0009737","count":4},{"id":"GO:0000387","count":4}]},{"hash":"1870263847920917536","title":"Translational initiation and regulation","description":"The top GO terms cluster around initiation of protein synthesis, including formation of the translation preinitiation complex, regulation of translational initiation, and IRES-dependent initiation, suggesting a core focus on translational control. Other terms related to chromatin or DNA repair appear less central to the main theme, making translation initiation the best representative function for this cluster.","confidence":"Medium","size":10,"edges":43,"triangles":104,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0035522","count":3},{"id":"GO:0001731","count":2},{"id":"GO:0048140","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0006446","count":2}]},{"hash":"156250033026600057","title":"Synapse development and plasticity","description":"The top GO terms point to neural connectivity and synaptic remodeling, including dendritic spine morphogenesis, long-term synaptic depression, Purkinje cell layer formation, and nitric oxide\u2013mediated retrograde signaling, all of which support a cohesive theme of synapse formation and structural plasticity. A few terms about epithelial polarity and junctions appear ancillary, likely reflecting shared cell-junction components rather than a primary epithelial function.","confidence":"High","size":10,"edges":38,"triangles":79,"max_degree":9,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0090557","count":9},{"id":"GO:0060292","count":8},{"id":"GO:0090103","count":8},{"id":"GO:0060997","count":8},{"id":"GO:0045198","count":8}]},{"hash":"2172436456178640242","title":"Membrane Ion Transport and pH Regulation","description":"The cluster is dominated by transmembrane transport terms for chloride, bicarbonate, sulfate, fructose, and oxalate, along with regulation of membrane potential and intracellular pH. This points to proteins involved in ion and metabolite transport and maintenance of cellular pH/homeostasis, with some related terms (gastric acid secretion, sperm capacitation) reflecting proton/ion channel and transporter roles in specialized tissues.","confidence":"Medium","size":10,"edges":11,"triangles":6,"max_degree":6,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:1902476","count":5},{"id":"GO:0015701","count":4},{"id":"GO:0042391","count":4},{"id":"GO:0001696","count":4},{"id":"GO:1902358","count":4}]},{"hash":"1741168340100091974","title":"Diverse Developmental Signaling","description":"The top GO terms span nervous system development, organ morphogenesis, plant signaling (brassinosteroid pathway and gravitropism), and immune differentiation, plus ubiquitin-dependent protein turnover and protein oligomerization. This broad mix points to a general theme of developmental processes and signaling rather than a single conserved pathway. Therefore, the cluster is best described as Diverse Developmental Signaling, reflecting cross-tissue and cross-kingdom developmental regulation.","confidence":"Medium","size":10,"edges":14,"triangles":3,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0045497","count":4},{"id":"GO:1900477","count":4},{"id":"GO:2000176","count":4}]},{"hash":"299701351503353001","title":"ER-Golgi trafficking and membrane proteolysis","description":"The cluster centers on ER-to-Golgi transport and multiple membrane protein proteolysis processes (ectodomain, intracellular domain, and retrograde transport), with additional signals of NFAT-related signaling and immune regulation, suggesting a module where trafficking and proteolytic processing jointly modulate signaling. ","confidence":"Medium","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0006621","count":2},{"id":"GO:0051533","count":2},{"id":"GO:0050776","count":2},{"id":"GO:0031293","count":2}]},{"hash":"876706118695596668","title":"Unknown","description":"The Top Terms span neuronal development (dendritic spine development, neuron maturation, apical localization) and immune signaling (T cell activation, NF-kappaB regulation, lymphocyte aggregation) along with autophagy, spindle/kinetochore dynamics, and mitochondrial inheritance. There isn\u2019t a single cohesive function tying these terms together, so a specific label isn\u2019t reliably identifiable.","confidence":"","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045176","count":10},{"id":"GO:0071260","count":10},{"id":"GO:0060999","count":10},{"id":"GO:0014041","count":10},{"id":"GO:0051988","count":10}]},{"hash":"1317937104166837212","title":"Neuronal development with immune signaling","description":"Top terms center on neuronal development, maturation, and localization, with responses to mechanical cues, while also including immune signaling components (NF-kappaB regulation, T cell activation, lymphocyte aggregation) and autophagy-related localization, alongside cytoskeletal/mitotic processes (spindle microtubules to kinetochore, mitochondrial inheritance). This suggests a broad role in signaling and cellular organization that spans neural development and immune regulation, rather than a single cohesive neuronal or immune pathway.","confidence":"Medium","size":10,"edges":43,"triangles":105,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045176","count":9},{"id":"GO:0071260","count":9},{"id":"GO:0060999","count":9},{"id":"GO:0014041","count":9},{"id":"GO:0051988","count":9}]},{"hash":"281793946306064289","title":"Synapse formation and spine morphogenesis","description":"Top GO terms cluster around synapse assembly, dendritic spine morphogenesis, and cytoskeletal remodeling (lamellipodium formation, receptor clustering) with concurrent regulation of signaling pathways (Rho, Ras, Wnt). Together, these point to a coordinated program of synapse formation and spine development rather than a single metabolic activity.","confidence":"High","size":10,"edges":31,"triangles":45,"max_degree":9,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0030579","count":5},{"id":"GO:0043113","count":5},{"id":"GO:0071732","count":5},{"id":"GO:0060997","count":5}]},{"hash":"563104521223830131","title":"Small GTPase signaling regulators","description":"Top GO terms point to regulation of small GTPase\u2013mediated signaling (Rho/Rac), with additional regulatory connections to insulin receptor signaling, calcineurin-NFAT signaling, and osteoclast differentiation. The common thread appears to be modulators of signaling pathways orchestrated by GTPases and related cascades, including negative regulation of cytoskeletal/Rho-family signaling. Therefore the cluster best fits as regulators of small GTPase signaling.","confidence":"Medium","size":10,"edges":29,"triangles":34,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0046626","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0051531","count":3},{"id":"GO:0042993","count":3},{"id":"GO:0090334","count":3}]},{"hash":"1844768367107589674","title":"Cardiac depolarization and adipose differentiation signaling","description":"The cluster centers on cardiac electrophysiology, with terms like positive regulation of membrane depolarization during cardiac muscle cell action potential and SA node cell communication, while also strongly featuring adipose biology (fat cell differentiation, brown fat differentiation) and related hormone/immune signaling (vitamin D response, NOD signaling, NF-kappaB regulation). This suggests a theme of signaling interactions between cardiac function and adipose tissue, with immune/metabolic links.","confidence":"Low","size":10,"edges":11,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":8},{"id":"GO:0070427","count":8},{"id":"GO:0032088","count":8},{"id":"GO:0070431","count":8},{"id":"GO:0007253","count":7}]},{"hash":"1592146981820324918","title":"Caveolae-Mediated Neuronal Membrane Remodeling","description":"This cluster centers on caveolae and caveolin-mediated endocytosis, with strong signals for actin-driven membrane remodeling (filopodia, cortical patches, actin organization) and membrane tubulation. The inclusion of neuron development hints that these processes are linked to neuronal membrane dynamics and trafficking. Together, they define a cohesive theme of caveolae-associated membrane remodeling in neurons.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0070836","count":10},{"id":"GO:0000147","count":10},{"id":"GO:0097320","count":10},{"id":"GO:0048666","count":10},{"id":"GO:0046847","count":10}]},{"hash":"423296834124367755","title":"Craniofacial and neural crest\u2013derived sensory organ development","description":"The terms cluster around embryonic morphogenesis of neural crest derivatives and sensory/craniofacial structures (eye, cochlea, palate, digits) along with related neural tissues (dorsal spinal cord) and heart development, indicating a cohesive theme of craniofacial and sensory organ development guided by neural crest.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":10},{"id":"GO:0007601","count":10},{"id":"GO:0090103","count":9},{"id":"GO:0042733","count":9},{"id":"GO:0060021","count":9}]},{"hash":"1529562012672366976","title":"Blood coagulation and vascular development","description":"The top GO terms are dominated by coagulation (blood clotting and fibrinolysis) and angiogenesis, with several related to vascular growth and regulation of arterial blood pressure, plus Wnt signaling linked to development. This points to proteins involved in hemostasis and blood vessel formation, with some general transcription regulation terms likely reflecting broader cellular control. Thus, a name focused on coagulation and vascular development best captures the cluster's core function.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":9},{"id":"GO:0045766","count":8},{"id":"GO:0042730","count":7},{"id":"GO:0045944","count":7},{"id":"GO:0055123","count":7}]},{"hash":"117828855155334116","title":"Endothelial signaling and barrier regulation","description":"Based on the top GO terms, several points tie to endothelial cell biology: endothelial cell proliferation, establishment of endothelial intestinal barrier, and multiple signaling pathway terms (Rap, PKC, JNK, thrombin receptor signaling) that are active in endothelial contexts. Although a couple terms (DNA transposition, intracellular protein transport, obsolete GO terms) appear less related, the dominant pattern points to endothelial signaling and barrier maintenance, suggesting the proteins cluster around vascular signaling and barrier regulation rather than a single narrow function.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006313","count":3},{"id":"GO:0001935","count":3},{"id":"GO:0032486","count":3},{"id":"GO:0046330","count":2},{"id":"GO:0090557","count":2}]},{"hash":"646721318690959933","title":"Ribosome biogenesis and translation","description":"The GO terms center on ribosome assembly and function (export of large subunit from the nucleus, small subunit biogenesis, cytoplasmic translation) and tRNA modification, indicating a core ribosome/translation machinery cluster; occasional cell cycle terms may reflect general cellular growth but do not override the translation-centric theme.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":1},{"id":"GO:0039707","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0006007","count":1},{"id":"GO:0090529","count":1}]},{"hash":"1778340590479382241","title":"Unknown","description":"The GO terms are and span transcription regulation (RNA Pol II, histone modification), calcium signaling (sarcoplasmic reticulum calcium release, ryanodine channel activity), neuronal development, drug response, and surfactant homeostasis, with no clear shared process or pathway. The absence of edges and a unifying function among these terms suggests there isn\u2019t a cohesive cluster function to label more specifically. ","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":1},{"id":"GO:0006351","count":1},{"id":"GO:1900112","count":1},{"id":"GO:0001975","count":1},{"id":"GO:0051533","count":1}]},{"hash":"677894373789744991","title":"NF-kappaB/NFAT signaling in muscle and vessel development","description":"This cluster centers on NF-kappaB and calcineurin-NFAT signaling, highlighted by positive regulation of NF-kappaB and NFAT pathways, along with skeletal muscle fiber development and blood vessel branching. Together, these terms point to a developmental program coordinating muscle and vascular formation through these signaling axes; additional terms related to neural morphogenesis and transcription regulation suggest broader regulatory roles in development.","confidence":"Medium","size":10,"edges":25,"triangles":22,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043123","count":4},{"id":"GO:0048741","count":4},{"id":"GO:0042493","count":3},{"id":"GO:0010977","count":3},{"id":"GO:0051533","count":3}]},{"hash":"1100754190979040941","title":"Neural development and synaptic signaling","description":"The cluster is enriched for neural-related terms: long-term synaptic potentiation and excitatory postsynaptic potential, plus Schwann cell development and general multicellular development, pointing to roles in neural development and synaptic communication. Some terms (ABA signaling and angiogenesis) may reflect annotation noise or broader signaling roles, but the neural signals dominate.","confidence":"Medium","size":10,"edges":8,"triangles":2,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043065","count":7},{"id":"GO:0014850","count":7},{"id":"GO:0009738","count":7},{"id":"GO:0001525","count":7},{"id":"GO:0000278","count":7}]},{"hash":"1443964526031318085","title":"Developmental signaling and intracellular transport regulation","description":"These terms point to regulatory processes that tie development to intracellular organization: morphogenesis (dorsal closure, ring canal formation, eye development) and cell-cycle control (centrosome cycle), with modulation by phosphorylation (protein dephosphorylation) and transport between nucleus and cytoplasm. The inclusion of xenobiotic response and locomotor rhythm suggests broader signaling and stress-responsive roles rather than a narrow pathway. Taken together, the proteins likely participate in coordinating developmental signaling with cellular transport and regulatory mechanisms.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903955","count":3},{"id":"GO:0007391","count":2},{"id":"GO:0035508","count":2},{"id":"GO:0030725","count":2},{"id":"GO:0046822","count":2}]},{"hash":"853820976703118278","title":"Striatal Medium Spiny Neuron Differentiation and Synaptic Plasticity","description":"This cluster centers on striatal medium spiny neuron development and synaptic remodeling. The GO terms highlight MSN differentiation, dendritic spine morphogenesis, long-term synaptic depression, and enhanced glutamatergic transmission, all indicating plastic changes at synapses in striatal circuits. Additional terms\u2014small GTPase signaling and insulin receptor pathways\u2014reflect signaling and cytoskeletal remodeling underlying these processes, while fear-regulation hints at broader behavioral relevance. Overall, the dominant theme is striatal neuron differentiation linked to synaptic plasticity.","confidence":"High","size":10,"edges":43,"triangles":105,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0008286","count":7},{"id":"GO:0016477","count":7},{"id":"GO:0021773","count":6},{"id":"GO:0060292","count":6},{"id":"GO:0060997","count":6}]},{"hash":"393932038536658317","title":"mRNA processing and export regulation","description":"This cluster centers on regulation of mRNA processing and export, including splicing (spliceosome), polyadenylation, mRNA stability in response to stress, and assembly steps related to translation initiation, suggesting a coordinated, stress-responsive mRNA maturation module.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":8},{"id":"GO:0048025","count":7},{"id":"GO:0006378","count":6},{"id":"GO:0001731","count":5},{"id":"GO:1905663","count":5}]},{"hash":"1072353933809678667","title":"Ubiquitin-mediated regulation of cell cycle and transcription","description":"The cluster centers on ubiquitination and deubiquitination processes (K63/K29/K33-linked) alongside regulation of the cell cycle and transcription, with additional signals related to RNA processing. This constellation suggests a cohesive function in ubiquitin-dependent control of gene expression and cell-cycle decisions, rather than disparate roles. Confidence: High","confidence":"","size":10,"edges":22,"triangles":19,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0043066","count":3},{"id":"GO:0071157","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0008380","count":2}]},{"hash":"1916071213574697530","title":"Immune cell development and activation (myeloid, cytotoxic)","description":"The GO terms cluster around immune-related processes: myeloid progenitor proliferation, myeloid cell homeostasis, mast cell chemotaxis, CD8+ T cell proliferation, and granzyme B production, indicating activation, proliferation, and recruitment of immune cells; a few terms are obsolete but the dominant theme is immune response.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048661","count":2},{"id":"GO:0002551","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0035584","count":2}]},{"hash":"1076475226365846053","title":"Neuronal Synaptic Plasticity and Spine Morphogenesis","description":"The top GO terms point to activity-dependent changes at neuronal synapses: LTD, dendritic spine morphogenesis, and structural plasticity, along with actin cytoskeleton reorganization and regulation of excitatory signaling. Some terms also touch on junctional localization and myelin-associated regions, suggesting broader neuronal connectivity roles. The inclusion of vocalization and social behavior implies involvement of neural circuits mediating communication. Overall, the cluster is best described as neuronal synaptic plasticity and spine remodeling.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0060292","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0051835","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0035750","count":3}]},{"hash":"1421783837767786726","title":"Lymphocyte activation and signaling","description":"Most of the top GO terms are immune-related, emphasizing activation and signaling in lymphocytes (B cell proliferation and differentiation; T cell receptor signaling; regulation of GPCR signaling in immune cells). While a few terms refer to other processes (egg activation and labyrinthine vessel development), the dominant signal is lymphocyte activation and immune signaling, which justifies the label.","confidence":"High","size":10,"edges":9,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060466","count":3},{"id":"GO:0008277","count":3},{"id":"GO:2000438","count":3},{"id":"GO:0002322","count":3},{"id":"GO:0060716","count":3}]},{"hash":"1298620728824475362","title":"Gram-positive envelope lipids, menaquinone, and siderophore biosynthesis","description":"The cluster\u2019s dominant GO terms center on lipid and envelope components (long-chain and very long-chain fatty acid metabolism, lipoteichoic acid biosynthesis), plus essential lipid/quinone pathways (fatty acid and menaquinone biosynthesis) and iron acquisition (siderophore biosynthesis). These reflect coordinated metabolism and cell-envelope biosynthesis characteristic of Gram-positive bacteria, with supportive signals from related aromatic and catabolic processes. ","confidence":"High","size":10,"edges":26,"triangles":38,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0019654","count":6},{"id":"GO:0044539","count":6},{"id":"GO:0070395","count":6},{"id":"GO:0009234","count":6},{"id":"GO:0006633","count":6}]},{"hash":"977845579326153829","title":"ERK Signaling in Development and Sensory Morphogenesis","description":"Proteins in this cluster link ERK pathway regulation with a broad set of developmental and sensory-related processes, including visual perception, dendritic spine morphogenesis, ear morphogenesis, and lineage differentiation. The common thread is signaling-controlled development and morphogenesis, particularly via ERK cascade regulation, with additional connections to apoptosis and protein phosphorylation. ","confidence":"Medium","size":10,"edges":19,"triangles":17,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070374","count":7},{"id":"GO:0007601","count":7},{"id":"GO:0006915","count":6},{"id":"GO:0032092","count":6},{"id":"GO:0033138","count":6}]},{"hash":"2175961542836167954","title":"Neuronal adhesion and synapse development","description":"This cluster is dominated by GO terms related to cell\u2013cell adhesion in neural contexts (heterophilic/homophilic adhesion, neuron cell\u2013cell adhesion), nervous system development, and positive regulation of synapse assembly, indicating a core theme of establishing neural connectivity. ECM and ossification-related terms appear but are ancillary to the primary neural adhesion/synapse development signal.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0072006","count":4},{"id":"GO:0007156","count":4},{"id":"GO:0043931","count":4}]},{"hash":"267607639566314890","title":"Immune-Metabolic and Vascular Signaling","description":"The Top Terms include immune response, negative regulation of insulin signaling and fat differentiation, metabolic regulation (glycogen and glucose import), LDL signaling, and vascular permeability with cell adhesion. These collectively suggest a cluster involved in coordinating immune activity with metabolic signaling and vascular/tissue remodeling, even though there are no edges connecting the proteins. Inner ear development appears as a broader developmental context. Therefore, a label reflecting immune, metabolic, and vascular signaling is appropriate.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006955","count":2},{"id":"GO:0046627","count":2},{"id":"GO:0045599","count":2},{"id":"GO:0048839","count":2},{"id":"GO:0055096","count":2}]},{"hash":"166647112582035103","title":"Neural development and motor function","description":"Interpretation: The cluster is enriched for terms tied to neurons and motor control: somatic motor neuron differentiation, neurofilament cytoskeleton organization, and musculoskeletal movement, together with glutamate reuptake and axon-related processes. This points to proteins involved in neuronal differentiation, axon integrity, and neurotransmitter handling that underpin motor function. Collagen biosynthesis and ceramide biosynthesis may reflect supporting roles in neural tissues (extracellular matrix and lipid signaling), while protein catabolic processes are general housekeeping. Overall, the cluster appears to center on neural development and motor system activity.","confidence":"High","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0032964","count":2},{"id":"GO:0060052","count":2},{"id":"GO:0051935","count":2},{"id":"GO:0046513","count":2},{"id":"GO:1905045","count":2}]},{"hash":"306580395565788491","title":"MAPK signaling in development and immune response","description":"This cluster is dominated by GO terms tied to regulation of the ERK/MAPK cascade together with multiple development-related processes (heart, skeletal system, ovarian follicle growth, posterior midgut) and immune or neuromodulatory responses (defense to bacterium, inflammatory regulation, dopamine-related signaling). The common thread appears to be signaling pathways, especially MAPK/ERK, coordinating development and immune/neural functions across tissues. ","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042742","count":7},{"id":"GO:0070374","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0001545","count":5},{"id":"GO:0001501","count":4}]},{"hash":"1059950804976906929","title":"Cardiac membrane potential regulation and potassium transport","description":"This cluster centers on regulation of resting membrane potential, atrial action potential repolarization, stabilization of membrane potential, and potassium ion transport/homeostasis, all core aspects of cardiac electrophysiology and potassium handling. A secondary term involves mechanosensory touch, and a minor ossification term appears, but the dominant theme is heart-related electrical activity and K+ management, making the label representative of the cluster\u2019s function.","confidence":"High","size":10,"edges":41,"triangles":92,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0060075","count":9},{"id":"GO:0098914","count":9},{"id":"GO:0030322","count":7},{"id":"GO:0030007","count":7},{"id":"GO:0050976","count":7}]},{"hash":"2070562346002731051","title":"Gut mucosal immunity and epithelial defense","description":"This cluster centers on functions at the gastrointestinal mucosal barrier: innate and adaptive immune responses, defense against bacteria, and immunoglobulin transcytosis in epithelial cells, combined with maintenance of GI epithelium and immune cell signaling (e.g., T cell proliferation, CCR7). The combination of epithelial maintenance with diverse immune processes and host-symbiont interactions supports a theme of mucosal immune defense and epithelial-immune crosstalk in the gut.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030277","count":10},{"id":"GO:0046814","count":10},{"id":"GO:0042102","count":10},{"id":"GO:1903082","count":10},{"id":"GO:1902414","count":10}]},{"hash":"2203172295402670449","title":"Inflammatory and vascular response signaling","description":"The cluster shows enrichment for defense response to bacterium, response to lipopolysaccharide, and inflammatory response, alongside blood coagulation, vasoconstriction, and regulation of smooth muscle contraction. This points to a coordinated program linking innate immune activation with vascular tone and coagulation. ERK1/ERK2 cascade regulation and negative regulation of TNF production suggest signaling cross-talk between immune and vascular pathways, supporting a cohesive inflammatory-vascular theme, even if one term like heart development is less directly tied.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042742","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0045907","count":4},{"id":"GO:0032720","count":4}]},{"hash":"546296311124229797","title":"Base Excision Repair","description":"Two strongest terms are base-excision repair and AP site formation via deaminated base removal, indicating a DNA repair focus. The remaining terms span metabolism and signaling and appear incidental, but the dominant GO signal supports base-excision repair as the cluster's core function. Therefore the cluster is best labeled as Base Excision Repair.","confidence":"High","size":9,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0097510","count":2},{"id":"GO:0006284","count":2},{"id":"GO:0032516","count":2},{"id":"GO:0009423","count":1},{"id":"GO:0017000","count":1}]},{"hash":"1091019127661994278","title":"Unknown","description":"Top terms span telomere heterochromatin, neuron differentiation, seed growth, various organ developments, embryonic hematopoiesis, gland development, kidney formation, pharyngeal development, and DNA repair, showing no coherent shared function. Therefore no single representative label can be assigned.","confidence":"","size":9,"edges":8,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035390","count":1},{"id":"GO:1900477","count":1},{"id":"GO:0021514","count":1},{"id":"GO:1904911","count":1},{"id":"GO:0080113","count":1}]},{"hash":"1125660686895922556","title":"Neuronal Synaptic Function and Innate Antiviral Response","description":"The cluster prominently features GO terms related to neuronal communication and synapse organization, including positive regulation of excitatory postsynaptic potential, and synapse organization. It also includes innate immune and antiviral defense terms (innate immune response, defense response to virus, suppression of viral release by host), along with signaling and post-translational modification processes (regulation of JNK cascade, protein K63-linked ubiquitination) that can modulate both neuronal signaling and immune responses. Some terms (like cellulose catabolic process, cochlea morphogenesis) may be less directly connected, but the combination of synaptic function and antiviral defense signals a cohesive theme of neuronal signaling intertwined with host antiviral regulation. Confidence reflects this mixed but notable alignment.","confidence":"Medium","size":9,"edges":31,"triangles":51,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0030245","count":3},{"id":"GO:0090103","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0050808","count":2}]},{"hash":"541236110947682940","title":"Neural development and cell adhesion","description":"Many terms point to neural development and connectivity (neural tube closure, cerebellum development, nervous system development, synapse assembly) and to cell adhesion/ECM interactions (cell-matrix adhesion, heterophilic cell-cell adhesion). A few entries involve the complement pathway, which can intersect developmental processes. Overall, the proteins likely function in neural development via adhesion and synapse formation.","confidence":"High","size":9,"edges":16,"triangles":7,"max_degree":5,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0007160","count":5},{"id":"GO:0006958","count":4},{"id":"GO:0007157","count":4},{"id":"GO:0002062","count":4},{"id":"GO:0051965","count":4}]},{"hash":"1089328264933227356","title":"Neuronal development and axon regeneration regulators","description":"The cluster is dominated by GO terms tied to neuronal development (forebrain development), synaptic architecture (dendritic spine morphogenesis), and axon regeneration (regulation of axon regeneration), along with transcriptional control (DNA-templated transcription) and related regulatory processes. This suggests a cohesive group of proteins coordinating neuronal development and plasticity, with transcriptional and protein-stability regulation supporting axon/dendrite growth and synapse remodeling. Some immune signaling or cell-cycle terms may reflect shared regulatory components rather than core function, but the neuronal development axis is strongest.","confidence":"Medium","size":9,"edges":32,"triangles":60,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0030900","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0060997","count":4},{"id":"GO:0014850","count":4}]},{"hash":"953400069598986081","title":"Unknown","description":"This cluster mixes metabolic processes (glycolysis and TCA cycle) with neural development (Purkinje cell layer and cerebellar development) and synapse maturation, plus embryonic development, immune complement pathways, and fertilization, with no single dominant function uniting all terms. Confidence: None.","confidence":"","size":9,"edges":20,"triangles":26,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006096","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0006099","count":3},{"id":"GO:0001701","count":2},{"id":"GO:0060074","count":2}]},{"hash":"852242231902441375","title":"Developmental and Cell Cycle Functions","description":"The top GO terms point to developmental processes (neural tube closure, sensory perception of taste, multicellular growth) as well as cell-cycle related activities (Okazaki fragment processing in mitotic replication, chromosome segregation) and signaling (tyrosine kinase regulation). This suggests the cluster comprises proteins involved in broader developmental signaling coupled with cell-cycle machinery, rather than a single coherent function. ","confidence":"Medium","size":9,"edges":21,"triangles":19,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051260","count":5},{"id":"GO:0050909","count":4},{"id":"GO:0001843","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0061099","count":4}]},{"hash":"140086266408013126","title":"Developmental regulation, mitosis, and ER stress response","description":"The cluster is enriched for developmental terms (neural tube closure, skeletal system development, multicellular organism development) and cell cycle/chromatin assembly (mitotic cell cycle, CENP-A chromatin assembly). Additional GO terms point to ER-Golgi transport and stress responses (intrinsic apoptotic signaling from ER stress, cadmium response), suggesting a set of proteins coordinating development with cell division and ER-associated stress pathways rather than a single, narrow function.","confidence":"Medium","size":9,"edges":31,"triangles":55,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051260","count":6},{"id":"GO:0001843","count":5},{"id":"GO:0071276","count":5},{"id":"GO:0001501","count":5},{"id":"GO:0006888","count":5}]},{"hash":"2016758025345774993","title":"Embryonic Neurodevelopment and Organogenesis","description":"This cluster is enriched for nervous system development, axon guidance, and synapse assembly, alongside organogenesis terms like heart and skeletal system development, with supporting VEGF signaling. A few terms touch on innate immunity, but the dominant pattern links neural development with organ formation.","confidence":"Medium","size":9,"edges":12,"triangles":0,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":6},{"id":"GO:0007507","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0014068","count":5},{"id":"GO:0038091","count":4}]},{"hash":"123639759303113346","title":"DNA damage response and apoptosis","description":"This cluster is driven by core DNA maintenance processes: base-excision repair, DNA recombination, and DNA catabolic processes, along with apoptotic pathways, indicating a focus on genomic integrity and programmed cell death. Additional signals related to stress and hormone signaling (response to xenobiotic stimulus, cellular response to peptide hormone stimulus, and cellular response to cAMP) suggest coordinated cellular stress responses that modulate survival and repair outcomes.","confidence":"High","size":9,"edges":18,"triangles":13,"max_degree":7,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0007568","count":5},{"id":"GO:0006284","count":5},{"id":"GO:0006915","count":4},{"id":"GO:0071375","count":4},{"id":"GO:0006310","count":4}]},{"hash":"266370566322078337","title":"Chromosome replication and mitosis","description":"This cluster's top GO terms are dominated by DNA-templated transcription, DNA replication, mitotic cell cycle, and CENP-A containing chromatin assembly, all pointing to nuclear processes of genome duplication and chromosome segregation during cell division. Other terms like ER transport and developmental processes are less central and likely reflect peripheral annotations or multifunctional proteins, but do not undermine the core signal.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0006260","count":5},{"id":"GO:0072520","count":4},{"id":"GO:0070306","count":4},{"id":"GO:0006888","count":3}]},{"hash":"2191562956879784175","title":"Rho/Rac signaling and epithelial polarity","description":"This cluster centers on Rac and Rho GTPase signaling (Rac signal transduction; regulation of Rho signal transduction) and downstream effects on cytoskeleton organization and cell polarity, supported by terms about barrier establishment (glial/endothelial), apical/basal polarity, and apical protein localization. The inclusion of microtubule organization (astral, cortical) and transporter localization (intestinal glucose absorption) fits a cohesive theme where Rho/Rac pathways drive polarity, barrier integrity, and polarized trafficking. Overall, a coherent function is Rho/Rac-regulated polarity and barrier formation.","confidence":"High","size":9,"edges":14,"triangles":7,"max_degree":5,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0016601","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0046621","count":5},{"id":"GO:0060857","count":4},{"id":"GO:0001951","count":4}]},{"hash":"617597027197376909","title":"Neuronal migration and axon growth via Rho/cytoskeleton","description":"The top GO terms cluster around cell migration, actin cytoskeleton remodeling, and Rho signaling, with links to axon regeneration and glutamatergic synaptic transmission, pointing to cytoskeleton-driven neuronal motility and growth. Metabolic signaling and transcriptional regulation appear supportive but not defining, so the core theme centers on cytoskeletal dynamics guiding neuronal development and axon repair.","confidence":"High","size":9,"edges":13,"triangles":6,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0016477","count":6},{"id":"GO:0071333","count":5},{"id":"GO:0035249","count":5},{"id":"GO:0043065","count":5},{"id":"GO:0031532","count":5}]},{"hash":"1681221197482959442","title":"Digestive system development and coagulation","description":"Based on the prominent GO terms for digestion and digestive system development, along with coagulation/fibrinolysis and clotting-related processes (seminal clot liquefaction), the cluster seems to group proteins involved in digestive development and coagulation/remodeling. Additional signals like Wnt signaling and transcriptional regulation support a developmental context. Thus, a label combining digestive development and coagulation best fits.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007586","count":8},{"id":"GO:0042730","count":7},{"id":"GO:0045944","count":7},{"id":"GO:0055123","count":7},{"id":"GO:0035264","count":7}]},{"hash":"1097844475019117359","title":"DNA replication and cell cycle regulation","description":"The top GO terms cluster around DNA replication, DNA repair, DNA damage response, and critical cell cycle transitions (G1/S and G2/M) with checkpoints, indicating a shared role in genome maintenance and cell division; tissue development terms may reflect broader proliferative contexts rather than core function.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0006977","count":4},{"id":"GO:0006281","count":3},{"id":"GO:0051321","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1872336371358841195","title":"Broad Embryonic Organ Development","description":"The top GO terms reflect development and morphogenesis across multiple organs (pharyngeal, otic, uterus, pancreas, thyroid, parathyroid, hematopoiesis, etc.), suggesting a broad role in embryonic organogenesis rather than a single tissue-specific function.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060037","count":7},{"id":"GO:0021902","count":7},{"id":"GO:2000611","count":7},{"id":"GO:0060065","count":7},{"id":"GO:0042472","count":7}]},{"hash":"320885138358045315","title":"Unknown","description":"The top GO terms are highly heterogeneous, spanning mammalian metabolic processes (glucose homeostasis, regulation of insulin secretion), microbial processes (sporulation, cellulose catabolic process, antibiotic biosynthetic process), and vertebrate development (rhombomere morphogenesis, endodermal fate specification, hepatocyte differentiation). With no clear unifying function or interaction pattern among these terms (and no edges linking proteins), there isn\u2019t a coherent cluster-wide theme to name beyond Unknown.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042593","count":3},{"id":"GO:0050796","count":3},{"id":"GO:0030435","count":3},{"id":"GO:0030245","count":3},{"id":"GO:0017000","count":3}]},{"hash":"1379229067920308064","title":"Nuclear RNA processing and transcription termination","description":"The cluster is driven by nuclear RNA metabolism: spliceosome assembly and mRNA/tRNA/rRNA processing, RNA Pol II transcription termination, and related nuclear import and mRNA decapping/processing activities. The ABA/water-deprivation annotations likely reflect plant stress signaling that modulates gene expression, but the core theme is RNA processing and transcription control in the nucleus.","confidence":"High","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0009737","count":3},{"id":"GO:0000387","count":3},{"id":"GO:0042633","count":3},{"id":"GO:0006369","count":3},{"id":"GO:0045292","count":3}]},{"hash":"1273374834740492245","title":"T Cell Activation and Amino Acid Transport","description":"The cluster shows clear signals of immune activation, with GO terms for T cell costimulation and positive regulation of T cell proliferation. It also features several amino acid transport terms (threonine, glutamate, serine, D-aspartate) and transmembrane transport, suggesting a link between immune signaling and nutrient transport across membranes. Some adhesion and neuronal-related terms appear, but the dominant theme centers on T cell\u2013associated activation and amino acid transport.","confidence":"Medium","size":9,"edges":3,"triangles":1,"max_degree":2,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0031295","count":4},{"id":"GO:0015826","count":3},{"id":"GO:0009449","count":3},{"id":"GO:0051938","count":3},{"id":"GO:0055085","count":3}]},{"hash":"1172671281246681674","title":"Planar polarity in neural development","description":"The top GO terms cluster around planar cell polarity and neural development: establishment of planar polarity, a PCP pathway involved in axon guidance, dopaminergic neuron axon guidance, and ventral spinal cord development, with supporting adhesion-related terms. While some terms touch on broader morphogenesis such as blood vessel remodeling and bone mineralization, the PCP and axon guidance signals provide the strongest, coherent theme for this group. ","confidence":"High","size":9,"edges":25,"triangles":31,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007160","count":5},{"id":"GO:0001974","count":5},{"id":"GO:0030282","count":5},{"id":"GO:1990134","count":5},{"id":"GO:0021517","count":5}]},{"hash":"1663242604974211259","title":"Gene Expression Regulation","description":"The top GO terms point to regulation across multiple layers of gene expression: transcription control by RNA polymerase II, RNA processing/splicing, mRNA polyadenylation, and control of translation initiation and preinitiation complex formation, plus a viral-related translation term. There are also regulatory roles in metabolism and chromosome condensation, but the common thread is modulation of gene expression at transcriptional, post-transcriptional, and translational steps. This supports labeling the cluster as gene expression regulation rather than a single specific process.","confidence":"Medium","size":9,"edges":16,"triangles":10,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0001731","count":2}]},{"hash":"40144870399899303","title":"Craniofacial and sensory organ morphogenesis","description":"The top GO terms cluster around development of craniofacial structures (roof of mouth, cranial skeleton, forelimb morphogenesis) and sensory/neural components (oculomotor and trigeminal nerve formation, inner ear and cochlea morphogenesis), indicating a coherent theme of embryonic craniofacial and neural/sensory organ development.","confidence":"High","size":9,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":6},{"id":"GO:0048701","count":6},{"id":"GO:0043524","count":6},{"id":"GO:0035115","count":6},{"id":"GO:0021623","count":6}]},{"hash":"34787196816789010","title":"RNA processing and ribosome biogenesis","description":"The cluster centers on RNA processing, splicing, and RNA surveillance (spliceosome activity, TRAMP pathway, rRNA/tRNA maturation), plus mitochondrial large ribosomal subunit assembly, indicating a cohesive theme of RNA metabolism and ribosome biogenesis. A few DNA-related terms appear but are less central to the main theme.","confidence":"Medium","size":9,"edges":29,"triangles":56,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0010501","count":8},{"id":"GO:0000388","count":8},{"id":"GO:0048026","count":8},{"id":"GO:0070870","count":8},{"id":"GO:0000466","count":8}]},{"hash":"1226763917522829026","title":"Ribosome Biogenesis and Translation Machinery","description":"The cluster is strongly enriched for translation and ribosome-related processes, with GO:0006412 (translation) represented among 9 proteins and multiple ribosome biogenesis/assembly terms (GO:0042254, GO:0000027, GO:0042273) appearing twice or more. This points to a core function in ribosome assembly and protein synthesis; the few immune-related terms (interleukin-4, TNF agonist) are low-frequency and likely incidental. Overall, the dominant theme is ribosome biogenesis and translation machinery.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0006407","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0031564","count":2},{"id":"GO:0046677","count":2}]},{"hash":"10749032532964729","title":"Actin Cytoskeleton Dynamics","description":"The cluster is enriched for GO terms strongly tied to actin biology: Arp2/3 complex-mediated actin nucleation, actin cortical patch localization, and vacuole inheritance\u2014all processes that rely on actin filament organization and remodeling. Additional terms mentioning muscle fiber adaptation and meiotic chromosome movement can involve cytoskeletal rearrangements, suggesting a broader theme of cytoskeleton dynamics across contexts. While some terms reflect other biological areas, the shared thread is actin-based cytoskeleton organization and nucleation.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0016344","count":6},{"id":"GO:0043503","count":6},{"id":"GO:0030476","count":6},{"id":"GO:0021762","count":6},{"id":"GO:0002121","count":6}]},{"hash":"417614770807039788","title":"Spliceosome-mediated mRNA processing","description":"Dominant GO terms center on mRNA splicing via the spliceosome (alternative and cis splicing) and mRNA export/polyadenylation regulation, with supporting hints toward translation initiation. This cohesive set points to a cluster of proteins coordinating RNA maturation and export rather than unrelated processes.","confidence":"High","size":9,"edges":30,"triangles":53,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":6},{"id":"GO:0000380","count":6},{"id":"GO:0001731","count":5},{"id":"GO:1905663","count":5},{"id":"GO:1900363","count":5}]},{"hash":"1642111643188385048","title":"Neural development and MAPK signaling","description":"This cluster centers on neural development and synaptic signaling, with terms for dendritic spine morphogenesis and neural tube closure, and includes positive regulation of key MAPK pathways (ERK, JNK) and PI3K/AKT signaling, plus phosphorylation regulation. The cocaine-related behavioral response hints at neuronal signaling networks involved in reward, reinforcing a neural development and signaling theme.","confidence":"High","size":9,"edges":26,"triangles":35,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0048148","count":4},{"id":"GO:0060997","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0051897","count":3},{"id":"GO:0070374","count":3}]},{"hash":"1360678964525922265","title":"RNA Polymerase II Regulation and Splicing","description":"The top GO terms cluster around negative regulation of transcription by RNA polymerase II, regulation of transcription start site selection and elongation, and regulation of splicing via the spliceosome, suggesting a group of proteins that modulate transcription and RNA processing. Additional terms on protein stabilization, ubiquitin-dependent protein catabolic processes, and cell cycle regulation hint at supporting regulatory roles that connect transcription with protein turnover and cell-cycle control. Overall, the theme points to transcriptional regulation and RNA processing as the core function of this cluster.","confidence":"Medium","size":9,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:1901407","count":2},{"id":"GO:2000059","count":2},{"id":"GO:0050821","count":2},{"id":"GO:0043547","count":2}]},{"hash":"60697158588117770","title":"Rho/Rac GTPase Signaling and Lamellipodium Dynamics","description":"This cluster is dominated by GO terms for small GTPase-mediated signal transduction and regulation of Rho/Rac pathways, plus lamellipodium assembly and morphogenesis, and substrate adhesion-dependent cell spreading. These point to actin cytoskeleton remodeling and motility driven by Rho family GTPases. Other terms (insulin signaling, phagocytosis, myelin maintenance) are present but less central to the main theme.","confidence":"High","size":9,"edges":8,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0032287","count":4},{"id":"GO:2000394","count":4},{"id":"GO:0008286","count":4}]},{"hash":"379604798426969245","title":"Developmental signaling and morphogenesis","description":"This cluster centers on signaling pathways and processes that drive development and tissue morphogenesis, including neural development (neural tube closure, dendritic spine morphogenesis), Wnt and VEGF signaling, and cell movement/division aspects (spindle\u2013kinetochore attachment, leukocyte chemotaxis). While some terms are broader (stress response, nucleotide signaling), the dominant theme is developmental signaling networks guiding tissue formation and neural development. ","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":3},{"id":"GO:0051316","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0060997","count":2},{"id":"GO:0002688","count":2}]},{"hash":"1235125542033207742","title":"Axonogenesis and myelination","description":"This cluster\u2019s GO terms are dominated by neural development processes: axonogenesis, myelination, corpus callosum development, and positive regulation of synapse assembly, with signaling pathways (cell surface receptor protein tyrosine kinase signaling) that drive neurite outgrowth and connectivity. While there are a few terms related to ECM organization and metabolic processes, the strongest signal is neural development and maturation, suggesting the proteins work together in forming and insulating neural circuits. ","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0007169","count":2},{"id":"GO:0007409","count":2},{"id":"GO:0042552","count":2}]},{"hash":"1523310601236932317","title":"Nervous system development and neuromuscular organization","description":"Based on the top GO terms, the cluster centers on nervous system development and the organization of nerves and muscle structure. Axon guidance signals (semaphorin-plexin, branchiomotor neuron guidance, trigeminal nerve organization) and sarcomere/muscle contraction terms point to neuromuscular patterning. While immune-related terms appear, they seem less defining for the core theme; the dominant pattern is neural development and neuromuscular architecture.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0045087","count":4},{"id":"GO:0072643","count":4},{"id":"GO:0006936","count":4}]},{"hash":"2223222087853995607","title":"Neuronal differentiation and synaptic plasticity","description":"The cluster is dominated by GO terms tied to neuron development and synaptic regulation (e.g., striatal medium spiny neuron differentiation, dendritic spine morphogenesis, long-term synaptic depression, and positive regulation of synapse structural plasticity). These collectively point to neuronal maturation and synaptic plasticity. A few terms refer to non-neuronal processes (e.g., prostatic bud formation, notochord formation) and may reflect annotation noise, but the core signal supports a neuronal differentiation and synaptic regulation theme.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021773","count":1},{"id":"GO:0060292","count":1},{"id":"GO:2000381","count":1},{"id":"GO:0060997","count":1},{"id":"GO:0060513","count":1}]},{"hash":"99206743217509330","title":"Immune signaling and cytokine production","description":"The cluster is dominated by GO terms tied to immune signaling and cytokine regulation, including positive regulation of JNK cascade, NF-kappaB activity, cytokine and TNF production, and immunoglobulin production, along with PI3K-AKT signaling and STAT phosphorylation. This points to coordinated immune cell signaling (B and T cell\u2013related) and related apoptosis pathways, justifying a label focused on immune signaling and cytokine regulation.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0046330","count":8},{"id":"GO:0002377","count":8},{"id":"GO:0051092","count":8},{"id":"GO:0002741","count":8},{"id":"GO:0043491","count":8}]},{"hash":"1856417697016058584","title":"Mitotic chromatin organization and transcription regulation","description":"The proteins cluster around chromatin-related processes: mitotic chromosome condensation, chromatin organization, DNA topology changes, and regulation/elongation of transcription by RNA polymerase II, plus related events like rDNA heterochromatin formation and embryonic cleavage, indicating a cohesive role in chromatin management during cell division and transcription control.","confidence":"High","size":9,"edges":31,"triangles":55,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007076","count":2},{"id":"GO:0032922","count":1},{"id":"GO:0006368","count":1},{"id":"GO:0007097","count":1},{"id":"GO:0000183","count":1}]},{"hash":"589193477782690293","title":"Glial and Neural Development","description":"The GO terms cluster around glial and neural development: Schwann cell proliferation, peripheral nervous system axon regeneration, astrocyte development, and Bergmann glial cell differentiation suggest a shared neural lineage; hair cycle and keratinocyte-related terms are present but appear peripheral, indicating a secondary association rather than core function.","confidence":"Medium","size":9,"edges":17,"triangles":14,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0010625","count":4},{"id":"GO:0042633","count":4},{"id":"GO:0014012","count":4},{"id":"GO:0051546","count":4},{"id":"GO:0014002","count":4}]},{"hash":"216192297245687816","title":"Unknown","description":"The top terms split into two distinct themes: GABA/glycine receptor clustering (neuronal receptor organization) and molybdenum cofactor biosynthesis/metal incorporation (metabolic cofactor pathways). There isn\u2019t a single coherent function that ties these together across the nine proteins, so a specific, representative label cannot be confidently assigned.","confidence":"","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0097112","count":8},{"id":"GO:0006777","count":8},{"id":"GO:0072579","count":8},{"id":"GO:0018315","count":8},{"id":"GO:0032324","count":8}]},{"hash":"476462936979713966","title":"Immune response and leukocyte trafficking","description":"The top terms show a strong immune/inflammatory signal: defense against Gram-positive bacteria, acute-phase response, and T cell activation. Additionally, several terms relate to cell adhesion and movement (extravasation, integrin signaling, heterotypic adhesion, hyaluronan metabolism), pointing to leukocyte trafficking during inflammation as the cohesive theme. Some terms (CNS development, endoderm differentiation) are peripheral but do not override the dominant immune/adhesion pattern.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0007417","count":3},{"id":"GO:1905050","count":2},{"id":"GO:0045123","count":2},{"id":"GO:0035987","count":2}]},{"hash":"1111946804271524981","title":"Neuronal plasticity and spine morphogenesis","description":"The cluster\u2019s top GO terms cluster around neuronal synaptic function: dendritic spine morphogenesis, long-term synaptic plasticity, and actin/cortex remodeling with endocytosis, all indicative of synaptic remodeling and plasticity. While there are additional terms (e.g., apoptotic processes, heart development, T cell signaling), the strongest coherent theme is neuronal synaptic plasticity and spine organization.","confidence":"Medium","size":9,"edges":24,"triangles":30,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":6},{"id":"GO:0006897","count":5},{"id":"GO:0000147","count":5},{"id":"GO:0006919","count":4},{"id":"GO:0060997","count":3}]},{"hash":"686906262376870770","title":"Vertebrate embryonic organ morphogenesis","description":"This cluster centers on embryonic development and morphogenesis across multiple tissues (heart, endocardium, left-right patterning, cartilage, inner ear, placenta), indicating a broad theme of vertebrate organ formation rather than a single pathway.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0060806","count":3}]},{"hash":"1098772530449660018","title":"Rho/PKC Cytoskeletal Signaling","description":"The top terms center on actin cytoskeleton remodeling, Rho signaling, thrombin receptor signaling, and PKC pathways, pointing to a core role in signaling that governs cytoskeletal dynamics. Immune and neural context terms (NK differentiation, TNF signaling, glial proliferation) suggest broader involvement in signaling networks, but the dominant theme remains cytoskeletal regulation via Rho and PKC pathways.","confidence":"High","size":9,"edges":16,"triangles":20,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0031532","count":6},{"id":"GO:0070493","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0070528","count":5},{"id":"GO:0032825","count":5}]},{"hash":"1067113225771678408","title":"Chromatin remodeling and RNA processing","description":"The GO terms show a core emphasis on nuclear processes: alternative mRNA splicing via the spliceosome, subtelomeric heterochromatin formation, nucleosome disassembly, and replication-born double-strand break repair via SCE. These point to chromatin dynamics, RNA processing, and genome maintenance. The remaining terms relate to regulation of development and hormone-related processes, which may reflect broader regulatory context but do not override the central theme. Overall, a cohesive label is chromatin remodeling and RNA processing.","confidence":"Medium","size":9,"edges":28,"triangles":41,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000380","count":2},{"id":"GO:0035390","count":1},{"id":"GO:0046886","count":1},{"id":"GO:1904911","count":1},{"id":"GO:0080113","count":1}]},{"hash":"1364350608448068415","title":"Developmental Wnt Signaling and Neural Migration","description":"The terms cluster around Wnt signaling pathways related to mesenchymal/osteoblast differentiation, axis specification, and organogenesis, and around neural development processes such as neuroblast, interneuron, motor and sensory neuron migration and axon guidance. This combination points to a cohesive function: Wnt-mediated development coordinating neural migration and tissue patterning.","confidence":"High","size":9,"edges":30,"triangles":49,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0044339","count":4},{"id":"GO:0097402","count":4},{"id":"GO:1905485","count":4},{"id":"GO:0002053","count":4},{"id":"GO:0008595","count":4}]},{"hash":"525120728156287148","title":"Unknown","description":"The top GO terms are highly diverse, including neuronal signaling (response to amphetamine; dopamine uptake regulation; acetylcholine signaling) alongside unrelated processes (ovarian follicle growth, IgA isotype switching, midgut development, inflammatory regulation, vasoconstriction). There isn\u2019t a single cohesive biological theme tying all proteins together, so a confident, representative cluster label cannot be assigned.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":9},{"id":"GO:0007497","count":9},{"id":"GO:0050728","count":9},{"id":"GO:1901652","count":9},{"id":"GO:0051586","count":9}]},{"hash":"1221546237183319636","title":"ECM and Vascular Remodeling","description":"Reasoning: The strongest signals are collagen fibril organization and vasculature development/regulation (collagen fibril organization, glomerulus vasculature development, negative regulation of vascular permeability), pointing to extracellular matrix remodeling and blood vessel formation. Fibrinolysis and protein secretion/polymerization support ECM assembly and turnover, while peripheral nervous system axon regeneration suggests remodeling in a tissue context. A complement pathway term and triglyceride homeostasis indicate ancillary immune/metabolic cues in the vascular/ECM environment, but overall the cluster centers on ECM-associated vascular remodeling.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":7},{"id":"GO:0001867","count":7},{"id":"GO:0042730","count":6},{"id":"GO:0043537","count":6},{"id":"GO:0072012","count":6}]},{"hash":"66001149941318822","title":"Purkinje Neuron Differentiation and Neuroprotection","description":"The top GO terms point to cerebellar Purkinje cell differentiation (GO:0021702) and neuronal signaling, such as response to L-glutamate (GO:1902065). Several terms describe negative regulation of signaling and apoptosis pathways, including negative regulation of endoplasmic reticulum\u2013stress\u2013induced intrinsic and extrinsic apoptotic signaling, and negative regulation of calcium ion transport into the cytosol, suggesting mechanisms to modulate calcium signaling and promote neuron survival. Taken together, the cluster appears to represent proteins involved in cerebellar neuron differentiation with neuroprotective regulation of signaling and apoptosis.","confidence":"High","size":9,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0021702","count":2},{"id":"GO:0090005","count":2},{"id":"GO:1902065","count":2},{"id":"GO:1990441","count":2},{"id":"GO:0060702","count":2}]},{"hash":"1838580097514704405","title":"MAPK signaling and developmental processes","description":"This cluster centers on the ERK1/ERK2 cascade (MAPK signaling) as indicated by the positive regulation of the ERK1/ERK2 cascade, and includes several development-related terms (heart development, posterior midgut development, primary ovarian follicle growth). It also contains terms tied to neural signaling (dopamine uptake, acetylcholine metabolic regulation) and immune modulation (defense response to bacterium, negative regulation of inflammatory response) that can be connected via signaling networks. The common thread appears to be signaling pathways that influence development and neural/immune function across tissues, hence a MAPK-signaling\u2013centred development label. ","confidence":"Medium","size":9,"edges":28,"triangles":40,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042742","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0001975","count":5},{"id":"GO:0007497","count":5}]},{"hash":"1187230594490078857","title":"Craniofacial and neural crest morphogenesis","description":"Based on the list of GO terms, the dominant themes are embryonic morphogenesis and development of craniofacial structures and neural crest derivatives (e.g., neural crest cell migration, pharyngeal system, roof of mouth, dorsal spinal cord, and midbrain-hindbrain boundary development). Although a single term per term is present, the cluster collectively points to vertebrate craniofacial/neural crest patterning processes rather than generic cellular functions, justifying this label.","confidence":"Medium","size":9,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090103","count":1},{"id":"GO:0042733","count":1},{"id":"GO:0060021","count":1},{"id":"GO:0048048","count":1},{"id":"GO:0030917","count":1}]},{"hash":"1426920657944474205","title":"Vision-related neural signaling","description":"This cluster centers on terms tied to vision and sensory perception (retina development, visual perception) and neural signaling (locomotory behavior, GPCR signaling). While there are broader developmental terms (heart, gut) that suggest wider roles, the strongest signal is vision and neural signaling, with GPCR pathways supporting sensory processing. Confidence: Medium","confidence":"","size":9,"edges":13,"triangles":10,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007626","count":4},{"id":"GO:0060041","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0022900","count":4}]},{"hash":"281455002877035330","title":"Innate immune activation and inflammatory signaling","description":"The dominant GO terms point to innate immunity and inflammation: complement activation via the lectin pathway, basophil activation, Fc-gamma receptor signaling, response to fungal origin, arachidonate secretion, and regulation of adhesion molecule production. A few terms related to development appear as noise, but the core signature is immune activation. ","confidence":"High","size":9,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":9},{"id":"GO:0045575","count":8},{"id":"GO:0038094","count":8},{"id":"GO:0090403","count":8},{"id":"GO:0071226","count":8}]},{"hash":"1277406316891230736","title":"Cardiac Ion Homeostasis and Electrophysiology","description":"This cluster is driven by terms linked to cardiac stress responses, ventricular action potential regulation, and ion handling (magnesium, potassium, manganese), plus cGMP signaling. While some terms (cerebellar development, brown fat differentiation, mechanosensation) appear peripheral, the strongest signals point to cardiac ion homeostasis and electrical signaling under stress.","confidence":"Medium","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903244","count":9},{"id":"GO:0010961","count":8},{"id":"GO:1903444","count":8},{"id":"GO:0021679","count":8},{"id":"GO:0098911","count":8}]},{"hash":"1449950925608741722","title":"T cell activation and inflammatory signaling","description":"The cluster is dominated by GO terms related to T cell receptor signaling and cytokine production (IL-2, IL-5), monocyte differentiation, and inflammatory responses (LPS response, vascular permeability). Calcium signaling terms (SR calcium release) tie into activation processes and vascular changes during immune responses. Collectively, these proteins appear to participate in immune activation and inflammatory signaling rather than a muscle-specific role.","confidence":"High","size":8,"edges":20,"triangles":19,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0032743","count":5},{"id":"GO:0050852","count":5},{"id":"GO:0097011","count":5},{"id":"GO:0086004","count":5},{"id":"GO:0030224","count":5}]},{"hash":"804936496546970963","title":"Motor neuron development and neuromuscular signaling","description":"This cluster is enriched for terms tied to nervous system development and function, including somatic motor neuron differentiation, neurofilament cytoskeleton organization, glutamate reuptake, and musculoskeletal movement, suggesting a cohesive theme of motor neuron development and neuronal signaling supporting muscle activity. Some other terms (collagen biosynthesis, ceramide biosynthetic process) may reflect broader metabolic or membrane lipid roles, but the neuron-related terms provide the strongest unifying thread.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0032933","count":2},{"id":"GO:0032964","count":2},{"id":"GO:0060052","count":2},{"id":"GO:0051935","count":2},{"id":"GO:0046513","count":2}]},{"hash":"1357981455352744913","title":"Neuronal synaptic vesicle trafficking","description":"The top GO terms cluster around synaptic vesicle cycling and intracellular transport in neurons (synaptic vesicle recycling, endocytosis, anterograde/retrograde transport) and related endomembrane trafficking. The presence of cerebellar Purkinje cell layer maturation and adult locomotory behavior suggests a neuronal development/function context, supporting a neuron- and synapse-focused transport theme. Pigmentation and endosome-to-melanosome transport extend to vesicle trafficking in organelles but fit under the broad vesicle transport umbrella.","confidence":"High","size":8,"edges":18,"triangles":21,"max_degree":7,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0036465","count":5},{"id":"GO:0006886","count":5},{"id":"GO:0021691","count":5},{"id":"GO:0008344","count":5},{"id":"GO:0035646","count":5}]},{"hash":"2040041784437266482","title":"Actin-driven developmental morphogenesis","description":"This cluster highlights morphogenetic processes (neural tube closure, salivary gland morphogenesis, epithelial migration) and cytoskeletal remodeling (formin-nucleated actin cable assembly, muscle thin filament assembly, ruffle formation), indicating a cohesive role in actin-mediated tissue shaping during development. While some terms reference transcriptional regulation and DNA metabolism, the dominant signal points to cytoskeleton-guided morphogenesis.","confidence":"Medium","size":8,"edges":18,"triangles":18,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001843","count":5},{"id":"GO:0010632","count":4},{"id":"GO:0007436","count":4},{"id":"GO:0045944","count":4},{"id":"GO:0090338","count":4}]},{"hash":"1784009156200617691","title":"Innate Immunity and NF-\u03baB Signaling","description":"The cluster centers on innate immune response and macrophage activation, with multiple GO terms describing NF-\u03baB pathway regulation (canonical and non-canonical) and cytokine production (IL-18, IL-8, IFN-\u03b2). This points to a cohesive group of proteins involved in initiating and modulating inflammatory signaling via NF-\u03baB pathways. The brassinosteroid stimulus term is likely non-specific/annotation noise in this context. ","confidence":"High","size":8,"edges":13,"triangles":7,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0009729","count":6},{"id":"GO:0070373","count":6},{"id":"GO:0042116","count":6},{"id":"GO:0051770","count":6},{"id":"GO:0045087","count":6}]},{"hash":"713648274888665024","title":"Glycoprotein maturation and ERAD","description":"The GO terms cluster around N-glycan trimming and degradation via ER-associated pathways, including Golgi and ERAD components, indicating a shared role in glycoprotein maturation and quality control in the secretory pathway. A minor innate immune signal is present but does not define the cluster\u2019s main function.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0006486","count":1},{"id":"GO:1904381","count":1},{"id":"GO:1904154","count":1},{"id":"GO:0036510","count":1}]},{"hash":"2062562267997469727","title":"Cardiac conduction and mechanosensing","description":"The top GO terms cluster around heart electrical activity and mechanotransduction: positive regulation of membrane depolarization in cardiac action potentials and SA node-to-atrial conduction, plus cellular responses and detection of mechanical stimuli. While there are some adipose differentiation and foam cell terms present, the dominant signal points to cardiac electrophysiology and mechanosensitive signaling, suggesting a theme of heart-related signaling rather than a general metabolic or immune role.","confidence":"Medium","size":8,"edges":10,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007253","count":2},{"id":"GO:1900827","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0086070","count":2},{"id":"GO:0071260","count":2}]},{"hash":"1687679210118865657","title":"Cardiac Electrical Activity and Mechanical Response","description":"The cluster is dominated by GO terms related to cardiac electrophysiology: regulation of membrane depolarization during cardiac action potential, SA node cell signaling, electrical coupling, and responses to mechanical stimuli like muscle stretch. These points, taken together, suggest proteins involved in cardiac electrical activity and mechano-electrical coupling, with a few peripheral terms that may reflect broader or cross-tissue annotations but do not overshadow the main cardiac theme.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900827","count":2},{"id":"GO:0086070","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0072660","count":2},{"id":"GO:0048709","count":2}]},{"hash":"2241247404283354436","title":"Eye and sensory organ development","description":"The top GO terms cluster around development of sensory organs, especially eye/antenna-related structures (lens fiber cell differentiation, compound eye photoreceptor development, antennal development) and transcriptional regulation, suggesting proteins function together in sensory-organ developmental programs. Other terms like DNA-templated transcription appear more general but do not override the eye/antenna development signal.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0070306","count":2},{"id":"GO:0001845","count":2},{"id":"GO:0006355","count":1},{"id":"GO:0007469","count":1}]},{"hash":"1015652890868504280","title":"T cell receptor and NF-\u03baB signaling","description":"Enrichment for T cell receptor signaling, NF-\u03baB\u2013related, TNF and Fc\u03b5R pathways indicates a cluster centered on immune receptor signaling and inflammatory response; ubiquitin-proteasome turnover and Wnt regulation appear as supporting regulatory layers.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":6},{"id":"GO:0090090","count":6},{"id":"GO:0051436","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0031146","count":5}]},{"hash":"757415289807054046","title":"mRNA processing, export, and translation initiation","description":"The dominant terms point to mRNA metabolism: oskar mRNA localization, poly(A) tail regulation, spliceosome-mediated splicing, mRNA export, and assembly of the translation preinitiation complex, with hypoxia/ischemia responses suggesting stress-linked regulation.","confidence":"High","size":8,"edges":22,"triangles":31,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045451","count":6},{"id":"GO:0060213","count":6},{"id":"GO:0001731","count":5},{"id":"GO:1905663","count":5},{"id":"GO:1900363","count":5}]},{"hash":"1991008097549532092","title":"Immune differentiation and cytokine signaling","description":"The top GO terms cluster around immune cell development and cytokine production (e.g., T-helper 17 lineage commitment, neutrophil differentiation, IL-13 production, interferon-\u03b1 production) plus transcriptional regulation (DNA-templated transcription, histone acetylation). This suggests a coherent theme of immune cell differentiation and cytokine signaling, with gene expression regulation underpinning these processes. Therefore the label reflects the apparent function of this protein group.","confidence":"Medium","size":8,"edges":14,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0043966","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0045368","count":1},{"id":"GO:1902037","count":1}]},{"hash":"1904857223327467762","title":"T cell signaling and immune development","description":"The top GO terms cluster around immune signaling (regulation of JNK cascade, T cell receptor signaling, thymus development, B cell differentiation, TLR2 signaling) and development/stress pathways (retinoic acid response, ER stress-induced apoptotic signaling, small GTPase signaling), suggesting a group of proteins involved in immune cell signaling with developmental regulation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046328","count":5},{"id":"GO:0048538","count":5},{"id":"GO:0050852","count":5},{"id":"GO:2000821","count":5},{"id":"GO:0007264","count":4}]},{"hash":"1075329510185307306","title":"Embryonic Organ Morphogenesis","description":"This cluster is enriched for developmental and morphogenetic GO terms across multiple organs\u2014neural crest migration, endocrine pancreas development, ureteric bud branching morphogenesis, embryonic digestive tract morphogenesis, intrahepatic bile duct development, spleen development, and midbrain development\u2014pointing to a broad role in embryonic organ formation. The presence of transcriptional regulation (negative regulation of transcription by RNA polymerase II) further supports a developmental control function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0001755","count":4},{"id":"GO:0031018","count":4},{"id":"GO:0090190","count":4},{"id":"GO:0048557","count":4}]},{"hash":"285489781658534798","title":"Cardiac-Immune Development","description":"The cluster shows a mix of cardiovascular-related terms (heart development, cardiac muscle contraction) and immune/hematopoietic processes (NK T cell differentiation, B cell affinity maturation, hemopoiesis, cytokine signaling like IL-7 and IL-4 production), along with related signaling (insulin receptor signaling) and cell migration. This pattern points to a module bridging cardiac development/function with immune and hematopoietic signaling, rather than a single narrow function.","confidence":"Medium","size":8,"edges":8,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0098761","count":4},{"id":"GO:0001865","count":4},{"id":"GO:0032633","count":4},{"id":"GO:0016477","count":4}]},{"hash":"911893382264403964","title":"Endosomal Sorting and Vacuolar Transport","description":"The dominant GO terms point to intracellular vesicle trafficking, including Golgi-to-endosome transport, endocytosis, and multivesicular body sorting, plus targeting of proteins to the vacuole. This suggests a cohesive role in endosomal sorting and delivery to lysosome-like compartments, with minor terms likely species-specific noise.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006895","count":5},{"id":"GO:0006886","count":4},{"id":"GO:0032511","count":4},{"id":"GO:0007565","count":4},{"id":"GO:0006897","count":4}]},{"hash":"1723565436298873687","title":"RNA processing and spliceosome activity","description":"These proteins cluster around RNA processing: several GO terms point to spliceosome-dependent mRNA splicing, spliceosome conformational changes, and maturation of rRNA, with additional hints from regulatory ncRNA\u2013mediated silencing and TRAMP-dependent RNA surveillance. The pattern suggests a cohesive function in nuclear RNA processing and quality control, with potential developmental regulation through RNA pathways.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048026","count":3},{"id":"GO:0048701","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0010501","count":2}]},{"hash":"1997757085645172690","title":"Developmental signaling and cytoskeletal dynamics","description":"These proteins show GO terms spanning neural development (neural tube closure, dendritic spine morphogenesis), cell division/cytoskeleton (spindle-kinetochore attachment, DNA damage checkpoint), and broad signaling (VEGF, Wnt), plus cell migration (leukocyte chemotaxis) and stress responses (autophagy regulation, Ap4A biosynthesis). The common thread is signaling linked to cytoskeletal remodeling and cellular movement during development and related processes. Confidence: Medium","confidence":"","size":8,"edges":7,"triangles":1,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051316","count":8},{"id":"GO:0001843","count":8},{"id":"GO:0060997","count":8},{"id":"GO:0002688","count":8},{"id":"GO:0048010","count":8}]},{"hash":"563021066103215828","title":"Cardiac development and BMP/SMAD signaling","description":"The top GO terms are centered on heart morphogenesis (atrioventricular canal development, ventricular septum morphogenesis, outflow tract morphogenesis, pericardium development) and SMAD/BMP signaling, with additional transcriptional regulation, indicating a coherent theme of cardiac development governed by BMP/SMAD pathways. Some craniofacial terms appear but most signals point to heart formation and its regulatory signaling network.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0060039","count":5},{"id":"GO:0060395","count":5},{"id":"GO:0036302","count":5},{"id":"GO:0060412","count":5}]},{"hash":"1033505023419756916","title":"Developmental signaling inhibitors and progenitor differentiation","description":"The GO terms point to negative regulation of BMP, activin receptor, Wnt, and PI3K/Akt signaling, coupled with regulation of myeloid/lymphoid progenitor differentiation, CNS development, and angiogenesis. This suggests a cohesive theme of dampening key developmental signaling pathways to control lineage specification and vascular development.","confidence":"High","size":8,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030514","count":4},{"id":"GO:0007417","count":4},{"id":"GO:0032926","count":4},{"id":"GO:0051898","count":4},{"id":"GO:1905453","count":4}]},{"hash":"1428848932559218710","title":"Calcium signaling and NFAT regulation","description":"The strongest signals are cellular response to calcium and positive regulation of the calcineurin-NFAT signaling cascade, implying a calcium-dependent regulatory core. This pathway broadly influences differentiation in tissues like atrial cardiac muscle and nephron tubule epithelium, which aligns with several GO terms in the cluster. Some terms (e.g., miRNA silencing, sulfur oxidation, haltere morphogenesis) seem less connected and may reflect peripheral functions or noise, but the calcium/NFAT theme provides a coherent core. ","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2000637","count":6},{"id":"GO:0071277","count":5},{"id":"GO:0010801","count":5},{"id":"GO:0070886","count":5},{"id":"GO:0070560","count":4}]},{"hash":"530191009840317112","title":"Endoplasmic Reticulum UPR and Vesicle Trafficking","description":"The proteins show strong linkage to ER function, including ER unfolded protein response, ER localization, and COPII vesicle budding, along with ER-calcium homeostasis, indicating a cohesive theme of ER stress response and ER-to-Golgi trafficking (with some host-virus interaction terms present as secondary associations).","confidence":"High","size":8,"edges":9,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006874","count":2},{"id":"GO:0090114","count":2},{"id":"GO:0060304","count":2},{"id":"GO:0044828","count":2},{"id":"GO:0006987","count":2}]},{"hash":"862770631107091418","title":"Early embryonic development and chromatin remodeling","description":"This cluster centers on processes typical of early development and chromatin control: neural tube formation and brain ventricle development, embryonic hematopoiesis, and regulation of estradiol, paired with epigenetic modifications (histone demethylation and methylation) and cell division components (mitotic transition and microtubule polymerization). The dominant pattern suggests a module of proteins coordinating chromatin state with developmental events and cell division in the embryo. Some terms appear more general or hormonal, but the overarching theme is embryonic development linked to chromatin remodeling.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":2},{"id":"GO:0045842","count":2},{"id":"GO:0035574","count":1},{"id":"GO:0021592","count":1},{"id":"GO:0046785","count":1}]},{"hash":"857457254774883407","title":"Embryonic development and cell adhesion signaling","description":"This cluster centers on developmental morphogenesis and patterning (optic vesicle morphogenesis, notochord formation, embryonic pattern specification) with emphasis on cell-adhesion and signaling (regulation of integrin-mediated adhesion, focal adhesion assembly, tyrosine phosphorylation). Immune-related terms (T cell proliferation/co-stimulation) are present but likely reflect shared signaling pathways rather than a primary theme. Overall, the developmental and adhesion signaling connection is the most cohesive explanation.","confidence":"Medium","size":8,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0033628","count":1},{"id":"GO:0061002","count":1},{"id":"GO:0042102","count":1},{"id":"GO:0051893","count":1},{"id":"GO:0003404","count":1}]},{"hash":"2117047215994046786","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0048541","count":7},{"id":"GO:0016310","count":7},{"id":"GO:0046328","count":7},{"id":"GO:0035641","count":7},{"id":"GO:0046037","count":7}]},{"hash":"407534860593250366","title":"Mitotic cell cycle and APC-dependent degradation","description":"This cluster is dominated by GO terms tied to mitosis and regulated proteolysis, notably mitotic cell cycle, cell division, and APC-dependent catabolic process, implying roles in progression through mitosis and targeted degradation of mitotic regulators. Additional terms point to cilium-related processes and nucleolar ribonucleoprotein assembly, suggesting links between cell cycle control, centrosome/cilium dynamics, and ribosome biogenesis, with some stress-related responses (cadmium, innate immunity) present but less central. Overall, the strongest theme is mitotic regulation and APC-mediated proteolysis.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0000492","count":4},{"id":"GO:0071276","count":3},{"id":"GO:2001162","count":3}]},{"hash":"2175717911126047574","title":"Spliceosome-driven mRNA processing and export","description":"The top GO terms concentrate on mRNA maturation and processing, especially splicing via the spliceosome (cis and via-spliceosome) and mRNA export from the nucleus, with additional signals related to regulation of splicing. A translation initiation complex formation term appears but is secondary, suggesting these proteins primarily participate in RNA processing and export rather than translation alone. This supports labeling the cluster as a spliceosome/mRNA processing module.","confidence":"High","size":8,"edges":24,"triangles":38,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":7},{"id":"GO:1905663","count":7},{"id":"GO:1900363","count":7},{"id":"GO:0048026","count":7},{"id":"GO:0006406","count":7}]},{"hash":"1128814230814707137","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":21,"triangles":26,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0010610","count":3},{"id":"GO:0009737","count":2},{"id":"GO:0010976","count":2},{"id":"GO:0000380","count":2},{"id":"GO:0040027","count":2}]},{"hash":"1352198854584721408","title":"Osteoblast differentiation and cytoskeleton signaling","description":"This cluster centers on bone formation and cytoskeletal dynamics, with strong signals for osteoblast differentiation and skeletal system development, plus regulation of actin cytoskeleton and stress fiber assembly. Additional terms like JNK signaling, prostaglandin response, and hyaluronan metabolism support a coordinated signaling and extracellular matrix remodeling environment typical of osteoblast activity, while centrosome duplication and cyclic nucleotide biosynthesis reflect broader cell-cycle and signaling contexts. Overall, the data point to a cohesive theme of osteoblast function linked to cytoskeleton remodeling.","confidence":"Medium","size":8,"edges":24,"triangles":36,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0046330","count":4},{"id":"GO:0045667","count":4},{"id":"GO:0001501","count":4},{"id":"GO:0009190","count":4},{"id":"GO:0035249","count":4}]},{"hash":"1966218112769728454","title":"Membrane-Localized Signaling","description":"The cluster ties together GO terms focused on signaling processes and membrane-related localization/organization (PKC signaling; membrane raft localization; cadherin-mediated adhesion; dopaminergic synaptic regulation; IL-2 production and T cell polarity; SREBP signaling; cholesterol biosynthesis regulation; mitochondrial inner membrane organization). This broad, cross-context signaling theme suggests a general function in coordinating signals at membranes rather than a single pathway, hence the name.","confidence":"Medium","size":8,"edges":21,"triangles":26,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0070528","count":1},{"id":"GO:0032623","count":1},{"id":"GO:1903044","count":1},{"id":"GO:0032226","count":1},{"id":"GO:1903905","count":1}]},{"hash":"203655825857055504","title":"Unknown","description":"The GO terms include neural signaling (positive regulation of synapse structural plasticity; ephrin receptor signaling), vascular/retina-related processes (endothelial tube lumen extension; retina development), plant-specific development (guard cell morphogenesis), and several metabolic pathways, with no clear single function tying all proteins together. The lack of a cohesive functional theme and no edges among proteins suggest this cluster does not map to a unified biological role. ","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051835","count":2},{"id":"GO:0048013","count":2},{"id":"GO:0097498","count":2},{"id":"GO:0006071","count":2},{"id":"GO:0034478","count":2}]},{"hash":"2091397980366918933","title":"Innate Immune Signaling and Xenophagy","description":"The cluster centers on innate immune pathways and pathogen-responsive processes, including innate immune response, NF-kappaB signaling, dsRNA sensing, LPS signaling, interferon-beta and cytokine production, and xenophagy. These terms together indicate a cohesive module of immune signaling and autophagic defense against pathogens, with microtubule-related localization possibly reflecting transport of immune or autophagy machinery. Overall, the name captures the dominant functional theme without overreaching into unrelated areas.","confidence":"High","size":8,"edges":6,"triangles":2,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0051092","count":7},{"id":"GO:1904417","count":7},{"id":"GO:0031663","count":7},{"id":"GO:0043330","count":7}]},{"hash":"2167737337509616349","title":"Neural development and sensory synapse regulation","description":"Most terms converge on neural development and sensory signaling: synapse organization, dendritic spine regulation, and mechanosensory detection in hearing. Ion transport (sodium/potassium) supports neuronal excitability, reinforcing a neural-centric theme. A couple of terms about broader organ development may reflect annotation breadth, but the dominant signal is neural development and synaptic remodeling.","confidence":"High","size":8,"edges":6,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030324","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0050808","count":2},{"id":"GO:0001822","count":2}]},{"hash":"280280746405459760","title":"GTPase-driven signaling networks","description":"The cluster centers on activation of GTPases and receptor-mediated signaling, including Ral signaling and GPCR/RTK pathways (insulin-like growth factor receptor signaling, thrombin-activated receptor signaling), with T cell activation represented as part of immune signaling. While some terms touch on development and metabolism (midbrain morphogenesis, fatty acid oxidation), the dominant theme is small GTPase\u2013 and receptor-mediated signaling cascades. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":3},{"id":"GO:0048009","count":2},{"id":"GO:0002291","count":2},{"id":"GO:0030033","count":2},{"id":"GO:0007205","count":2}]},{"hash":"1809698557289390864","title":"ECM Remodeling and Cell Migration","description":"The cluster is enriched for extracellular matrix remodeling and cell adhesion/migration processes: collagen fibril organization, proteolysis, integrin signaling, substrate adhesion-dependent spreading, and Notch processing, together with fibroblast and smooth muscle migration and keratinocyte differentiation. The inclusion of TNF response and neutrophil extravasation also links to inflammation that accompanies tissue remodeling.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":5},{"id":"GO:0034612","count":4},{"id":"GO:0010763","count":4},{"id":"GO:0030199","count":4},{"id":"GO:0007229","count":4}]},{"hash":"1359926494062907427","title":"Cerebellar development and learning-related synaptic plasticity","description":"This cluster centers on neural development and plasticity tied to learning and sensory processing: cerebellar granule cell differentiation, long-term synaptic depression, and synaptic vesicle regulation point to cerebellar maturation and modulation of synaptic strength, while terms like olfactory learning, conditioned taste aversion, and forward locomotion reflect learned behaviors and movement. The combination suggests a cohesive theme of cerebellar development supporting learning and sensory-mensory integration.","confidence":"High","size":8,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0021707","count":8},{"id":"GO:0031631","count":7},{"id":"GO:0001975","count":7},{"id":"GO:0060292","count":7},{"id":"GO:0001661","count":7}]},{"hash":"843386079342019859","title":"Neural development and synapse assembly","description":"The cluster\u2019s strongest GO terms center on nervous system development and synapse assembly, plus cell-cell adhesion, suggesting a set of proteins involved in neural connectivity and synaptic organization. While there are additional terms related to bone ossification and carbohydrate metabolism, these appear less dominant, indicating that neural development and adhesion/synapse formation are the core themes. Confidence is high that this label captures the main function of the cluster.","confidence":"High","size":8,"edges":6,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000023","count":3},{"id":"GO:0007399","count":2},{"id":"GO:0007156","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0051965","count":2}]},{"hash":"184993773640294599","title":"Ribosome biogenesis and translation","description":"These proteins cluster around ribosome-related processes: nuclear export of the large subunit, cytoplasmic translation, small subunit biogenesis, and tRNA modification, pointing to core roles in ribosome assembly and protein synthesis. Some cell-cycle related terms are present, likely reflecting growth coordination, but the dominant theme is ribosome function. ","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000055","count":8},{"id":"GO:0039707","count":8},{"id":"GO:0051301","count":8},{"id":"GO:0006007","count":8},{"id":"GO:0090529","count":8}]},{"hash":"1281240546875336046","title":"Mitochondrial transport and membrane dynamics","description":"The top GO terms show a clear emphasis on mitochondrial transport across membranes (ADP, manganese, thiosulfate, ornithine) together with membrane remodeling activities (fission, permeability) and related stress/apoptotic responses (superoxide, apoptotic mitochondrial changes). This combination points to a cohesive mitochondrial transport/dynamics module rather than a single substrate function, justifying a label focused on mitochondrial transport and membrane dynamics.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0015709","count":7},{"id":"GO:0015866","count":7},{"id":"GO:0007565","count":7},{"id":"GO:0000066","count":7},{"id":"GO:0000303","count":7}]},{"hash":"1602860616520407229","title":"Neural ion transport and brain development","description":"This cluster combines multiple ion transport terms (bicarbonate, chloride, borate, and fluid transport) with neural development signals (brain morphogenesis, pyramidal neuron development, and related behaviors), suggesting a group of proteins involved in neural ion homeostasis that supports brain growth and function.","confidence":"High","size":8,"edges":12,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0015701","count":7},{"id":"GO:0048854","count":7},{"id":"GO:0035641","count":7},{"id":"GO:0035445","count":7},{"id":"GO:1902476","count":7}]},{"hash":"2150518839139220935","title":"Mammary Gland Morphogenesis and Remodeling","description":"The top GO terms cluster around hormone-responsive mammary development: branching morphogenesis of the mammary duct, cellular responses to peptide hormones/FSH, angiogenesis, cell-matrix adhesion, and controlled apoptosis and proliferation, with lipid metabolism supporting energy and membrane synthesis during tissue remodeling.","confidence":"Medium","size":7,"edges":13,"triangles":7,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071375","count":2},{"id":"GO:0006695","count":2},{"id":"GO:0071372","count":2},{"id":"GO:0019395","count":2},{"id":"GO:0009636","count":2}]},{"hash":"1352336100456528554","title":"Hormone-Growth Factor Signaling and Proliferation Control","description":"This cluster is dominated by GO terms related to signaling pathways driven by hormones and growth factors (hepatocyte growth factor receptor signaling, leptin signaling, positive regulation of stem cell proliferation, oocyte maturation, and modulation of cAMP/PKA activity), as well as related metabolic regulation (glucose import). While base-excision repair appears as an outlier, the central theme ties to how growth-factor\u2013 and hormone-mediated signals regulate cell proliferation and metabolism.","confidence":"Medium","size":7,"edges":15,"triangles":13,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006284","count":3},{"id":"GO:0048012","count":2},{"id":"GO:2000655","count":2},{"id":"GO:0046325","count":2},{"id":"GO:0033210","count":2}]},{"hash":"1399581436635061858","title":"Glycolysis and TCA Cycle Core","description":"Predominant GO terms indicate glycolysis, glucose metabolism, and the TCA cycle, including pyruvate to acetyl-CoA, suggesting these proteins share a central energy-producing metabolic role. A few terms about xenobiotic response and neural development appear but are less representative of the cluster's main function; overall the cluster is best described as central carbon metabolism.","confidence":"Medium","size":7,"edges":16,"triangles":16,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006096","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0006099","count":3},{"id":"GO:0006006","count":3},{"id":"GO:0006086","count":2}]},{"hash":"745787216934680395","title":"Stress-Response and Innate Immune Signaling","description":"The top GO terms center on innate immunity and cytokine signaling, plus responses to ischemia, mechanical stress, and nutrient cues, with regulatory ties to apoptosis via mitochondrial membrane permeability and to protein ubiquitination. Developmental terms like GI epithelium maintenance and neural tube closure suggest broader tissue homeostasis contexts, but the dominant signal is stress-induced signaling linked to immune responses. Overall, this cluster seems to reflect a theme of cellular stress responses coupled with innate immune signaling rather than a single specialized pathway.","confidence":"Medium","size":7,"edges":8,"triangles":3,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030277","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0002931","count":3},{"id":"GO:0007584","count":3}]},{"hash":"406877696551266031","title":"Chromatin regulation in sensory organ development","description":"The cluster is enriched for DNA-templated transcription and chromatin silencing/heterochromatin formation terms, indicating chromatin-based transcription control. The inclusion of antennal and photoreceptor development GO terms links this regulatory activity to sensory organ development, with neural differentiation terms supporting a developmental context.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:1900477","count":2},{"id":"GO:0000183","count":2},{"id":"GO:0031937","count":2},{"id":"GO:0006355","count":1}]},{"hash":"1387589488922337697","title":"Oxidative Stress Response and Transcription Regulation","description":"Genes show enrichment for cellular responses to cadmium ion and diamide (oxidative stress) and for DNA-templated transcription and transcription regulation from RNA polymerase II, suggesting a core theme of stress-induced transcriptional responses; a few terms are developmental or obsolete annotations, likely noise.","confidence":"Medium","size":7,"edges":11,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0072738","count":1},{"id":"GO:1900427","count":1},{"id":"GO:0061408","count":1}]},{"hash":"1225992428256317719","title":"Chromatin Organization and Remodeling","description":"Based on the top GO terms, the cluster is driven by chromatin-related processes, notably chromatin organization (GO:0034724) and chromatin remodeling (GO:0043044). While several other terms (e.g., seed growth regulation, chlorophyll biosynthesis, collagen catabolic process, angiogenesis) appear, they are less cohesive with the core theme and may reflect broader or cross-species annotations. The strongest signal points to chromatin-level regulation, justifying a chromatin organization/remodeling label.","confidence":"Medium","size":7,"edges":9,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0034724","count":2},{"id":"GO:0030574","count":2},{"id":"GO:0034396","count":2},{"id":"GO:0035551","count":2},{"id":"GO:0016525","count":2}]},{"hash":"2140811087944949104","title":"ECM Remodeling and Cell-Matrix Adhesion","description":"The top GO terms cluster around extracellular matrix remodeling and interactions with basement membranes (proteolysis, glomerular basement membrane development, and cell-matrix adhesion), suggesting a common function in tissue structure and adhesion. Some terms (otolith tethering, sensory perception of sound) appear as potential outliers or broader annotations, but the core theme is ECM organization and adhesion.","confidence":"Medium","size":7,"edges":10,"triangles":5,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":4},{"id":"GO:0046938","count":4},{"id":"GO:0043085","count":4},{"id":"GO:1904715","count":4},{"id":"GO:0035889","count":3}]},{"hash":"1461972480338144426","title":"Gastrulation-Related Morphogenesis and Cell Migration","description":"The cluster's top GO terms cluster around gastrulation, cell migration, basement membrane organization, and vasculature development, pointing to embryonic morphogenesis and tissue remodeling. A few terms (visual learning, GPCR signaling, PKC regulation, farnesylation) are less directly tied but may reflect signaling and membrane modification during development.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048146","count":2},{"id":"GO:0071711","count":2},{"id":"GO:0010004","count":2},{"id":"GO:0001944","count":2},{"id":"GO:0042074","count":2}]},{"hash":"1974707230524356384","title":"Unknown","description":"The top terms are highly diverse, spanning histone modification, transcription, neural development, growth, immune signaling, sensory perception, and cell cycle regulation, with obsolete terms included. There is no single coherent function or pathway that clearly ties these proteins together, so the cluster appears heterogeneous.","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043966","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0050909","count":5},{"id":"GO:0051441","count":5},{"id":"GO:0001843","count":5}]},{"hash":"1672627161923800530","title":"Neural development and pain signaling with immune cues","description":"The GO terms point to nervous system development, pain-related behavioral responses, dopaminergic signaling, and synapse assembly, indicating a cluster centered on neural signaling and development. The concurrent signals for innate immune response and LPS signaling suggest neuro-immune interactions, supporting a theme of neural processes with immune cross-talk.","confidence":"Medium","size":7,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":4},{"id":"GO:0007399","count":3},{"id":"GO:0061368","count":3},{"id":"GO:1903351","count":3},{"id":"GO:0045087","count":3}]},{"hash":"1785080298057111703","title":"Immune-Related Transcriptional Regulation","description":"The cluster is dominated by GO terms for transcriptional control (DNA-templated transcription; transcription by RNA Pol II; negative regulation of miRNA transcription; deacetylation) and includes immune and development-related terms (cellular response to LPS; defense response to protozoan; myeloid dendritic cell differentiation; lymphoid lineage migration into thymus). This mix points to transcriptional regulation processes that underpin immune signaling and immune cell development, rather than a single enzymatic or structural function. Confidence: Medium","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0006366","count":3},{"id":"GO:0071222","count":2},{"id":"GO:0042832","count":2},{"id":"GO:0043011","count":2}]},{"hash":"1739785359374602710","title":"Antiviral Innate Immunity and T Cell Differentiation","description":"The cluster prominently features GO terms for defense response to virus, innate immune response, and response to exogenous dsRNA, pointing to antiviral innate signaling pathways. It also includes terms related to T cell proliferation and T follicular helper cell differentiation, suggesting downstream adaptive immune roles. Ubiquitination processes (autoubiquitination, K48-linked ubiquitination, and ubiquitin-dependent protein catabolic process) imply regulation of these immune signaling cascades, while a couple of terms note Wnt signaling, which may reflect pathway cross-talk in immune contexts. Overall, the core theme is antiviral innate immunity with links to T cell differentiation.","confidence":"High","size":7,"edges":11,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0051865","count":2},{"id":"GO:0016055","count":2},{"id":"GO:0071360","count":2}]},{"hash":"1759875383788012723","title":"Calcium signaling and oxidative stress response","description":"This cluster centers on calcium handling and redox metabolism: terms like regulation of SR Ca2+ release, ryanodine-sensitive calcium channels, and mitochondrial membrane potential point to calcium signaling and mitochondrial function, while glutathione metabolism and cellular oxidant detoxification indicate oxidative stress response. Additional terms on starvation, aromatic amino acid metabolism, and cell cycle regulation suggest broader metabolic stress relevance, but the core signal appears to be calcium dynamics coupled with redox/homeostatic control.","confidence":"Medium","size":7,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006749","count":5},{"id":"GO:0010880","count":5},{"id":"GO:0051726","count":5},{"id":"GO:0060316","count":5},{"id":"GO:0045669","count":5}]},{"hash":"943632652833065374","title":"Mitotic spindle and cytokinesis","description":"This cluster is dominated by GO terms tied to mitosis and cytokinesis\u2014mitotic spindle midzone assembly, microtubule nucleation, cell division, and spindle pole body duplication\u2014indicating a core function in spindle organization and cell-division machinery. While a couple terms relate to neuronal differentiation and mechanosensation, the strongest signals point to microtubule-based division processes.","confidence":"High","size":7,"edges":17,"triangles":21,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0051256","count":4},{"id":"GO:0043093","count":4},{"id":"GO:1905789","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0051258","count":4}]},{"hash":"214668204382307185","title":"Mitochondrial tRNA Aminoacylation and Translation","description":"The terms show a clear focus on translation and multiple mitochondrial tRNA aminoacylation processes (glycyl, threonyl, seryl, prolyl, etc.), with a note on translational fidelity regulation and even rRNA processing. Together they point to a cohesive set of proteins involved in mitochondrial protein synthesis and tRNA charging, i.e., the mitochondrial translation machinery.","confidence":"High","size":7,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":1},{"id":"GO:0006450","count":1},{"id":"GO:0070150","count":1},{"id":"GO:0097056","count":1},{"id":"GO:0070159","count":1}]},{"hash":"170326927045050308","title":"DNA replication and telomere chromatin regulation","description":"It is dominated by DNA replication and telomere-associated chromatin regulation terms, suggesting involvement in replication initiation and chromatin silencing at chromosome ends, with a minor xenobiotic response signal.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0006268","count":5},{"id":"GO:0051260","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0030174","count":3}]},{"hash":"843463314984715989","title":"Chaperone-assisted folding and unfolded protein response","description":"The strongest signals are about proteostasis and protein quality control, including cellular response to unfolded protein, chaperone-dependent refolding, and post-translational targeting to membranes, which together point to a role in folding and ER stress management. Some outliers (DNA replication, fungal cell wall biosynthesis) are likely ancillary or incidental to broader stress-related processes, but do not override the core theme of chaperone-mediated folding and unfolded protein response.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0031204","count":7},{"id":"GO:0090084","count":7},{"id":"GO:0006260","count":7},{"id":"GO:0070389","count":7},{"id":"GO:1900035","count":7}]},{"hash":"1278271560037919099","title":"Innate Antiviral Immunity and Interferon Signaling","description":"This cluster is enriched for GO terms related to innate antiviral defense, including innate immune response, defense against virus, regulation of type I interferon production, and RIG-I signaling. The presence of terms about viral transcription and viral entry, along with host-mediated suppression of viral release, supports a coherent theme of antiviral defense and interferon pathway regulation, despite some contextual terms (vitamin D response and IGF signaling) that may reflect regulatory cross-talk. Overall, the proteins likely participate in antiviral innate immunity and interferon signaling.","confidence":"High","size":7,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0051607","count":3},{"id":"GO:0032479","count":3},{"id":"GO:0043569","count":3},{"id":"GO:1900246","count":3}]},{"hash":"1977953799835721043","title":"Carnitine-dependent fatty acid oxidation","description":"This cluster is dominated by GO terms related to fatty acid metabolism and transport\u2014beta-oxidation, medium/long-chain fatty acids, and carnitine-dependent processes\u2014suggesting a cohesive role in lipid catabolism and fatty acid shuttle into mitochondria. A few isolated terms (follicle growth, acetylcholine biosynthesis, morphogenesis, inflammatory regulation) are present but do not define the main function.","confidence":"Medium","size":7,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032000","count":1},{"id":"GO:0051791","count":1},{"id":"GO:0033540","count":1},{"id":"GO:0001547","count":1},{"id":"GO:0019254","count":1}]},{"hash":"939029798222580660","title":"Cardiovascular development and insulin secretion regulation","description":"The proteins in this cluster show enrichment for heart-related development and function (smooth muscle contraction, ventricular muscle morphogenesis, trabecula formation) alongside insulin secretion and its regulation (insulin secretion; negative regulation of insulin secretion in response to glucose). Additional terms involve regulatory signaling (activin receptor signaling, sumoylation) and growth-like processes (axon regeneration) and nutrient responses (vitamin E). This suggests a cardiometabolic signaling theme, integrating heart development with metabolic regulation, rather than a single narrow function. ","confidence":"Medium","size":7,"edges":4,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006939","count":4},{"id":"GO:0016925","count":4},{"id":"GO:0030073","count":4},{"id":"GO:0048680","count":4},{"id":"GO:0061179","count":4}]},{"hash":"487715627771398214","title":"Signaling Regulation and ER Stress Response","description":"These proteins cluster around modulation of signaling pathways (insulin receptor and TCR signaling with negative regulation), cell-cycle control, and stress responses (ER stress\u2013induced apoptotic signaling and unfolded protein response), plus neuronal postsynaptic density assembly. The shared theme is regulation of signaling and stress responses across diverse contexts and cell types. ","confidence":"Medium","size":7,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0008285","count":4},{"id":"GO:0097107","count":4},{"id":"GO:0045736","count":4}]},{"hash":"1134796065050427793","title":"Oxygen and Nitric Oxide Transport and Redox Signaling","description":"The cluster centers on transport and handling of gases and redox-related processes. Top GO terms highlight oxygen transport, bicarbonate transport, nitric oxide transport, and nitrosative stress response, with related hydrogen peroxide catabolism and erythrocyte maturation. These together suggest a cohesive theme around gas transport (O2/NO) and redox balance in blood and tissues, with supporting roles in renal function and tissue remodeling.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015701","count":4},{"id":"GO:2000490","count":3},{"id":"GO:0045429","count":3},{"id":"GO:0030185","count":3},{"id":"GO:0015671","count":3}]},{"hash":"744037343074777040","title":"Innate Immune Activation and Cytokine Production","description":"Most of the top GO terms point to innate immune response and inflammatory signaling (defense against Gram-positive bacteria; TNF and IL-8 production; detection of muramyl dipeptide), with additional support from protein ubiquitination and apoptosis. A couple of terms related to behavior may reflect background annotations rather than core function. Overall, the cluster seems to group proteins involved in innate immune recognition and cytokine-mediated responses.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032094","count":2},{"id":"GO:0008344","count":2},{"id":"GO:0097194","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0016567","count":2}]},{"hash":"1118428534091446459","title":"Plant organelle RNA processing and ribosome assembly","description":"The cluster is dominated by GO terms tied to RNA processing in mitochondria and chloroplasts, as well as mitochondrial large ribosomal subunit assembly, with supporting links to cellular respiration. This points to a cohesive theme of organelle gene expression and ribosome biogenesis in plant cells, with additional plant-specific metabolic terms appearing less frequently.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0045333","count":2},{"id":"GO:1902775","count":2},{"id":"GO:0000963","count":2}]},{"hash":"1871453684522657252","title":"Gene Regulation and Signaling in Development","description":"This cluster features regulatory and signaling GO terms, including transcriptional regulation by RNA polymerase I, chromatin modification (histone acetylation/deacetylation), and positive regulation of TGF-beta receptor signaling, along with immune and reproductive development contexts (cellular response to lipopolysaccharide, seminiferous tubule development, male meiosis I). The mix suggests a broad regulatory role spanning development and immune signaling rather than a single cohesive pathway, so the label reflects a general regulatory/signaling theme in development.","confidence":"Medium","size":7,"edges":7,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051044","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0072520","count":1},{"id":"GO:0007141","count":1},{"id":"GO:0016479","count":1}]},{"hash":"1436817967711920135","title":"Transcriptional Regulators of Developmental Morphogenesis","description":"The top GO terms point to transcriptional regulation (GO:0006355, GO:0006366) and broad organ morphogenesis (eye, forebrain, limb, dentin/odontogenesis, lung), including pattern formation. This suggests the proteins act as transcriptional regulators coordinating embryonic development across multiple tissues, rather than a single tissue-specific process.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":4},{"id":"GO:0009954","count":4},{"id":"GO:0045617","count":4},{"id":"GO:0030326","count":4},{"id":"GO:0042475","count":4}]},{"hash":"1129270294688297666","title":"Neural development and synaptic function","description":"This cluster shows a pattern of neural and glial-related terms: axonogenesis, long-term synaptic potentiation, excitatory postsynaptic potential, Schwann cell development, and visual perception, suggesting roles in neural development and synaptic activity. Additional terms like axon regeneration and heart development appear less directly tied, but overall the neural-focused terms provide the strongest cohesive theme. ","confidence":"Medium","size":7,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043065","count":2},{"id":"GO:0006939","count":2},{"id":"GO:0048680","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0060291","count":2}]},{"hash":"1613174819438703099","title":"mRNA Splicing and Export with Translation Initiation","description":"This cluster is centered on RNA processing and gene expression control, as seen in GO terms for spliceosome-mediated mRNA splicing (cis splicing, regulation via spliceosome), mRNA export from the nucleus, and formation of the translation preinitiation complex. The mix of splicing regulation and export, together with translation initiation components, suggests a coordinated module linking mRNA maturation to early translation. ","confidence":"High","size":7,"edges":15,"triangles":14,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:1905663","count":4},{"id":"GO:1900363","count":4},{"id":"GO:0048026","count":4},{"id":"GO:0006406","count":4}]},{"hash":"1664179380916616627","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032418","count":1},{"id":"GO:0007032","count":1},{"id":"GO:0061400","count":1},{"id":"GO:0035865","count":1},{"id":"GO:0071030","count":1}]},{"hash":"1677629286262174744","title":"Developmental morphogenesis and signaling","description":"The terms show a clear focus on morphogenesis and development across multiple tissues (brain morphogenesis, cerebral cortex development, skeletal morphogenesis, spermatid development, sorocarp stalk differentiation). Supporting signals include MAP kinase regulation, EGFR activity regulation, and T cell receptor signaling, with a few related cellular processes like protein transport and resting membrane potential. This suggests a cluster centered on developmental processes coupled with signaling pathways rather than a single tissue function.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":2},{"id":"GO:0048854","count":1},{"id":"GO:0031149","count":1},{"id":"GO:0043406","count":1},{"id":"GO:0048705","count":1}]},{"hash":"72326734963968448","title":"Transcription Regulation and ER Protein Folding","description":"This cluster centers on transcription-related processes (negative regulation of transcription by RNA polymerase II; DNA-templated transcription; regulation of DNA binding) alongside ER-associated protein handling and redox maintenance (protein folding in the endoplasmic reticulum; protein repair; deglutathionylation; cellular oxidant detoxification). The combination suggests a functional grouping around gene expression control coupled with protein quality control under stress, consistent with an ER-associated or stress-response theme.","confidence":"Medium","size":7,"edges":8,"triangles":2,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0034975","count":3},{"id":"GO:0018401","count":3},{"id":"GO:0080058","count":3},{"id":"GO:1903206","count":3}]},{"hash":"77785469671787808","title":"Synaptic spine morphogenesis and actin remodeling","description":"The top GO terms point to dendritic spine morphogenesis, actin cytoskeleton organization, receptor clustering, and synapse localization, all tied to synaptic structure and plasticity; activation of Rho GTPases supports cytoskeletal remodeling at synapses, suggesting the proteins coordinate spine formation and synaptic organization.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":4},{"id":"GO:0043113","count":4},{"id":"GO:0007266","count":4},{"id":"GO:0090630","count":4},{"id":"GO:0030036","count":4}]},{"hash":"1175544495795994961","title":"Actin filament assembly and cytoskeleton dynamics","description":"Primarily enriched for actin-related processes: actin nucleation, actin filament network formation, and formin-nucleated actin cable assembly, plus actomyosin contractile ring formation. This points to a cohesive theme of actin filament organization and cytoskeletal remodeling. While there are additional terms such as cellular response to histamine and regulation of bleb formation, the dominant signal is actin dynamics, supporting the label.","confidence":"High","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0045010","count":7},{"id":"GO:0051639","count":5},{"id":"GO:0071519","count":4},{"id":"GO:0070649","count":4},{"id":"GO:0071420","count":4}]},{"hash":"162354528401608367","title":"Actin Dynamics and Membrane Trafficking","description":"This cluster centers on actin cytoskeleton regulation (podosome assembly, Rac signaling, dendritic spine development) together with membrane trafficking and polarity pathways (endosome-to-plasma membrane transport, COPI Golgi coating). The common theme is coordinated remodeling of the cytoskeleton with vesicle trafficking and cell polarity, suggesting a module involved in polarized or migratory cell behavior. A couple of terms appear more peripheral but do not override the main signal.","confidence":"Medium","size":7,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0010227","count":6},{"id":"GO:0071803","count":6},{"id":"GO:0030037","count":6},{"id":"GO:1905751","count":6},{"id":"GO:0007264","count":6}]},{"hash":"995720994086899330","title":"Calcium-Dependent Immune Signaling","description":"The cluster is dominated by terms tied to calcium signaling and immune processes: cellular response to calcium ion, B cell differentiation, T cell proliferation regulation, and phagocytosis regulation. Calcium signaling also underlies secretory processes like insulin release and neurotransmitter release, which explains the presence of terms related to insulin secretion and synaptic transmission. While some terms are broader or non-immune, the central link through calcium-dependent signaling in immune cell activation and regulation makes this label representative.","confidence":"Medium","size":7,"edges":4,"triangles":1,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0071277","count":6},{"id":"GO:0002316","count":5},{"id":"GO:0006886","count":5},{"id":"GO:0030579","count":5},{"id":"GO:0032024","count":5}]},{"hash":"1417660686258667602","title":"Unknown","description":"The two top GO terms point to distinct biological themes (retina development vs. negative regulation of centriole replication) with no clear shared function, and the sparse network (1 edge, 0 triangles) suggests no coherent cluster-level process can be inferred.","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":5},{"id":"GO:0046600","count":5}]},{"hash":"1979463049970516927","title":"Neuro-immune-vascular signaling","description":"This cluster contains neural-development terms such as neural tube closure and dendritic spine morphogenesis, plus vascular signaling (VEGF receptor pathway, mechanotransduction) and immune signaling (leukocyte chemotaxis, B cell receptor regulation), as well as insulin signaling, suggesting a common theme of signaling pathways coordinating development, neural structure, and immune-vascular interactions.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051316","count":7},{"id":"GO:0001843","count":7},{"id":"GO:0060997","count":7},{"id":"GO:0046628","count":7},{"id":"GO:0002688","count":7}]},{"hash":"2223906718551413839","title":"Unknown","description":"The terms span multiple transport processes (into vacuole, peroxisomes, peptide antigen transport, doxorubicin transport) and diverse regulatory activities, with no single unifying function. Therefore no specific, representative label can be assigned.","confidence":"","size":7,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030512","count":2},{"id":"GO:0043213","count":2},{"id":"GO:0071996","count":2},{"id":"GO:0015910","count":2},{"id":"GO:0010949","count":2}]},{"hash":"61190763115309664","title":"Membrane trafficking and junction dynamics","description":"This cluster shows a mix of GO terms tied to membrane remodeling, vesicular transport, and cell-cell junction activities (endothelial migration, tight junction assembly, receptor trafficking, endosome/lysosome transport, and related processes across tissues), suggesting a common theme of membrane dynamics rather than a single specific pathway.","confidence":"Medium","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043534","count":4},{"id":"GO:0019076","count":4},{"id":"GO:1903348","count":4},{"id":"GO:0035725","count":4},{"id":"GO:1903545","count":4}]},{"hash":"876293477672491147","title":"Mitochondrial Translation and tRNA Synthetases","description":"The top GO terms are dominated by translation and tRNA aminoacylation activities, including mitochondrial seryl-tRNA aminoacylation and other aminoacyl-tRNA synthetases (histidine, proline), pointing to a protein synthesis/charging machinery theme, especially in mitochondria. The presence of a respiratory electron transport chain term supports the mitochondrial context, while other terms (DNA biosynthesis, embryonic development) appear less central. Overall, the cluster seems to capture components of the translation machinery, with a focus on mitochondrial translation and tRNA charging.","confidence":"Medium","size":6,"edges":11,"triangles":7,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0071897","count":2},{"id":"GO:0022904","count":2},{"id":"GO:0097056","count":2},{"id":"GO:0006427","count":2}]},{"hash":"393269544204229400","title":"Chromatin Regulation and Development","description":"Reasoning: Top GO terms point to chromatin dynamics (histone acetylation, CENP-A chromatin assembly, heterochromatin formation) and developmental processes (osteoblast differentiation, brain and male gonad development, fertilization, multicellular growth), suggesting the cluster comprises proteins coordinating chromatin state with developmental programs. Some terms are broader or less related (defense response), but the core theme appears to be chromatin-mediated regulation during development.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0043966","count":5},{"id":"GO:0001649","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0061408","count":4},{"id":"GO:0061641","count":4}]},{"hash":"2076918774399017455","title":"Unknown","description":"The proteins are linked to a highly diverse set of GO terms\u2014responses to xenobiotic stimuli and cocaine, DNA replication and meiotic cell cycle, various signaling pathways (including calcineurin-NFAT, extrinsic apoptotic signaling, and brassinosteroid signaling), inflammatory regulation, dendrite morphogenesis, and isoprenoid biosynthesis\u2014offering no clear, single functional theme for the cluster. Therefore, no cohesive biological label can be confidently assigned.","confidence":"","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0051533","count":1},{"id":"GO:2001241","count":1}]},{"hash":"1317419815487242211","title":"Neuronal Synaptic Transmission and Modulation","description":"This group centers on synaptic transmission across multiple neurotransmitters (dopamine, norepinephrine, glycine) and regulation of transmitter release, with related sensory processing terms. The cohering theme is neuronal communication and neuromodulation, though one term about synaptonemal complex assembly may reflect annotation noise rather than a true functional link to neurons.","confidence":"High","size":6,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007130","count":2},{"id":"GO:0014061","count":2},{"id":"GO:0060012","count":2},{"id":"GO:0001661","count":2},{"id":"GO:0032226","count":2}]},{"hash":"424959647216167750","title":"Mitotic spindle regulation and ubiquitination","description":"The cluster centers on mitosis-related processes (mitotic spindle elongation, exit from mitosis, spindle assembly checkpoint deactivation) and ubiquitin-like modifications (ISG15 conjugation, autoubiquitination, K29-linked ubiquitination), suggesting a cohesive theme of cell division control and chromatin-related regulation via ubiquitin pathways, with some related terms like histone modification and meiotic telomere dynamics providing broader context.","confidence":"Medium","size":6,"edges":12,"triangles":10,"max_degree":5,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0000022","count":6},{"id":"GO:0032020","count":6},{"id":"GO:0051865","count":6},{"id":"GO:0016562","count":6},{"id":"GO:1902426","count":6}]},{"hash":"2266089434829762730","title":"Plant light-responsive development","description":"The top GO terms strongly point to light sensing in plants (red/far-red light responses and phototransduction) and plant development (flower development, jasmonic acid signaling). While a couple terms pertain to broader chromatin regulation and non-plant development, the dominant theme is plant light signaling guiding development. ","confidence":"High","size":6,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035563","count":4},{"id":"GO:0001701","count":2},{"id":"GO:0051572","count":2},{"id":"GO:0042551","count":2},{"id":"GO:0009867","count":2}]},{"hash":"2131655176850990706","title":"Embryonic Development and Gene Regulation","description":"Most of the top GO terms point to developmental processes during embryogenesis\u2014neural tube closure, forebrain development, skeletal system development, and multicellular organism development\u2014suggesting these proteins participate in developmental programs. Additionally, DNA-templated transcription and mitotic cell cycle terms indicate regulation of gene expression and cell proliferation during development. Some terms reflect cellular stress responses (cadmium exposure, ER stress\u2013induced apoptotic signaling), but they appear secondary to the core developmental theme.","confidence":"Medium","size":6,"edges":9,"triangles":4,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001843","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0001501","count":3}]},{"hash":"1849683200110509003","title":"Immune signaling and organ morphogenesis","description":"It combines immune-regulatory signaling (NF-kappaB, IL-2) with diverse morphogenesis and remodeling processes (hair follicle, salivary gland, blood vessels, coagulation), suggesting a general link between immune signaling and tissue development/remodeling.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":2},{"id":"GO:0048536","count":2},{"id":"GO:1900041","count":2},{"id":"GO:0060445","count":1},{"id":"GO:0043277","count":1}]},{"hash":"262520221671168954","title":"Neural development and gastrulation","description":"The cluster is dominated by GO terms tied to early development and neural formation, including neural tube closure, neuron projection development, gastrulation, and multicellular growth, with supporting signals like negative regulation of protein tyrosine kinase activity. A couple of obsolete terms appear as noise but do not override the central developmental theme.","confidence":"High","size":6,"edges":10,"triangles":6,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001843","count":3},{"id":"GO:0031175","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0007369","count":3},{"id":"GO:0007568","count":3}]},{"hash":"402588789809873969","title":"NF-kappaB and TNF/Toll inflammatory signaling","description":"The cluster is dominated by GO terms involving NF-kappaB activation/regulation, TNF-mediated signaling, and Toll signaling, with supporting ubiquitin-dependent protein turnover and related apoptosis/IL-2 regulation, indicating a cohesive inflammatory signaling module.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0043154","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0006511","count":2}]},{"hash":"1714793810281651329","title":"Diverse Morphogenesis Signals","description":"The GO terms include morphogenesis across multiple tissues (midbrain, pericardium, cardiac atrium, hair follicle) along with related signaling and differentiation processes (Rho signaling, thrombin receptor signaling, pro-B cell differentiation, vitellogenesis). This points to a loosely connected set of proteins involved in broad developmental and morphogenetic roles rather than a single, cohesive pathway. Confidence: Medium","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1904693","count":3},{"id":"GO:2000973","count":3},{"id":"GO:0007296","count":3},{"id":"GO:0003344","count":3},{"id":"GO:0035023","count":3}]},{"hash":"515571168491519886","title":"Immune signaling proteins","description":"The GO terms center on responses to immune-related stimuli (LPS, muramyl dipeptide, B cell receptor signaling) and NF-kappaB regulation, with additional signals such as growth factor and hormone stimuli, suggesting these proteins are components of immune and stress signaling pathways. Edges are absent, indicating possible diverse or unconnected members, but the shared theme is signaling rather than a single pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904780","count":2},{"id":"GO:0035729","count":2},{"id":"GO:0071375","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0032495","count":2}]},{"hash":"1164037502276511448","title":"Developmental morphogenesis and differentiation","description":"The terms mainly point to morphogenesis and differentiation across various tissues (eye, lung, hypothalamus, ovarian follicle) and include immune tolerance processes, suggesting a cohesive theme of developmental tissue formation and growth control. The insulin signaling term reinforces a growth/regulatory axis common to these processes.","confidence":"Medium","size":6,"edges":8,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":6},{"id":"GO:0021855","count":5},{"id":"GO:1901248","count":5},{"id":"GO:0048048","count":5},{"id":"GO:0002851","count":5}]},{"hash":"658548738139712804","title":"Enamelogenesis and ECM Remodeling","description":"The main GO terms point to enamel formation (amelogenesis) and extracellular matrix remodeling (ECM disassembly and collagen catabolic process), suggesting proteins involved in enamel matrix formation and its turnover. Some immune or plant-related terms appear incidental and do not detract from the core enamel/ECM theme.","confidence":"High","size":6,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0097186","count":2},{"id":"GO:0022617","count":2},{"id":"GO:0030574","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0001867","count":2}]},{"hash":"1381732555178887457","title":"Membrane-associated sterol synthesis and signaling","description":"The top GO terms cluster around sterol biosynthesis and processes tied to membranes, including TORC2 signaling and SRP-dependent cotranslational targeting to the membrane, with protein tetramerization suggesting assembly into membrane-associated complexes. A few developmental terms appear but are less central. This points to a membrane-focused theme combining lipid biosynthesis and membrane signaling/trafficking.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051262","count":2},{"id":"GO:0030259","count":2},{"id":"GO:0016126","count":2},{"id":"GO:0038203","count":2},{"id":"GO:0010761","count":1}]},{"hash":"2158741264786180494","title":"GTPase Signaling and Membrane Trafficking","description":"This cluster centers on small GTPase\u2013driven signaling and membrane trafficking, highlighted by terms for small GTPase\u2013mediated signal transduction, clathrin-dependent endocytosis, platelet protein secretion, and IGF receptor signaling. The presence of Ras pathway regulation and membrane tubulation terms further supports a cohesive theme of signaling coordinating vesicle trafficking, with some mitochondrial and nervous-system terms that are peripheral to the main pattern.","confidence":"Medium","size":6,"edges":4,"triangles":1,"max_degree":2,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0070560","count":6},{"id":"GO:0007264","count":6},{"id":"GO:0000266","count":6},{"id":"GO:0008637","count":6},{"id":"GO:0072583","count":6}]},{"hash":"496454492711375270","title":"Adipogenesis and myogenesis signals","description":"The cluster shows strong representation for fat cell differentiation and skeletal muscle tissue development, along with cell migration and signaling terms, suggesting a theme of differentiation and morphogenesis in adipose and muscle lineages. Some terms (mRNA processing, telomere maintenance) are less directly connected and may reflect broader cellular functions, so the label is tentative.","confidence":"Medium","size":6,"edges":11,"triangles":6,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":4},{"id":"GO:0006397","count":4},{"id":"GO:0032212","count":4},{"id":"GO:0035994","count":4},{"id":"GO:1904355","count":4}]},{"hash":"2045606744287199498","title":"GTPase-Regulated Developmental Signaling and Trafficking","description":"The top GO terms point to small GTPase-mediated signaling and regulation (small GTPase-mediated signal transduction; positive regulation of GTPase activity; protein heterotrimerization) alongside ER-to-Golgi vesicle transport and apical protein localization, indicating a role in intracellular trafficking and polarity. Coupled with multiple developmental terms (skeletal system development, brain development, embryonic digit morphogenesis) this cluster appears to coordinate developmental signaling with GTPase regulation and vesicular trafficking.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":6},{"id":"GO:0006888","count":6},{"id":"GO:0010255","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0007420","count":6}]},{"hash":"1732717421390143018","title":"Nucleic acid processing and gene expression regulation","description":"The GO terms cluster around nucleic acid metabolism and processing (DNA integration/transposition, tRNA processing and modification, mRNA splicing, ribosomal export) and gene expression control (regulation of RNA polymerase II activity, transcription initiation), suggesting proteins collectively involved in nucleic acid handling and expression regulation rather than a single, tight pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":1},{"id":"GO:0006313","count":1},{"id":"GO:0034265","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0061587","count":1}]},{"hash":"1214284609452335730","title":"Unknown","description":"The terms include cardiac repolarization/heart-rate regulation, mechanosensation (pain and touch), optic nerve structure, and cytoskeletal signaling (stress fiber assembly, Rho), with no clear single function linking all proteins. Therefore a coherent, specific label cannot be assigned.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071286","count":1},{"id":"GO:0060372","count":1},{"id":"GO:0086091","count":1},{"id":"GO:0021633","count":1},{"id":"GO:0050966","count":1}]},{"hash":"728405208390330257","title":"Innate Immune Signaling and Cytokine Regulation","description":"The top GO terms point to innate immune response, macrophage activation, and regulation of NF-kappaB signaling, along with cytokine production (TNF, IL-8, IFN-beta). The inclusion of both positive and negative regulation of NF-kappaB and actin filament remodeling suggests a cluster of immune signaling regulators involved in macrophage activation and inflammatory responses. A plant-specific term appears unlikely to define the cluster, which reinforces the immune-focused interpretation overall.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0009729","count":6},{"id":"GO:0042116","count":6},{"id":"GO:0051770","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0043124","count":6}]},{"hash":"875128437873781088","title":"Plant environmental sensing and growth regulation","description":"Based on the GO terms, the cluster centers on plant-specific processes: detection of hypoxia, red/far-red light phototransduction, negative regulation of ethylene signaling, secondary growth, and cellular/xenobiotic responses. While there are some generic terms like protein folding, the converging themes are environmental sensing (light and hypoxia) and growth-related signaling, suggesting these proteins function together in plant adaptation and development.","confidence":"Medium","size":6,"edges":6,"triangles":1,"max_degree":5,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0070483","count":5},{"id":"GO:0010105","count":5},{"id":"GO:0009585","count":5},{"id":"GO:0042220","count":5},{"id":"GO:0033160","count":5}]},{"hash":"93031336890474469","title":"Inflammatory cytokine signaling and dendritic cell response","description":"The cluster is enriched for cytokine production (IL-13, IL-1\u03b2, IL-5), lipopolysaccharide response, and dendritic cell migration, pointing to innate immune activation and inflammatory signaling; additional terms on pyroptosis and regulation of MAPK/NF-\u03baB pathways support a pro-inflammatory and cell death\u2013related theme.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032736","count":5},{"id":"GO:0006915","count":5},{"id":"GO:0070373","count":5},{"id":"GO:0070269","count":5},{"id":"GO:0050718","count":5}]},{"hash":"2257941088654521326","title":"Secretory granule maturation and autophagy","description":"This cluster is enriched for terms tied to secretory vesicle biology\u2014dense core granule maturation, insulin secretion, and vacuole-ER tethering\u2014as well as autophagosome maturation. Together these point to a common function in vesicle trafficking and the autophagy pathway that accompanies secretion. The other development- and signaling-related terms are present but less central, suggesting a broader, but weaker, connection to neural and cartilage differentiation and TGF-\u03b2 signaling.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990502","count":1},{"id":"GO:1990854","count":1},{"id":"GO:0030073","count":1},{"id":"GO:0060394","count":1},{"id":"GO:0097352","count":1}]},{"hash":"1866323457330395723","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":10,"triangles":10,"max_degree":4,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0060292","count":5},{"id":"GO:0070373","count":5},{"id":"GO:0090103","count":5},{"id":"GO:0060997","count":5},{"id":"GO:0045198","count":5}]},{"hash":"2259747728198507036","title":"Neural and Glial Development","description":"The Top Terms are dominated by neural-support cell development, including Schwann cell proliferation, PNS axon regeneration, astrocyte development, and Bergmann glial differentiation, which point to glial/neuronal differentiation programs. Some terms also touch on skin/hair biology (hair cycle, hair follicle morphogenesis, keratinocyte migration/activation), suggesting a broader developmental theme with glial/neural processes as the core signal. Thus, a concise label is Neural and Glial Development. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010625","count":1},{"id":"GO:0042633","count":1},{"id":"GO:0014012","count":1},{"id":"GO:0051546","count":1},{"id":"GO:0014002","count":1}]},{"hash":"1020188664757652462","title":"Amino acid biosynthesis and tRNA charging","description":"The GO terms include specific tRNA aminoacylation activities (arginyl- and glycyl-tRNA synthetases) alongside multiple amino acid biosynthetic processes (serine, threonine, tryptophan) and related pathways (transsulfuration, hydrogen sulfide biosynthesis, pyruvate and 2-oxobutyrate biosynthesis), suggesting a cluster of proteins involved in amino acid metabolism and tRNA charging. This combination supports a label that captures both translation-related charging and broader amino acid biosynthesis functions. ","confidence":"Medium","size":6,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006420","count":1},{"id":"GO:0006426","count":1},{"id":"GO:0070179","count":1},{"id":"GO:0018871","count":1},{"id":"GO:0019346","count":1}]},{"hash":"2096528121314038634","title":"Flavonoid Glycoside Biosynthesis","description":"Most GO terms point to biosynthesis of flavonoid glycosides (kaempferol/quercetin/cyanidin O-glucosides) and anthocyanin-containing compounds, with additional links to lignin metabolism, all aspects of plant phenylpropanoid/flavonoid pathways. This cohesive pattern supports a label for a flavonoid glycoside\u2013focused biosynthetic cluster.","confidence":"High","size":6,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0033330","count":4},{"id":"GO:0052697","count":4},{"id":"GO:0033485","count":4},{"id":"GO:0070980","count":4},{"id":"GO:0030259","count":4}]},{"hash":"1059119752041477856","title":"Plant Metabolism and Immunity","description":"These proteins appear linked to plant biology, with terms for systemic acquired resistance and salicylic acid signaling, plus fruit ripening, suggesting involvement in plant defense. Other terms point to core metabolism (amino acid biosynthesis, oxaloacetate, fatty acid homeostasis) and lipid biosynthesis, which can be active in plants. The combination indicates a small, multifunctional plant protein set bridging metabolism and defense rather than a single, narrow pathway. Therefore, Plant Metabolism and Immunity is a concise label that captures both aspects.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019518","count":3},{"id":"GO:0009862","count":2},{"id":"GO:0019878","count":2},{"id":"GO:0006686","count":2},{"id":"GO:0006571","count":2}]},{"hash":"2135704933898895980","title":"Secretory vesicle trafficking and degranulation","description":"The cluster's GO terms coalesce around vesicle transport and fusion events across endosomes, Golgi, vacuoles, and autophagosomes, including secretion and degranulation in immune cells (neutrophils/eosinophils) and mucus secretion. This indicates a cohesive role in secretory vesicle trafficking, granule release, and receptor recycling, rather than a single isolated process.","confidence":"High","size":6,"edges":12,"triangles":10,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042147","count":3},{"id":"GO:0070254","count":3},{"id":"GO:0042144","count":3},{"id":"GO:0043308","count":3},{"id":"GO:0016240","count":3}]},{"hash":"800304738059253105","title":"Bacterial cell wall glycosylation and polysaccharide biosynthesis","description":"This cluster is dominated by GO terms related to glycosylation (O-linked and related pathways), teichoic acid biosynthesis, cell wall organization, and other polysaccharide biosynthesis processes (hyaluronan, cellulose, UDP-glucose metabolism). These collectively point to a function in assembling and modifying cell wall polysaccharides in bacteria, despite a few outliers like immunoglobulin production.","confidence":"Medium","size":6,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0018242","count":3},{"id":"GO:0018243","count":3},{"id":"GO:0030213","count":3},{"id":"GO:0071555","count":3},{"id":"GO:0002378","count":3}]},{"hash":"590233173252857385","title":"Membrane trafficking and cell-surface assembly","description":"This cluster centers on processes involving membranes and membrane-associated trafficking: GPI anchor biosynthesis, receptor internalization, endosome/lysosome targeting, and assembly of membrane structures and junctions, with related signaling at the cell surface. The pollen-related terms are peripheral noise, but the cohesive theme is membrane organization and trafficking components.","confidence":"Medium","size":6,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009860","count":1},{"id":"GO:0009846","count":1},{"id":"GO:0006506","count":1},{"id":"GO:0045313","count":1},{"id":"GO:0007166","count":1}]},{"hash":"2041108078206578341","title":"Embryonic tissue morphogenesis and signaling","description":"The cluster\u2019s GO terms center on development and morphogenesis across multiple tissues (cartilage, metanephric tubules, lymph and blood vessels, brain regions) and are enriched for signaling pathways (PI signaling, ERK cascade, GTPase regulation) that guide tissue formation. This suggests proteins function together in developmental morphogenesis guided by signaling networks.","confidence":"High","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001502","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0072287","count":3},{"id":"GO:0072237","count":3},{"id":"GO:0036303","count":3}]},{"hash":"145958445020376490","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":2},{"id":"GO:0022011","count":2},{"id":"GO:0019878","count":1},{"id":"GO:0006189","count":1},{"id":"GO:0042853","count":1}]},{"hash":"126008115124415209","title":"Transcription and translation machinery","description":"Based on the top GO terms, the proteins cluster around core gene expression processes: translation and ribosome biogenesis, together with RNA polymerase II\u2013related transcription terms (initiation, termination, RNA-templated transcription). This suggests involvement with the machinery driving gene expression at both transcriptional and translational levels. A few terms relate to neuronal signaling and apoptosis and are less central to the cluster\u2019s primary theme.","confidence":"High","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0006367","count":2},{"id":"GO:0090394","count":2},{"id":"GO:0006353","count":1}]},{"hash":"2211328083187425279","title":"Neuronal development and Rho/Rac signaling","description":"The dominant terms cluster around brain development (hippocampus development, neural tube closure, dendritic spine morphogenesis) and cytoskeletal regulation via Rho/Rac pathways, suggesting proteins involved in neuronal development linked to actin dynamics; while some terms touch on broader transcription and cell cycle processes, the neuronal and Rho/Rac signals are the strongest shared theme.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021766","count":3},{"id":"GO:0007266","count":3},{"id":"GO:0007098","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0016601","count":2}]},{"hash":"265370795969472552","title":"Membrane and organelle protein localization","description":"The top terms point to localization to the phagophore assembly site, plasma membrane, and Golgi, indicating the proteins share a trafficking/localization theme across membranes and organelles. Minor terms about chromatin regulation and DNA endoreduplication are present but less representative. ","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0034497","count":3},{"id":"GO:0072661","count":3},{"id":"GO:0000042","count":3},{"id":"GO:0032875","count":1},{"id":"GO:0060712","count":1}]},{"hash":"654440994078797727","title":"Ubiquitination and Splicing","description":"Based on the Top Terms, two GO terms cluster together: protein polyubiquitination and mRNA splicing via the spliceosome, suggesting the proteins may be involved in ubiquitin-mediated regulation and RNA processing. Other terms related to proliferation, protein interactions, and development are present but less cohesive, so the core theme centers on ubiquitination and splicing rather than a single unified function. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050679","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0050909","count":1}]},{"hash":"840508984413373975","title":"Transcription Regulation and Innate Immunity","description":"The top GO terms cluster around transcription control (DNA-templated transcription, RNA polymerase III\u2013mediated transcription, tRNA transcription by RNA Pol III) and antiviral signaling (innate immune response, defense against virus, interferon-beta production). This points to a set of proteins involved in regulating transcription with roles in innate immunity; the forebrain development and taste perception terms may reflect broader annotations or incidental associations in this small cluster. Overall, the dominant theme is transcriptional regulation linked to antiviral defense.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032466","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006359","count":1},{"id":"GO:0045087","count":1}]},{"hash":"1575074725194455716","title":"RNA processing and mRNA stability regulation","description":"This cluster's top GO terms are dominated by post-transcriptional RNA processes: regulation of mRNA splicing, mRNA catabolic process, and regulation of mRNA stability in response to stress. These point to a coherent theme of RNA metabolism and post-transcriptional gene regulation, while some terms (neuronal signaling, viral interactions) appear as noise and do not define a single functional theme for the entire cluster. Therefore the label reflects the predominant function. ","confidence":"Medium","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0098908","count":1},{"id":"GO:0048024","count":1},{"id":"GO:0006402","count":1},{"id":"GO:0010738","count":1},{"id":"GO:0016120","count":1}]},{"hash":"1142280602205291829","title":"Innate Immune Signaling and NF-kB Regulation","description":"This cluster is dominated by GO terms related to innate immunity, including innate immune response, macrophage activation, and regulation of NF-kB signaling and NOD-like receptor pathways, suggesting proteins involved in innate immune activation and inflammatory signaling. Some terms also touch on neuronal development and mechanotransduction, which may reflect cross-talk or annotation overlap, but the core theme is immune signaling.","confidence":"High","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0009729","count":3},{"id":"GO:0042116","count":3},{"id":"GO:0051770","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0070430","count":3}]},{"hash":"685933607943511862","title":"Genome maintenance: DNA replication and transcription","description":"The proteins show a strong cluster of genome-centric functions, with GO terms for DNA replication, DNA-templated transcription, and mRNA processing, plus telomere maintenance via telomerase and radiation response. Despite a few peripheral terms like cell migration and differentiation, the dominant pattern ties to copying and expressing genetic information and preserving genome integrity, justifying this label.","confidence":"High","size":5,"edges":6,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0071479","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0032212","count":2},{"id":"GO:0016477","count":2}]},{"hash":"1742470331613197386","title":"Bacterial cell wall and lipid biosynthesis","description":"The top GO terms are dominated by biosynthetic processes tied to bacterial cell envelope components, including peptidoglycan, glycolipids, and lipoteichoic acid, as well as related pathways like antibiotic biosynthesis and xenobiotic metabolism. A few terms (e.g., paranode localization) seem incongruent and may reflect annotation noise, but the prevailing theme centers on microbial synthesis of cell-wall and lipid components. ","confidence":"Medium","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0002175","count":3},{"id":"GO:0033330","count":2},{"id":"GO:0052697","count":2},{"id":"GO:0033485","count":2}]},{"hash":"2164805884285169919","title":"Neural Development Signaling","description":"This cluster centers on neural development-related processes: neural tube closure and dendritic spine morphogenesis indicate neural tissue development and synaptic formation, while VEGF receptor signaling and Wnt pathway regulation reflect common developmental signaling cues. A mitotic spindle term appears but does not define the cluster; overall, the set suggests neurodevelopmental signaling programs.","confidence":"Medium","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051316","count":4},{"id":"GO:0001843","count":4},{"id":"GO:0060997","count":4},{"id":"GO:0002688","count":4},{"id":"GO:0048010","count":4}]},{"hash":"1884493015740735151","title":"T cell activation signaling","description":"Dominant GO terms point to T cell receptor signaling and activation, including ephrin signaling, store-operated calcium channel activation, ERK/MAPK regulation, and Th17 lineage commitment. Small GTPase-mediated signal transduction supports TCR-driven pathways. Some terms (e.g., luteinization) are less clearly related and may reflect annotation noise, but the overall pattern fits T cell activation and differentiation.","confidence":"Medium","size":5,"edges":7,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048013","count":5},{"id":"GO:0050798","count":5},{"id":"GO:0032237","count":5},{"id":"GO:0045588","count":4},{"id":"GO:0070373","count":4}]},{"hash":"482604680711947669","title":"Spliceosome-driven mRNA processing and translation initiation","description":"The cluster centers on RNA processing and surveillance, with terms tied to mRNA splicing via the spliceosome (and its regulation) and mRNA export from the nucleus, plus involvement in the formation of the translation preinitiation complex. Even though several terms are obsolete, the common thread is coordinated mRNA processing and export culminating in translation initiation.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":1},{"id":"GO:1905663","count":1},{"id":"GO:1900363","count":1},{"id":"GO:0048026","count":1},{"id":"GO:0006406","count":1}]},{"hash":"2004440870802693457","title":"Drosophila imaginal disc development and epigenetic transcriptional regulation","description":"The top GO terms strongly point to development of sensory organs in Drosophila imaginal discs (sensory organ precursor fate, thorax closure) together with regulation of transcription and histone acetylation, indicating epigenetic control of developmental gene expression. The presence of histone acetylation terms supports a chromatin-level regulatory theme, though one outlier term (megakaryocyte differentiation) may reflect annotation noise. Overall, the cluster centers on developmental transcriptional regulation in imaginal disc/organogenesis.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0016360","count":5},{"id":"GO:0046529","count":5},{"id":"GO:0006355","count":5},{"id":"GO:0043966","count":5},{"id":"GO:0043982","count":5}]},{"hash":"1891522088785740323","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning amyloid-beta regulation, creatinine metabolism, Mg2+ homeostasis, olfactory learning, calcitonin catabolism, cytokine signaling, IGF signaling, UV-B response, and developmental/respiratory system processes, with no clear shared pathway or cellular context. With no edges and only scattered single-term associations, there is no coherent function tying the proteins together.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902004","count":1},{"id":"GO:0046449","count":1},{"id":"GO:0010961","count":1},{"id":"GO:0008355","count":1},{"id":"GO:0010816","count":1}]},{"hash":"909019839812040562","title":"Plant cell wall polysaccharide biosynthesis","description":"The cluster shows multiple carbohydrate biosynthesis pathways relevant to plant cell walls (UDP-GlcNAc, UDP-glucuronate, (1\u21926)-\u03b2-D-glucan, callose deposition, and related starch/glycogen-like metabolism) and a pollen development term, indicating a focus on wall polymer synthesis and remodeling with some developmental nuances. This combination points to a cohesive theme around cell wall polysaccharide production and modification.","confidence":"Medium","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006035","count":3},{"id":"GO:0006048","count":3},{"id":"GO:0052543","count":3},{"id":"GO:0009555","count":3},{"id":"GO:0016036","count":3}]},{"hash":"1831595512730887065","title":"mRNA Splicing and Nuclear Export","description":"The dominant GO terms are about spliceosome-mediated mRNA splicing (positive and negative regulation) and export of mRNA from the nucleus, indicating proteins in mRNA maturation and trafficking. A secondary signal is the formation of the translation preinitiation complex, suggesting coordination with translation initiation downstream of mRNA processing. Altogether, the cluster appears to group factors involved in mRNA processing and export, with possible ties to translation initiation.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048026","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0006378","count":3},{"id":"GO:1901407","count":3},{"id":"GO:0001731","count":2}]},{"hash":"1035622283602378275","title":"Cell Morphogenesis and Cytoskeletal Dynamics","description":"The terms cluster around cell shaping and division: morphogenesis, mitotic cycle, cleavage furrow formation, podosome assembly, and polarity control, all tied to cytoskeletal remodeling. Transcription and mRNA processing terms likely reflect regulatory steps but do not redefine the core theme. Overall, the proteins appear to function in shaping cells and driving cytokinesis, hence the label.","confidence":"High","size":5,"edges":7,"triangles":4,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000902","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0006397","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0060378","count":3}]},{"hash":"2102030626075140788","title":"Drosophila morphogenesis","description":"This cluster is dominated by GO terms tied to developmental and morphogenetic processes in Drosophila, including embryonic dorsal closure, imaginal disc/wing hair organization, and compound eye photoreceptor development, with supportive terms on germline ring canal formation and centrosome-related cell processes. Together these terms point to a theme of tissue morphogenesis and development in the fruit fly, rather than a single enzymatic or signaling pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007391","count":2},{"id":"GO:0035508","count":2},{"id":"GO:0030725","count":2},{"id":"GO:0046822","count":2},{"id":"GO:0006470","count":2}]},{"hash":"242532877077452931","title":"Mitochondrial import and mitophagy regulation","description":"The top GO terms converge on mitochondrial processes\u2014protein import into the mitochondrial matrix, calcium import into the mitochondrion, and regulation of mitophagy/autophagy of mitochondria, along with negative regulation of ROS metabolism\u2014suggesting a shared role in mitochondrial quality control. Some neuronal or developmental terms may be broader annotations, but the mitochondrial theme is most consistent across the cluster.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000378","count":2},{"id":"GO:0001662","count":2},{"id":"GO:1903146","count":2},{"id":"GO:0030855","count":2},{"id":"GO:0006820","count":2}]},{"hash":"1401241909383565453","title":"Stress and hormone response signaling","description":"The top terms cluster around cellular responses to chemical stress and ligands (lead ion, morphine), along with unfolded protein response and regulation of glucocorticoid receptor signaling, indicating ligand- and stress-induced signaling pathways. Some terms (interferon response, cilium regulation, blood pressure) appear peripheral, possibly reflecting pleiotropy, but the core theme is stress and hormone-related signaling.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010288","count":4},{"id":"GO:0043278","count":4},{"id":"GO:0006986","count":4},{"id":"GO:2000324","count":4},{"id":"GO:0016576","count":4}]},{"hash":"1461073064895957915","title":"Transcription Regulation in Development","description":"The top GO terms cluster around transcription control (negative regulation of transcription by RNA polymerase II, DNA-templated transcription, and transcriptional fidelity maintenance), indicating a core role in regulating gene expression. The additional developmental terms (neural tube formation, endocardium and roof of mouth development, fat cell differentiation, and other lineage/plasticity processes) suggest these regulators participate in developmentally linked transcription programs. Overall, the dominant theme is transcription regulation with developmental associations.","confidence":"High","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0043388","count":5},{"id":"GO:1902262","count":4},{"id":"GO:0033153","count":4}]},{"hash":"1132573916633590620","title":"Unknown","description":"GO terms across the proteins cover immune differentiation, growth factor responses, RNA processing, and viral transcription regulation, with little clear overlap; there is no single cohesive function tying the proteins together, so a specific label isn\u2019t justified.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0045657","count":3},{"id":"GO:0034247","count":3},{"id":"GO:0006414","count":3},{"id":"GO:0071364","count":3},{"id":"GO:0097011","count":3}]},{"hash":"1797689921711723747","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046549","count":1},{"id":"GO:0032774","count":1},{"id":"GO:0071390","count":1},{"id":"GO:0007406","count":1},{"id":"GO:0032147","count":1}]},{"hash":"618815386846213514","title":"Developmental signaling and morphogenesis","description":"The GO terms cluster around signaling pathways (VEGF receptor signaling, Wnt pathway regulation) and morphological development processes (neural tube closure, dendritic spine morphogenesis), plus related cell movement (leukocyte chemotaxis) and cell division checkpoints. Together they suggest a role in signaling-driven development and structural remodeling across cell types, rather than a single specific pathway or function. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051316","count":5},{"id":"GO:0001843","count":5},{"id":"GO:0060997","count":5},{"id":"GO:0002688","count":5},{"id":"GO:0048010","count":5}]},{"hash":"354412986835995043","title":"Unknown","description":"These terms span centrosome localization regulation, MHC class II biosynthesis regulation, mRNA deadenylation, and host-mediated activation of viral genome replication. There is no clear single function or pathway tying them together, suggesting either diverse, unrelated roles or annotation noise; thus the cluster is best described as Unknown with no confidence.","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1904780","count":4},{"id":"GO:0045347","count":4},{"id":"GO:0000289","count":4},{"id":"GO:0044829","count":4}]},{"hash":"1468345825963252857","title":"Innate Immune Response and Macrophage Activation","description":"These proteins are enriched for innate immune signaling, macrophage activation, and regulation of interferon production, with accompanying terms for NF-kappaB signaling, cytokine production (e.g., IL-8), and immune-related responses. The dominant theme is macrophage-driven innate immunity and interferon-mediated regulation, with ancillary notes about vitamin D signaling; a few terms (e.g., brassinosteroid stimulus) are less central but do not override the core immune pattern.","confidence":"High","size":5,"edges":8,"triangles":4,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032479","count":3},{"id":"GO:0009729","count":3},{"id":"GO:0042116","count":3},{"id":"GO:0051770","count":3},{"id":"GO:0033280","count":3}]},{"hash":"26998348746388047","title":"Regulated signaling and morphogenesis","description":"The GO terms cluster around regulation of signaling pathways (Wnt, VEGF signaling, autophagy regulation), development-related processes (neural tube closure, dendritic spine morphogenesis), immune cell movement, and cell-cycle checkpoint signaling. This suggests the proteins act as regulators that shape signaling outcomes and morphogenic processes across development and cell behavior, rather than participating in a single, specific pathway.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051316","count":5},{"id":"GO:0001843","count":5},{"id":"GO:0060997","count":5},{"id":"GO:0002688","count":5},{"id":"GO:0048010","count":5}]},{"hash":"888792409558764079","title":"Developmental Signaling and Morphogenesis","description":"This cluster gathers GO terms tied to developmental processes and tissue morphogenesis across diverse organisms, including organogenesis-related events (neural tube closure, luteinization), tissue migration (fibroblast and endothelial), reproduction and plant development (seed development, vernalization), and growth control signaling (Hippo), with supporting epigenetic regulation (histone modifications). The mix suggests a broad theme of development and morphogenesis rather than a single specific function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001553","count":1},{"id":"GO:0035332","count":1},{"id":"GO:0010761","count":1},{"id":"GO:0016574","count":1},{"id":"GO:0016571","count":1}]},{"hash":"853004627341449180","title":"ECM Remodeling and Innate Immunity","description":"This cluster is dominated by extracellular matrix-related terms (collagen fibril organization, tendon development, basement membrane development) intersecting with innate immunity terms (innate immune response, oxidative stress detection, macrophage differentiation regulation). The overlap points to proteins involved in ECM remodeling that also influence immune signaling, rather than a single canonical pathway.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0046597","count":2},{"id":"GO:0035989","count":2},{"id":"GO:0032836","count":2},{"id":"GO:0070994","count":2}]},{"hash":"1981881499931864521","title":"Complement activation and phagolysosome assembly","description":"This cluster is dominated by immune-related GO terms, notably complement activation (alternative pathway) and complement receptor\u2013mediated signaling, along with phagolysosome assembly, which together point to innate immune responses and intracellular degradation processes. A few terms related to junction assembly and apoptotic regulation are present but much less representative, suggesting the core function is complement-mediated signaling and phagolysosome\u2013related activity rather than cell junction biology. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090528","count":2},{"id":"GO:2001241","count":1},{"id":"GO:0006957","count":1},{"id":"GO:0002430","count":1},{"id":"GO:0034392","count":1}]},{"hash":"2192226139500718692","title":"Neural sensory learning and behavior","description":"The cluster is dominated by GO terms tied to neural function: olfactory learning, conditioned taste aversion, suckling behavior, forward locomotion, and regulation of sensory perception of pain; plus neural processes like long-term synaptic depression and cerebellar granule cell differentiation. A sodium ion transmembrane transport term also points to neuronal excitability. Together these terms point to proteins involved in neural development, sensory processing, and plasticity that underlie learning and behavior.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0001975","count":5},{"id":"GO:0060292","count":5},{"id":"GO:0001661","count":5},{"id":"GO:0001967","count":5},{"id":"GO:0043056","count":5}]},{"hash":"1487687296363090305","title":"Cardiovascular development and hemostasis signaling","description":"The top GO terms include fibrinolysis, positive regulation of blood coagulation, and regulation of arterial blood pressure, pointing to vascular/hemostatic processes. Coupled with development-related terms (digestive system development, multicellular organism growth, Wnt signaling) and transcriptional regulation, the cluster seems to center on cardiovascular development and vascular signaling with coordinated growth and transcriptional control. This suggests a cohesive theme around cardiovascular development and hemostasis, albeit broad. ","confidence":"Medium","size":5,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042730","count":5},{"id":"GO:0045944","count":5},{"id":"GO:0055123","count":5},{"id":"GO:0035264","count":5},{"id":"GO:0003050","count":5}]},{"hash":"1601939281891081380","title":"Notch signaling and membrane proteolysis","description":"The top terms cluster around Notch pathway components, including Notch receptor processing and ectodomain proteolysis, plus amyloid-beta formation, which together suggest gamma-secretase\u2013mediated proteolysis of membrane proteins (Notch and APP). The pharynx development term aligns with Notch\u2019s developmental role. Peripheral terms like insulin secretion and mitochondrial processes are less connected, but don\u2019t outweigh the Notch/proteolysis theme.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007219","count":1},{"id":"GO:0031293","count":1},{"id":"GO:0007220","count":1},{"id":"GO:0034205","count":1},{"id":"GO:0060465","count":1}]},{"hash":"2025863307722335529","title":"Apoptosis Regulation and Cellular Stress Response","description":"The terms cluster around regulation of apoptotic processes (positive/negative regulation, extrinsic signaling, execution phase) plus stress-response signals (cellular response to UV, xenobiotic stimulus) and calcium release regulation, suggesting a cohesive theme of apoptosis control under cellular stress.","confidence":"High","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0033138","count":2},{"id":"GO:0043154","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0043524","count":2},{"id":"GO:0051281","count":2}]},{"hash":"443328188494122244","title":"Embryonic vascular and organ morphogenesis","description":"The cluster shows a pattern of developmental and morphogenetic processes across multiple tissues: branching and endothelial tube formation in blood vessels, brain region (diencephalon) development, heart and fibroblast proliferation, cartilage condensation, and overall multicellular organism development. While there are a few generic stress/apoptosis terms, the dominant signal is embryonic tissue morphogenesis, particularly vascular and organ-level formation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001569","count":2},{"id":"GO:0021536","count":2},{"id":"GO:1901509","count":2},{"id":"GO:0060501","count":2},{"id":"GO:0034605","count":2}]},{"hash":"1148107735483081100","title":"Retinoic acid\u2013driven embryonic eye development","description":"The terms include GO:0071300 cellular response to retinoic acid and GO:0048048 embryonic eye morphogenesis, indicating RA signaling plays a role in ocular development in this cluster. While other terms (fat cell differentiation, ventricular muscle differentiation, luteinization) reflect broader differentiation processes, the RA-related eye development signals are the strongest shared function.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045872","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0090340","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0050728","count":2}]},{"hash":"701369503184267869","title":"Tissue remodeling signaling","description":"GO terms center on signaling and remodeling across tissue contexts, including muscle contraction, fibroblast migration, hyaluronan metabolism (ECM remodeling), prostaglandin response, insulin signaling, placenta development, and immune-related stimuli. The common thread is cellular signaling guiding tissue remodeling and development, though the terms span multiple tissues and processes.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006939","count":2},{"id":"GO:0048680","count":2},{"id":"GO:0030212","count":2},{"id":"GO:0071380","count":2},{"id":"GO:0010763","count":2}]},{"hash":"228265872060616618","title":"Membrane-Localized Signaling in Inflammation and Apoptosis","description":"Top GO terms emphasize membrane localization (plasma membrane, T-tubule) and signaling roles, including regulation of inflammatory responses and extrinsic apoptotic signaling, with some NF-kappaB-related terms. Together, these suggest a cluster of proteins that function at membranes to modulate immune/inflammatory signaling and apoptosis. Some terms are obsolete, but the core pattern supports this membrane-signaling/inflammation-apoptosis theme.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0072661","count":3},{"id":"GO:0032088","count":3},{"id":"GO:0097296","count":2},{"id":"GO:0042489","count":2},{"id":"GO:0036371","count":2}]},{"hash":"1313730171635491395","title":"Ubiquitin-mediated mitosis control","description":"The proteins are annotated with several ubiquitination-related GO terms (ISG15-protein conjugation, autoubiquitination, K29-linked ubiquitination) and with mitosis-related terms (mitotic spindle elongation, exit from mitosis, deactivation of the mitotic spindle assembly checkpoint). This points to a coherent theme of ubiquitin/ubiquitin-like modification regulating mitotic progression. Some terms like peroxisome import and meiotic telomere clustering are less central but do not contradict the main connection.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0000022","count":4},{"id":"GO:0032020","count":4},{"id":"GO:0051865","count":4},{"id":"GO:0016562","count":4},{"id":"GO:1902426","count":4}]},{"hash":"865765698761345392","title":"Neuroimmune Regulation of Synaptic Plasticity","description":"The cluster combines innate immune signaling terms (innate immune response, dsRNA response, interferon-beta production, LPS response) with neural development and plasticity terms (axonogenesis, long-term synaptic potentiation, positive regulation of synapse assembly). This pattern suggests proteins involved in neuroimmune cross-talk that modulates synaptic development and plasticity, rather than a single classical pathway. Some terms (e.g., heart development) appear less specific to the core theme but do not override the dominant link between immune signaling and neural/synaptic processes.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0007409","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0045359","count":2}]},{"hash":"271331839471095325","title":"BMP/TGF-beta signaling regulation","description":"The proteins in this cluster show enrichment for dephosphorylation processes and regulation of BMP signaling and SMAD complex assembly, along with cellular responses to transforming growth factor beta stimulus, pointing to modulation of the BMP/TGF-beta pathway. A few scattered terms (photosystem, meristem identity) are present but do not override the core theme of TGF-beta/BMP pathway regulation.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006470","count":2},{"id":"GO:0030514","count":1},{"id":"GO:0035970","count":1},{"id":"GO:0010991","count":1},{"id":"GO:0080005","count":1}]},{"hash":"1204940698116710769","title":"Neuronal Synaptic Plasticity and Signaling","description":"The cluster is dominated by GO terms tied to synapse development and plasticity, including dendritic spine morphogenesis, synapse structural plasticity, and long-term synaptic depression, as well as retrograde nitric oxide signaling\u2014together pointing to neuronal communication and remodeling. Supporting terms about cochlea morphogenesis and vocalization behavior suggest involvement in neural circuits controlling hearing and behavior. Small GTPase signaling and mitochondrial fission are commonly linked to synaptic remodeling processes, further reinforcing a neuronal synaptic function theme.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071625","count":2},{"id":"GO:0060292","count":1},{"id":"GO:0090103","count":1},{"id":"GO:0060997","count":1},{"id":"GO:0045198","count":1}]},{"hash":"1944772103550138164","title":"Vesicle Trafficking Regulation","description":"The core signals are endocytosis and negative regulation of exocytosis, implying a module of vesicle trafficking/regulation; other terms like protein complex oligomerization and cellular response to glucose are supportive/peripheral, while obsolete nucleotide phosphorylation terms likely reflect annotation noise.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0061508","count":2},{"id":"GO:0051259","count":2},{"id":"GO:0006186","count":2},{"id":"GO:0045920","count":2},{"id":"GO:0050765","count":2}]},{"hash":"1545622884474191315","title":"MAPK signaling regulation and dephosphorylation","description":"The cluster highlights negative regulation of MAPK cascades (ERK1/ERK2, p38) and protein dephosphorylation, complemented by ubiquitin-dependent degradation via multivesicular body sorting. Additional terms indicating Wnt and Rho signaling regulation, along with some tissue-specific processes, suggest these proteins function as broad regulators of signaling and protein turnover rather than a single pathway. Confidence: Medium","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":4},{"id":"GO:0043162","count":4},{"id":"GO:1903753","count":4},{"id":"GO:0006470","count":4},{"id":"GO:2000670","count":4}]},{"hash":"1077362610021640476","title":"GPCR Signaling: Dopamine/Catecholamine Response","description":"The top terms cluster around GPCR signaling and responses to biogenic amines and prostaglandins (dopamine/catecholamine stimulus, prostaglandin stimulus, regulation of GPCR signaling), suggesting a cohesive GPCR-driven signaling module. Some plant-related terms appear in the mix, but the dominant theme is GPCR-mediated signal transduction and catecholamine/neuroendocrine signaling. ","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071380","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0007191","count":3},{"id":"GO:0008277","count":2},{"id":"GO:0010541","count":2}]},{"hash":"433103059957665228","title":"Innate immune signaling and transcription regulation","description":"The top GO terms point to innate immune signaling via the MyD88-dependent TLR4 pathway and regulation of transcription, with additional immune-related terms (pro-T cell differentiation, memory T cell differentiation) suggesting a function linked to immune signaling and transcriptional control. Some non-immune terms appear, but the strongest signals center on immune sensing and transcription regulation, supporting a moderate confidence that this label captures the cluster\u2019s core theme.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035660","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0007527","count":2},{"id":"GO:0045497","count":1},{"id":"GO:1900477","count":1}]},{"hash":"1308001131210675494","title":"Mitotic spindle organization and centrosome maintenance","description":"The GO terms cluster around spindle organization (GO:0007051), establishment of mitotic spindle orientation (GO:0000132), and maintenance of centrosome location (GO:0051661), pointing to mitotic spindle assembly and centrosome function during cell division. Other terms seem incidental, but the core theme is cell division machinery.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043407","count":1},{"id":"GO:0060487","count":1},{"id":"GO:0051661","count":1},{"id":"GO:0007051","count":1},{"id":"GO:0000132","count":1}]},{"hash":"1655291775285266977","title":"Oxidative Stress and Actin Dynamics","description":"The top GO terms point to cellular responses to hydrogen peroxide (oxidative stress) along with actin nucleation and filament polymerization, and regulation of mitochondrial fission. Together these suggest a theme of stress response coupled with cytoskeletal remodeling and mitochondrial dynamics, possibly connected to autophagy and apoptosis pathways. Although there are some auxiliary terms (metal ion response, morphine response), the core cluster revolves around oxidative stress handling and actin/mitochondrial remodeling.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070301","count":2},{"id":"GO:0090140","count":2},{"id":"GO:0045010","count":2},{"id":"GO:0030041","count":2},{"id":"GO:0010940","count":1}]},{"hash":"174537975732642823","title":"Unknown","description":"The Top Terms are highly diverse, spanning immune differentiation (natural killer cell differentiation; TH2 cytokine production; prolactin signaling), neural development and morphogenesis (dendritic spine morphogenesis; retina morphogenesis), transcriptional processing (mRNA processing), vitamin D response, and neurodegeneration-related regulation, with no clear shared function. There are no edges connecting proteins, suggesting a lack of cohesive functional theme, so a specific, high-level label isn\u2019t supported.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007253","count":1},{"id":"GO:0060997","count":1},{"id":"GO:0001779","count":1},{"id":"GO:0071260","count":1},{"id":"GO:0033280","count":1}]},{"hash":"2148988791320434525","title":"Embryonic Development and Inflammation","description":"The cluster combines developmental processes (somite development, outflow tract morphogenesis, multicellular organism development) with immune signaling (NF-kappaB activation, inflammatory response, macrophage activation, interferon production), suggesting proteins involved in embryonic development that are modulated by immune pathways. Peripheral signals like vitamin D response and brassinosteroid detection are present but less central. ","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0003151","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0006954","count":2},{"id":"GO:0061053","count":2}]},{"hash":"658828501980753929","title":"Innate Immune Activation and Interferon Signaling","description":"The top terms heavily point to innate immunity and macrophage-related functions, including innate immune response, cellular response to muramyl dipeptide, and regulation of type I and II interferon pathways, with accompanying regulation of NF-kappaB signaling. This suggests a cohesive cluster of proteins involved in initial antibacterial sensing and interferon-driven signaling in immune cells, despite some noisy annotations (e.g., plant hormone terms) that don\u2019t fit the core theme.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0071225","count":3},{"id":"GO:0060335","count":3},{"id":"GO:0032479","count":2},{"id":"GO:0009729","count":2}]},{"hash":"2091283609920367267","title":"Neural development and neurogenesis","description":"The top GO terms are dominated by nervous system development, neuron development, and neurogenesis, with supporting terms like myelination and neural crest\u2013related differentiation (melanocyte differentiation). While a few terms pertain to other developmental events (cartilage condensation, metanephric glomerular capillary formation), the central pattern points to neural lineage specification and maturation. This makes Neural development and neurogenesis a concise and representative label for the cluster.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0043433","count":2},{"id":"GO:0072277","count":2},{"id":"GO:0048666","count":2},{"id":"GO:0001502","count":2}]},{"hash":"1887852107849978272","title":"Developmental Cell Fate Determination","description":"This cluster is dominated by GO terms about cell fate specification and tissue development (neuroblast, auditory receptor, renal interstitial fibroblast, heart valve formation), suggesting a shared theme of developmental differentiation across lineages. Some terms are tangential (hormone response, morphogenesis in other contexts), but the core signal points to cell fate determination during development.","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0072049","count":2},{"id":"GO:0072141","count":2},{"id":"GO:0007400","count":2},{"id":"GO:0071392","count":2},{"id":"GO:2000820","count":2}]},{"hash":"1141879116638807407","title":"Embryonic development and morphogenesis","description":"The top GO terms cluster around developmental processes across tissues and organs (mesoderm development, palate/roof of mouth formation, cartilage and hair follicle morphogenesis, EMT in endocardial cushion formation, left-right patterning, endocrine system development). This suggests a coherent theme of vertebrate embryonic growth and tissue morphogenesis, rather than a single pathway or cellular process. The term about ribosomal export is less central but does not negate the overall developmental emphasis. Confidence is moderate to high in capturing the dominant signal as a morphogenesis-focused developmental cluster.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":3},{"id":"GO:0035270","count":3},{"id":"GO:0060021","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0003198","count":3}]},{"hash":"1010983191291827790","title":"Chromatin Modification and DNA Damage Response","description":"Top GO terms indicate histone modifications (H4K20 methylation, H4K16 acetylation, H3K36 methylation), ubiquitination, and PARP-related activity, combined with transcriptional regulation and a mitotic G2 DNA damage checkpoint signal. This supports a theme of epigenetic regulation of transcription in the context of DNA damage response, with a few incidental terms (like cortical development) likely representing background annotations. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070512","count":2},{"id":"GO:2000620","count":2},{"id":"GO:0085020","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0000902","count":1}]},{"hash":"2242079010173197818","title":"Complement activation and phagolysosome assembly","description":"The cluster's top GO terms cluster around innate immunity: complement activation (alternative pathway) and complement receptor signaling, plus phagolysosome assembly. These indicate a shared function in opsonization and intracellular pathogen processing, with some apoptotic regulation terms; overall the theme is complement-driven immune response and phagosome-lysosome maturation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:2001241","count":3},{"id":"GO:0006957","count":3},{"id":"GO:0002430","count":3},{"id":"GO:0034392","count":3},{"id":"GO:0090528","count":3}]},{"hash":"676348246527602425","title":"Neuronal cytoskeleton and transport","description":"The GO terms show microtubule dynamics (plus-end depolymerization, spindle assembly/elongation, spindle checkpoint) and intracellular trafficking (endosome to lysosome transport, anterograde axonal transport), along with cerebellar/cerebral cortex development. This points to a cohesive function in cytoskeletal regulation and intracellular transport in neurons, justifying the label.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070462","count":1},{"id":"GO:0008333","count":1},{"id":"GO:0021685","count":1},{"id":"GO:0000022","count":1},{"id":"GO:0008089","count":1}]},{"hash":"1843391349796763723","title":"Complement-Mediated Immune Response","description":"The top GO term is complement activation (classical pathway) with the highest count, supported by additional immune/inflammatory signals such as regulation of cytokine production and apoptotic cell clearance. While there are some development and extracellular matrix terms, the strongest and most coherent theme across the cluster is immune activity centered on the complement system, justifying a label focused on complement-mediated immune response.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":3},{"id":"GO:0021510","count":2},{"id":"GO:0035813","count":2},{"id":"GO:0043277","count":2},{"id":"GO:0001837","count":2}]},{"hash":"864731504357542949","title":"Neural development and glial signaling","description":"These terms cluster around nervous system development and glial activity: glial cell proliferation, regulation of dendritic spine development, and regulation of neuron maturation point to neural growth and synapse formation. Supporting terms (apical protein localization, translation) and other immune-related terms are less central but may reflect broader cellular signaling contexts. Overall, the label highlights the dominant neural-development modality of the proteins.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":2},{"id":"GO:0006412","count":1},{"id":"GO:0045176","count":1},{"id":"GO:0071260","count":1},{"id":"GO:0014009","count":1}]},{"hash":"636369355339706835","title":"Embryonic Organ Morphogenesis","description":"The GO terms for this cluster are dominated by developmental and morphogenetic processes across multiple organs, notably heart valve and pericardial development, with SMAD signaling as a key regulator. Although they span several tissues (craniofacial, hindbrain, etc.), the unifying theme is embryonic morphogenesis and organ formation. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0003251","count":3},{"id":"GO:0060021","count":3},{"id":"GO:0003190","count":3},{"id":"GO:0007182","count":3},{"id":"GO:0016335","count":3}]},{"hash":"23063584225425964","title":"Germline meiosis and translation initiation control","description":"This cluster centers on germline development and meiotic processes, highlighted by terms like meiosis I and male germ-line cyst encapsulation. It also includes components of translation initiation complex assembly and preinitiation complex formation, suggesting coordinated regulation of protein synthesis during meiosis. Additional signals for ubiquitin-dependent protein catabolic process and chromatin regulation imply broader control of protein turnover and gene expression in germ cells. Overall, the dominant theme is germline meiosis with translational control, despite some diverse terms present.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030182","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006511","count":1},{"id":"GO:0001731","count":1},{"id":"GO:0048140","count":1}]},{"hash":"175343591931140634","title":"Cardiovascular and craniofacial development","description":"The proteins appear linked to developmental morphogenesis, especially heart valve formation and pericardium development, with supporting signals for craniofacial and neural development (roof of mouth and hindbrain). SMAD signaling terms further point to TGF-beta/BMP\u2013guided morphogenesis, supporting a cohesive developmental cluster rather than a single specific function.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0003251","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0003190","count":2},{"id":"GO:0007182","count":2},{"id":"GO:0016335","count":2}]},{"hash":"452472668766392225","title":"Motor Neuron Development and Neuromuscular Function","description":"The top terms cluster around neuronal development and motor function (somatic motor neuron differentiation, neurofilament organization, glutamate reuptake, musculoskeletal movement), suggesting a theme of motor neuron\u2013related development and synaptic/neuromuscular signaling. Some terms like collagen and ceramide biosynthesis may support neural tissue structure and membrane biology, but the core signal points to motor neuron development and function.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032964","count":1},{"id":"GO:0060052","count":1},{"id":"GO:0051935","count":1},{"id":"GO:0046513","count":1},{"id":"GO:1905045","count":1}]},{"hash":"692419484494343626","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016539","count":1},{"id":"GO:2000237","count":1},{"id":"GO:0006388","count":1},{"id":"GO:0000971","count":1},{"id":"GO:0019085","count":1}]},{"hash":"538942639862067244","title":"Unknown","description":"The GO terms are highly diverse (reproductive development, hormone response, metabolism, redox, ECM regulation, lipid biosynthesis) with each term represented by a single protein and no network connectivity, offering no single coherent function tying the proteins together. Therefore, there isn\u2019t a clear, interpretable theme to name this cluster. ","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":1},{"id":"GO:0048545","count":1},{"id":"GO:0019878","count":1},{"id":"GO:0006979","count":1},{"id":"GO:0006097","count":1}]},{"hash":"151730834924512602","title":"Cardiac contraction and conduction regulation","description":"These proteins show GO terms dominated by cardiac physiology, including regulation of cardiac muscle cell contraction, regulation of relaxation of muscle, and regulation of cell communication by electrical coupling involved in cardiac conduction. Although a few terms describe unrelated developmental processes (retina layer formation; metanephric development), the dominant theme is control of heart muscle contraction and its electrical coordination, justifying a cardiac-function label.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0086004","count":3},{"id":"GO:0042694","count":3},{"id":"GO:0010842","count":3},{"id":"GO:0072286","count":3},{"id":"GO:2000678","count":3}]},{"hash":"1408041609005729059","title":"Chromatin remodeling and transcription regulation","description":"Proteins in this cluster are annotated with nucleosome assembly, DNA-templated transcription, chromatin remodeling and subtelomeric heterochromatin formation. These GO terms indicate a shared nuclear function related to chromatin structure and regulation of gene expression. While a few terms pertain to plant or neuronal processes (e.g., seed growth, Purkinje cell maturation), the dominant signals converge on chromatin organization and transcription control.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0035390","count":1},{"id":"GO:1904911","count":1},{"id":"GO:0080113","count":1}]},{"hash":"800978659634421443","title":"Mitotic regulation and ubiquitination","description":"Top terms indicate a focus on mitotic progression and spindle dynamics (mitotic spindle elongation, exit from mitosis, deactivation of mitotic spindle assembly checkpoint) together with protein ubiquitination/ISGylation (autoubiquitination, K29-linked ubiquitination, ISG15-protein conjugation). A peripheral peroxisome import term is present but appears less connected. Overall, the cluster seems to reflect mitotic control intertwined with ubiquitin-like protein modifications.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0000022","count":1},{"id":"GO:0032020","count":1},{"id":"GO:0051865","count":1},{"id":"GO:0016562","count":1}]},{"hash":"83224751287221729","title":"Calcium signaling and vesicle trafficking","description":"The top GO terms point to calcium-dependent signaling and vesicular transport processes, including response to amphetamine (neurotransmission), positive regulation of calcineurin-NFAT signaling (calcium-activated transcription), regulation of calcium release from the sarcoplasmic/endoplasmic reticulum, phosphorylation signaling, and Golgi-to-lysosome transport. These together suggest a cohesive theme around calcium-regulated signaling intertwined with vesicle trafficking, possibly in neurons. Some terms (digestion, surfactant homeostasis) appear peripheral or broader, which lowers overall certainty about a single unified function for the cluster.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001975","count":3},{"id":"GO:0051533","count":3},{"id":"GO:0043129","count":3},{"id":"GO:0050774","count":3},{"id":"GO:0010880","count":3}]},{"hash":"217802917882562870","title":"T cell activation and ECM remodeling","description":"This cluster is dominated by GO terms pointing to immune activation (T cell activation, T cell costimulation) alongside extracellular matrix remodeling (regulation of collagen catabolic process, negative regulation of ECM disassembly, integrin-mediated cell-cell adhesion), suggesting a coherent theme of immune signaling linked to matrix dynamics and cell adhesion; a few terms appear unrelated (behavioral or xenobiotic catabolism) but do not override the core pattern.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030245","count":2},{"id":"GO:0036343","count":2},{"id":"GO:0033632","count":2},{"id":"GO:0019608","count":2},{"id":"GO:1900119","count":2}]},{"hash":"1467227471585453677","title":"Synaptic Vesicle Exocytosis & Receptor Trafficking","description":"The cluster is dominated by GO terms tied to neuronal communication and synaptic activity: vesicle priming/fusion, calcium-regulated neurotransmitter exocytosis, and insertion or internalization of neurotransmitter receptors, plus regulation of synapse assembly and axonogenesis. The presence of growth hormone and insulin secretion terms suggests secretory processes may extend to neuroendocrine signaling, but the core theme is synaptic transmission machinery and receptor trafficking.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031915","count":2},{"id":"GO:0030252","count":2},{"id":"GO:0032024","count":2},{"id":"GO:0099590","count":2},{"id":"GO:0051963","count":2}]},{"hash":"725257366669485008","title":"Nuclear transport and RNA processing","description":"This cluster is enriched for GO terms related to moving RNA and ribonucleoproteins between the nucleus and cytoplasm, including mRNA export, ribosomal protein import, tRNA transport, and Ran signaling, indicating a core function in nuclear import/export and RNA metabolism.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":3},{"id":"GO:0034599","count":3},{"id":"GO:0060188","count":2},{"id":"GO:0006610","count":2},{"id":"GO:0030953","count":2}]},{"hash":"1303790712393078427","title":"Oxidative stress response and protein maintenance","description":"Based on the top GO terms, especially cellular response to hydrogen peroxide, protein repair, and protein modification, the cluster appears to be tied to handling oxidative stress and maintaining protein integrity, though a few unrelated terms (lipid metabolism and development) are also present, making the link moderately cohesive.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070301","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0030091","count":1},{"id":"GO:1990355","count":1},{"id":"GO:0006464","count":1}]},{"hash":"1020989806029831653","title":"Immune signaling and GI epithelial maintenance","description":"The top GO terms point to innate and adaptive immune activity (innate immune response, positive regulation of T cell proliferation, CCR7 signaling) and to epithelial barrier aspects (maintenance of gastrointestinal epithelium, protein localization to cell junction). While the terms are diverse, the strongest theme is immune activation in conjunction with GI epithelial barrier dynamics, with additional metabolic and inflammatory process terms that often accompany immune responses. This suggests a cluster focused on immune signaling linked to the GI epithelium rather than a single, narrow pathway. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0006751","count":1},{"id":"GO:0006750","count":1},{"id":"GO:1901750","count":1},{"id":"GO:0030277","count":1}]},{"hash":"2050955102411337595","title":"Developmental Morphogenesis and Cell Adhesion","description":"The terms point to various developmental processes (neural plate development, metanephros morphogenesis, germline/oocyte localization, CNS vasculogenesis) and cell\u2013cell adhesion, with supporting hints from cytoskeletal regulation (GTPase activity) and organelle dynamics (vacuole inheritance/fusion). This suggests a broad theme of embryonic development and tissue formation rather than a single specific pathway, hence a developmental/morphogenesis-focused label with some diversity of processes.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0003338","count":1},{"id":"GO:0022009","count":1},{"id":"GO:0030720","count":1},{"id":"GO:0000011","count":1}]},{"hash":"588490898402563898","title":"Lipid and small-molecule biosynthesis","description":"The GO terms are dominated by biosynthetic processes for lipids and related small molecules (poly-hydroxybutyrate, sphingolipids, mycolic acids, phylloquinone) and include retinol and cofactor biosynthesis, pointing to a metabolic theme centered on lipid and small-molecule production, with some unrelated annotations likely noise.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042619","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0030148","count":1},{"id":"GO:0030324","count":1},{"id":"GO:0042572","count":1}]},{"hash":"196766273085268477","title":"Immune Activation and Cytokine Production","description":"Based on the GO terms, this cluster is dominated by immune-related functions: regulation of NF-kappaB signaling, production of TNF and type II interferon, and processes related to T cell activation, macrophage differentiation, and dendritic cell migration. These suggest a coherent theme of immune signaling and cytokine regulation, with a few terms touching on broader cell motility or division (cell polarity maintenance, mitotic spindle assembly) that are less central to the cluster\u2019s core identity. Overall, the most representative signal is immune activation and cytokine production.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043124","count":3},{"id":"GO:0071260","count":2},{"id":"GO:0032729","count":2},{"id":"GO:0097202","count":2},{"id":"GO:0032760","count":2}]},{"hash":"965551643307997077","title":"Unknown","description":"The GO terms are highly diverse (cocaine response, neuron and placenta development, chemotaxis, metabolism, hypoxia detection, signaling regulation) and there is little coherence among them given only a few proteins and a single edge. This suggests no clear, unified function driving the cluster, likely reflecting noisy or mixed annotations rather than a true shared role.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":2},{"id":"GO:0033160","count":2},{"id":"GO:0006935","count":2},{"id":"GO:0045793","count":2},{"id":"GO:0006006","count":2}]},{"hash":"1107750846975430587","title":"Ubiquitin-Mediated Proteostasis and Cell Cycle Regulation","description":"The top GO terms cluster around ubiquitin-related processes (autoubiquitination, K29-linked ubiquitination, ISG15 conjugation) and ER-associated degradation, plus peroxisome import receptor recycling and mitotic spindle/mitosis exit, pointing to a unified theme of ubiquitin-dependent protein turnover and quality control that also governs cell-cycle events and stress responses.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":3},{"id":"GO:0070911","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0000022","count":2}]},{"hash":"708937080615635294","title":"CNS and eye development","description":"The top GO terms are dominated by central nervous system and eye-related developmental processes, including optic nerve development, ocellus development, cerebral cortex development, spinal cord neuron differentiation, and CNS development. This pattern suggests the proteins act in neural tissue formation and neuronal fate specification, particularly for brain and visual system structures. A single outlier term for pancreas development may reflect broader developmental annotations rather than a shared function. Therefore the cluster is best described as CNS and eye development.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021554","count":2},{"id":"GO:0021987","count":2},{"id":"GO:0021912","count":2},{"id":"GO:0008056","count":2},{"id":"GO:0021527","count":2}]},{"hash":"1476370753930315252","title":"Unknown","description":"The top GO terms are scattered across several distinct processes, including ubiquitination (K29-linked ubiquitination, protein autoubiquitination), ubiquitin-dependent endocytosis, and autophagy-related pathways (ribophagy, vacuole targeting to autophagy), as well as unrelated terms like sperm entry and epithelial morphogenesis, and transcription regulation. With only three proteins and no edges, there\u2019s no single cohesive function that clearly ties these terms together, so a specific, representative label isn\u2019t warranted beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000780","count":1},{"id":"GO:0071211","count":1},{"id":"GO:0035037","count":1},{"id":"GO:0070086","count":1},{"id":"GO:0051865","count":1}]},{"hash":"1295087555951435232","title":"Neuronal Synaptic Vesicle Cycling","description":"GO terms coalesce around synaptic transmission, vesicle cycling, and endocytosis (GABA secretion, retrograde vesicle transport, clathrin-dependent endocytosis), along with synaptic plasticity regulation and neuron\u2013glia interactions. This points to proteins involved in neuronal synaptic vesicle recycling and related endocytic processes, with glial involvement in synapse maintenance.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021813","count":1},{"id":"GO:0007258","count":1},{"id":"GO:2000643","count":1},{"id":"GO:0014051","count":1},{"id":"GO:0035264","count":1}]},{"hash":"1487365878361621512","title":"Neural morphogenesis and signaling","description":"The top GO terms cluster around neural development and morphology, including dendritic spine morphogenesis and PNS myelin maintenance, with supporting signaling terms (prolactin, insulin receptor signaling) that can function in neural contexts; together they suggest a theme of neural morphogenesis and signaling rather than unrelated processes.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060997","count":3},{"id":"GO:0046628","count":3},{"id":"GO:0035156","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0014066","count":3}]},{"hash":"217159870120288970","title":"Unknown","description":"This cluster's GO terms span spindle attachment, neural development, immune signaling, VEGF signaling, autophagy regulation, Wnt signaling, and DNA damage responses. They do not reveal a single coherent function shared by all members, instead suggesting diverse roles across contexts. Therefore a concise, representative label cannot be determined.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051316","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0002688","count":3},{"id":"GO:0048010","count":3}]},{"hash":"1546962132027019195","title":"Unknown","description":"The GO terms span diverse biological areas including cell division, neural development, immune signaling, angiogenesis, autophagy regulation, and broad signal transduction; there isn\u2019t a single cohesive function tying these proteins together, suggesting the cluster is multifunctional or spans unrelated processes.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051316","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0060997","count":2},{"id":"GO:0002688","count":2},{"id":"GO:0048010","count":2}]},{"hash":"1040436536288463386","title":"Carbohydrate Membrane Transporters","description":"This cluster shows multiple GO terms tied to transmembrane transport of sugars (trehalose, galactose, xylose, fructose) and related ions (sodium) and transport activities, pointing to membrane transporter proteins involved in carbohydrate uptake or exchange. A nearby lactose biosynthesis term is more metabolic context rather than transport, but the dominant theme is carbohydrate transport across membranes.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015771","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0015757","count":3},{"id":"GO:0052106","count":3},{"id":"GO:0042149","count":3}]},{"hash":"2209314536457383015","title":"Rho/Rac Signaling Inhibitors","description":"Top GO terms show negative regulation of stress fiber assembly and negative regulation of Rho and Rac GTPase signaling, pointing to suppression of actin cytoskeleton remodeling. The presence of small GTPase\u2013mediated signaling and related transport processes supports a role in coordinating cytoskeletal dynamics across contexts, including endothelial tube formation. Thus, the cluster is best described as inhibitors of Rho/Rac pathways with cytoskeletal consequences.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051497","count":3},{"id":"GO:0035024","count":3},{"id":"GO:0035021","count":3},{"id":"GO:0097498","count":3},{"id":"GO:0007269","count":3}]},{"hash":"1651485185950025886","title":"Embryonic organ morphogenesis","description":"GO terms in this cluster point to developmental shaping of multiple organs during embryogenesis (craniofacial structures, eye, ear/cochlea, digits, brain regions, and insect-specific organs like the ring gland). This suggests the proteins act in broad embryonic morphogenesis rather than a single tissue, justifying a label centered on embryonic organ formation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":2},{"id":"GO:0030238","count":1},{"id":"GO:0097402","count":1},{"id":"GO:0090103","count":1},{"id":"GO:0042733","count":1}]},{"hash":"1008453849310278172","title":"Growth factor signaling and neural development","description":"This cluster centers on growth-factor\u2013driven signaling, including VEGF and HGF pathways, with downstream ERK1/2 and PI3K/AKT cascades, receptor clustering, and cell-matrix adhesion. The presence of forebrain development and neural-context terms (environmental enrichment response) suggests a neural development/plasticity role influenced by growth factor signaling, making a cohesive theme of growth factor signaling in neural contexts.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048010","count":2},{"id":"GO:0035729","count":2},{"id":"GO:0007160","count":2},{"id":"GO:0051897","count":2},{"id":"GO:0043113","count":2}]},{"hash":"1807094710436803719","title":"Lipid and Retinoid Metabolism","description":"The top GO terms cluster around metabolism and processing of lipophilic compounds and vitamins (retinol metabolism, regulation of retinoic acid receptor signaling, bile acid and prostaglandin biosynthesis, and glucuronate catabolism), with broader digestion and detox-related terms. This suggests a theme of lipid/vitamin metabolism and related signaling rather than a single specific function, justifying the label Lipid and Retinoid Metabolism.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070485","count":3},{"id":"GO:0035229","count":3},{"id":"GO:0042572","count":3},{"id":"GO:0048385","count":3},{"id":"GO:0030573","count":3}]},{"hash":"290732256351788893","title":"Gut mucosal immunity and epithelial barrier","description":"The top GO terms converge on intestinal epithelial maintenance and barrier integrity (GO:0030277), cell junction localization (GO:0042742), innate immunity and defense against bacteria, immunoglobulin transcytosis via PIgR, and regulation of T cell activity (CCR7 signaling and proliferation), indicating a coordinated gut mucosal function that links epithelial barrier with immune surveillance and antibody-mediated defense.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030277","count":3},{"id":"GO:0046814","count":2},{"id":"GO:0042102","count":2},{"id":"GO:1903082","count":2},{"id":"GO:1902414","count":2}]},{"hash":"2046983764156067679","title":"Developmental ECM Remodeling","description":"The cluster shows strong representation of extracellular matrix-related terms (collagen fibril organization, proteoglycan catabolic process) and developmental processes (lung development, chondrocyte proliferation, ovulation), suggesting proteins involved in tissue remodeling during organogenesis and cartilage formation. Growth factor signaling and proteolysis regulation (e.g., IGF signaling and plasminogen activation) further support a remodeling/ growth context. Immune-related terms are present but less central to the core theme, so the primary signal is development with ECM remodeling.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035988","count":2},{"id":"GO:0043569","count":2},{"id":"GO:0010757","count":2},{"id":"GO:0045636","count":2},{"id":"GO:0006957","count":2}]},{"hash":"1593114175829197835","title":"Immune and neural signaling pathways","description":"The terms include immune-related regulation (B cell receptor signaling, NK cell cytotoxicity, Th1 commitment, phagocytosis regulation) and neuronal development (dendritic spine morphogenesis), alongside general signaling pathway terms (insulin receptor, PI3K, Ras). This points to a cluster of proteins acting as regulators of signal transduction in both immune and neural contexts, rather than a single specialized function.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":3},{"id":"GO:0046628","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0014066","count":3},{"id":"GO:0050859","count":3}]},{"hash":"1819606339783632568","title":"Developmental signaling and morphogenesis","description":"The proteins cluster together with GO terms spanning neural tube closure, dendritic spine morphogenesis, VEGF and Wnt signaling, leukocyte chemotaxis, and mitotic/ checkpoint processes, suggesting a broad theme of signaling and morphogenesis in development and cellular regulation rather than a single specific function.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051316","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0002688","count":3},{"id":"GO:0048010","count":3}]},{"hash":"554865715237342583","title":"Neuronal signaling and sensory processing","description":"The top GO terms cluster around neural communication: glycinergic and dopaminergic synaptic transmission, regulation of dopamine secretion, and regulation of nerve impulse transmission. There are also terms related to sensory perception (sound detection) and behavioral responses (ethanol response, conditioned taste aversion), pointing to neuronal signaling and sensory processing roles. A few terms about skeletal muscle growth and cartilage morphogenesis appear, but are less central to the main theme. ","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048630","count":2},{"id":"GO:0014061","count":1},{"id":"GO:0001661","count":1},{"id":"GO:0060012","count":1},{"id":"GO:0032226","count":1}]},{"hash":"1835948686468905892","title":"Muscle-ECM remodeling and inflammation","description":"The cluster includes GO terms tied to muscle cell homeostasis, collagen biosynthesis, and smooth muscle cell-matrix adhesion, indicating extracellular matrix remodeling in muscle tissue. It also features inflammatory signals (IL-1\u03b2 production and neutrophil-mediated activity) and a cardiovascular element (regulation of blood pressure by ANP), suggesting a combined theme of muscle-ECM remodeling with inflammatory and vascular regulation.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0032967","count":3},{"id":"GO:0046716","count":3},{"id":"GO:0003050","count":2},{"id":"GO:0035264","count":2}]},{"hash":"1639063063337590273","title":"Neural development and sensory function","description":"The terms cluster around nervous system development and sensory tissues (olfactory lobe development, retina homeostasis, axon extension/regeneration, and behavior). Although a few terms touch on immune or viral processes, the dominant signals point to neural growth, wiring, and sensory organ maintenance, suggesting these proteins function in neural development and sensory system regulation.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0038091","count":3},{"id":"GO:0030277","count":3},{"id":"GO:0048691","count":3},{"id":"GO:0001895","count":3},{"id":"GO:0046814","count":3}]},{"hash":"256034286167184738","title":"Axon Guidance and Neural Crest Development","description":"The top GO terms cluster around neural development and axon pathfinding, including anterior/posterior axon guidance and semaphorin-plexin signaling, as well as neural crest cell migration and olfactory development. While there are some immune-related terms (T cell regulation, antigen presentation) present in the set, the strongest signal is neural development and axon guidance, with neural crest involvement being a component of this theme. Confidence: Medium","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0021988","count":3},{"id":"GO:0042102","count":3},{"id":"GO:0050690","count":3},{"id":"GO:0001916","count":3},{"id":"GO:1902287","count":3}]},{"hash":"39798678375407310","title":"Regulated Type I Interferon Production and Macrophage Activation","description":"The cluster's top GO terms converge on innate immune responses with macrophage activation and tight regulation of signaling pathways (type I IFN production, NF-kappaB signaling, ERK cascade), plus related processes like inflammatory mediator regulation and membrane repair, suggesting a cohesive role in controlled macrophage-driven innate immunity.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032479","count":3},{"id":"GO:0070373","count":3},{"id":"GO:0042116","count":3},{"id":"GO:0051770","count":3},{"id":"GO:0033280","count":3}]}]