[{"hash":"1443493918430266168","title":"Epithelial Polarity and Adhesion Regulation","description":"The top GO terms point to epithelial cell organization and adhesion processes, including negative regulation of stress fiber assembly, positive regulation of epithelial-to-mesenchymal transition, regulation of integrin-mediated adhesion, and establishment of epithelial apical/basal polarity, along with brush border assembly. Endosome transport and growth hormone signaling provide added context for membrane trafficking and signaling linked to polarity and adhesion. A few terms related to neural development and balance are present but appear less central to the main theme. Overall, the cluster seems best described by epithelial polarity and adhesion regulation.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0051497","count":9},{"id":"GO:0010718","count":9},{"id":"GO:0033628","count":8},{"id":"GO:1904970","count":8},{"id":"GO:0060396","count":8}]},{"hash":"563851071622276667","title":"Viral manipulation of host RNA interference and apoptosis","description":"The cluster is enriched for RNA processing terms (miRNA and siRNA processing) and several virus-related regulatory terms (positive regulation by virus of viral protein levels, positive regulation of viral genome replication, and negative regulation of defense response to virus), plus motor neuron apoptotic processes. This suggests a theme around viral interactions with host RNA interference pathways and associated apoptosis, rather than a single canonical cellular process. Confidence: Medium","confidence":"","size":29,"edges":249,"triangles":1426,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":4},{"id":"GO:0046726","count":3},{"id":"GO:0097049","count":3},{"id":"GO:2000628","count":3},{"id":"GO:0045070","count":3}]},{"hash":"978397449518246673","title":"Developmental Polarity and Cytoskeletal Regulation","description":"The cluster centers on processes that govern cell shape and polarity (maintenance of cell polarity, embryonic cell shape), cytoskeletal organization (septin ring organization), and development (neuron projection development, spermatogenesis, cell differentiation, exit from mitosis). Regulation of exocytosis and sperm mitochondrion organization further tie membrane trafficking and organelle remodeling to morphogenesis. Together, these terms point to a cohesive role in polarity-driven developmental regulation and cytoskeletal dynamics across germline and neural contexts.","confidence":"Medium","size":29,"edges":189,"triangles":508,"max_degree":28,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0031175","count":8},{"id":"GO:0007283","count":8},{"id":"GO:0030011","count":8},{"id":"GO:0030154","count":8},{"id":"GO:0051291","count":8}]},{"hash":"983885366060438333","title":"Embryonic organ morphogenesis","description":"The cluster is dominated by GO terms for embryonic development and morphogenesis across multiple organs (forelimb, palate, skeletal system, spleen, trigeminal nerve, lung) and by multicellular organism development, suggesting proteins that participate in embryonic tissue patterning and organ formation.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0035115","count":7},{"id":"GO:0060021","count":7},{"id":"GO:0048536","count":6},{"id":"GO:0007275","count":6}]},{"hash":"2076019321369623493","title":"Platelet-immune adhesion and phagocytosis signaling","description":"Most prominent GO terms point to immune-vascular interactions: leukocyte tethering/rolling, phagocytosis/recognition, platelet activation, and positive regulation of cell adhesion molecule production, along with arachidonate secretion. This suggests a cohesive theme of inflammatory and hemostatic signaling between platelets and immune cells. A few kidney development terms appear as outliers, likely reflecting shared or pleiotropic gene functions rather than a core cluster theme. Overall, the core signal is immune-platelet adhesion and phagocytic/innate immune activity.","confidence":"Medium","size":29,"edges":83,"triangles":275,"max_degree":13,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0090238","count":13},{"id":"GO:2000502","count":13},{"id":"GO:0060355","count":13},{"id":"GO:0010572","count":13},{"id":"GO:0050901","count":13}]},{"hash":"646137637561364682","title":"DNA Replication and Cell Cycle Proteins","description":"The top GO terms are dominated by DNA replication, DNA-templated transcription, mitotic cell cycle, and DNA repair, pointing to a core role in genome duplication and genome maintenance. While a few neural development/vision terms appear, they likely reflect shared regulatory factors or annotation overlap, not a primary theme of this cluster. Confidence is High.","confidence":"","size":29,"edges":104,"triangles":88,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":29},{"id":"GO:0006351","count":28},{"id":"GO:0051973","count":28},{"id":"GO:0000278","count":28},{"id":"GO:0006281","count":28}]},{"hash":"2212475662409579656","title":"Cell Cycle and Growth Signaling","description":"The cluster shows strong enrichment for DNA replication and cell cycle processes alongside regulatory signaling pathways (Hippo, Wnt, TGF-\u03b2) and differentiation/apoptosis terms, suggesting proteins that coordinate proliferation with growth and developmental signaling.","confidence":"High","size":29,"edges":18,"triangles":1,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":14},{"id":"GO:0007049","count":13},{"id":"GO:0045944","count":13},{"id":"GO:0035329","count":11},{"id":"GO:0030216","count":11}]},{"hash":"366905880738035370","title":"Dendritic spine morphogenesis and synapse plasticity","description":"The cluster centers on neuronal connectivity and remodeling, with GO terms for dendritic spine morphogenesis, regulation of synapse structural plasticity, and JNK signaling, plus related neural traits like social behavior and transcription regulation. While some terms touch on broader developmental processes (mesoderm formation, apoptosis), the prevailing signals point to synaptic development and plasticity in neurons.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0043507","count":5},{"id":"GO:0035176","count":5},{"id":"GO:0060997","count":5},{"id":"GO:0006355","count":5},{"id":"GO:0051835","count":5}]},{"hash":"2153243082650850253","title":"Developmental signaling regulators","description":"The cluster shows enrichment for developmental processes across tissues (heart, uterus) and neuronal morphogenesis, along with broad regulatory roles on signaling pathways (negative regulation of MAP kinase activity and phosphorylation) and protein turnover (ubiquitination), plus immune-related regulation of B cells. This suggests the proteins act as general regulators of development and signaling rather than a single, specific pathway.","confidence":"Medium","size":29,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0050774","count":3},{"id":"GO:0043407","count":3},{"id":"GO:0060065","count":3},{"id":"GO:0010801","count":3}]},{"hash":"1639237601788068853","title":"Ribosome Biogenesis and rRNA Processing","description":"This cluster is strongly enriched for GO terms related to ribosome assembly and rRNA maturation, including maturation of LSU-rRNA and 5.8S rRNA, cleavage events separating rRNA segments, and formation of translation preinitiation complexes. These together point to a cooperative group of proteins involved in ribosome biogenesis and rRNA processing, with additional signals of growth-related regulation (TORC1 signaling, cell division).","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000463","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0030433","count":4},{"id":"GO:0042273","count":4},{"id":"GO:0000447","count":4}]},{"hash":"2286763425520465824","title":"Neuronal Synaptic Plasticity and Glial Differentiation","description":"Dominated by synaptic plasticity and neurotransmission terms (regulation of neuronal synaptic plasticity, long-term potentiation, neurotransmitter secretion, calcium signaling) plus astrocyte differentiation, suggesting neuronal signaling with glial involvement; a few terms reflect broader signaling and differentiation across tissues.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048168","count":11},{"id":"GO:0060291","count":10},{"id":"GO:0071277","count":9},{"id":"GO:0043065","count":9},{"id":"GO:0036324","count":9}]},{"hash":"1695326880982663138","title":"Neural development and synaptic plasticity","description":"The top GO terms cluster around nervous system development and synaptic activity: visual perception, axonogenesis, long-term synaptic potentiation, excitatory postsynaptic potential, and Schwann cell development. While there are some cell cycle and apoptotic terms present, the dominant signals point to neuronal growth, synapse formation and strengthening, and glial support, making this a concise label for the cluster.","confidence":"High","size":29,"edges":4,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":19},{"id":"GO:0007409","count":19},{"id":"GO:0043065","count":18},{"id":"GO:0060291","count":18},{"id":"GO:0060079","count":18}]},{"hash":"1755073411653350225","title":"Brain development and neural differentiation","description":"This cluster is characterized by strong representation of brain development, cerebral cortex development, and cell differentiation terms, indicating a cohesive theme around neural development and maturation, with additional terms like androgen responses (xenobiotic/antibiotic responses) and DNA repair being less central.","confidence":"Medium","size":29,"edges":37,"triangles":13,"max_degree":9,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0030420","count":4},{"id":"GO:0030154","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0021987","count":4}]},{"hash":"1100419476300880120","title":"Cytoskeletal remodeling in epithelial and sensory development","description":"The top GO terms point to cytoskeletal dynamics (stress fibers, terminal web) and epithelial architecture (brush border, EMT, integrin-mediated adhesion), along with various sensory-related differentiation and function terms (photoreceptor differentiation, equilibrioception, synapse plasticity, calcium detection). Together they suggest a theme of cytoskeletal remodeling coordinating epithelial structure and sensory cell differentiation, rather than a single tissue-specific process. Confidence: Medium","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0048741","count":6},{"id":"GO:0005513","count":6},{"id":"GO:0033628","count":6},{"id":"GO:1904970","count":6},{"id":"GO:0001751","count":6}]},{"hash":"1021776515643610475","title":"Chromatin remodeling and transcription regulation","description":"This cluster is enriched in chromatin-related processes (heterochromatin formation, chromatin remodeling, chromatin assembly during DNA replication) and transcription control (negative regulation of RNA polymerase II, transcription initiation-coupled remodeling, chromatin localization). While a few terms like spermatogenesis and Rho signaling appear, the dominant theme centers on nuclear chromatin organization and transcription regulation.","confidence":"High","size":29,"edges":89,"triangles":73,"max_degree":15,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0051290","count":21},{"id":"GO:0000122","count":19},{"id":"GO:0000183","count":14},{"id":"GO:0045815","count":14},{"id":"GO:0006335","count":14}]},{"hash":"1162430935396454443","title":"Neurodevelopmental Signaling","description":"This cluster centers on nervous system development and neurogenesis, with strong representation of developmental signaling pathways such as Roundabout (ROBO) and Smoothened/Hedgehog. The presence of angiogenesis and organogenesis terms (kidney, vagina development) points to a broader developmental network, complemented by signaling activity (STAT phosphorylation) and T cell receptor signaling. Together, these terms suggest a cohesive module of proteins involved in neurodevelopmental signaling and related developmental processes.","confidence":"High","size":29,"edges":399,"triangles":3470,"max_degree":28,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007399","count":8},{"id":"GO:0042517","count":8},{"id":"GO:0001525","count":7},{"id":"GO:0006915","count":6},{"id":"GO:0060068","count":6}]},{"hash":"1663091636862614719","title":"Developmental cell cycle regulation and migration","description":"The top GO terms converge on regulation of the cell cycle and its mitotic aspects (cell cycle regulation, negative regulation of mitotic cell cycle, cohesion, cytokinesis), with several development-related terms (fungiform papilla formation, cranial ganglion development, prostate gland development) and a notable note on cell migration. This suggests proteins that coordinate cell division with developmental processes and tissue remodeling, rather than a single metabolic or structural function. Therefore the label reflects a coherent theme of developmental control of cell division and related cellular movements.","confidence":"Medium","size":29,"edges":406,"triangles":3654,"max_degree":28,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":22},{"id":"GO:0032471","count":20},{"id":"GO:0061198","count":20},{"id":"GO:0032467","count":20},{"id":"GO:0042144","count":20}]},{"hash":"1877658510895972159","title":"Cell cycle, cytoskeleton dynamics, and vesicle transport","description":"This cluster is dominated by terms related to the mitotic cell cycle and general cell cycle processes, plus strong signals for cytoskeletal remodeling (filopodium assembly, adhesion-dependent spreading) and membrane trafficking (Golgi transport, vesicle transport). Ubiquitination further suggests regulation of protein turnover during these processes. Developmental terms like brain and spermatid development exist but do not outweigh the central theme of cell-cycle progression coupled with cytoskeletal and trafficking dynamics.","confidence":"High","size":29,"edges":20,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":11},{"id":"GO:0000278","count":11},{"id":"GO:0007049","count":10},{"id":"GO:0016567","count":10},{"id":"GO:0007286","count":10}]},{"hash":"129399564263536890","title":"Multisystem Development and Differentiation","description":"These proteins cluster around developmental differentiation across several tissues (retina, pancreas, pituitary, bone, muscle, neurons), with a recurring emphasis on transcription by RNA polymerase II, suggesting a module of general developmental regulation rather than a single organ function.","confidence":"Medium","size":29,"edges":402,"triangles":3550,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060041","count":17},{"id":"GO:0006366","count":14},{"id":"GO:0002076","count":14},{"id":"GO:0002087","count":14},{"id":"GO:0003322","count":13}]},{"hash":"492284753895050504","title":"Neuronal GPCR Endocytosis and Visual Signaling","description":"The cluster is dominated by GO terms for clathrin-dependent endocytosis and GPCR internalization, indicating a set of proteins involved in receptor trafficking and endocytic signaling. The presence of axonogenesis and visual perception terms suggests a neuronal/retinal context, aligning endocytic GPCR regulation with visual system signaling. Some inflammatory regulation terms appear but seem secondary to the main endocytic/neural theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0072583","count":7},{"id":"GO:0002031","count":7},{"id":"GO:0043547","count":5},{"id":"GO:0032088","count":5},{"id":"GO:0032715","count":5}]},{"hash":"370099676315582663","title":"Adaptive immune signaling and angiogenesis","description":"The top GO terms strongly group around adaptive immune functions (adaptive immune response, B cell receptor signaling, Fc-epsilon signaling, IL-2 production, complement activation), with concurrent enrichment for vascular processes (angiogenesis, endothelial cell migration). This suggests a cluster centered on immune activation intertwined with vascular remodeling, with a few terms (like CNS development) that are less central but present in the same protein set.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002250","count":17},{"id":"GO:0050853","count":14},{"id":"GO:0070374","count":13},{"id":"GO:0001525","count":13},{"id":"GO:1900042","count":13}]},{"hash":"2299583999575543991","title":"Neural cell adhesion and synapse development","description":"This cluster is dominated by GO terms related to cell-cell adhesion (both heterophilic and homophilic), nervous system development, and synapse assembly, suggesting a focus on neural connectivity and synaptogenesis. While there are a few broader or non-neural terms present (e.g., bone ossification, symbiont entry), the strongest signal centers on neural adhesion and synaptic development.","confidence":"Medium","size":29,"edges":10,"triangles":0,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":18},{"id":"GO:0043931","count":16},{"id":"GO:0051965","count":15},{"id":"GO:0007399","count":15},{"id":"GO:0007156","count":15}]},{"hash":"1601802009254565135","title":"Rho GTPase signaling and cytoskeletal remodeling","description":"This cluster is driven by GO terms for regulation of GTPase activity, particularly Rho signaling, and closely linked to cytoskeletal dynamics (actin filament assembly, contractile rings) and GPCR-related pathways, with additional ties to membrane repair and vascular remodeling. The shared theme is Rho-mediated regulation of the cytoskeleton underpinning signaling, membrane processes, and vessel/immune contexts.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043087","count":6},{"id":"GO:0035023","count":5},{"id":"GO:0001778","count":5},{"id":"GO:0070493","count":5},{"id":"GO:0016525","count":4}]},{"hash":"505589295908534672","title":"Cardiac development and cytoskeleton remodeling","description":"The top GO terms include heart development, regulation of Rho signaling, actin cytoskeleton organization, and cell migration, pointing to a core theme of cardiac morphogenesis coupled with cytoskeletal dynamics. Additional terms for membrane trafficking and sterol biosynthesis align with membrane remodeling required during development, supporting a cohesive view of heart development driven by cytoskeletal and membrane processes.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007507","count":21},{"id":"GO:0035023","count":21},{"id":"GO:0010765","count":21},{"id":"GO:0061000","count":21},{"id":"GO:0016477","count":19}]},{"hash":"390833252815091775","title":"Embryonic Development and Morphogenesis","description":"Proteins here are enriched across a broad set of developmental processes, including placental and pancreatic cell development, cartilage morphogenesis, endocardial EMT, trophoblast differentiation, endocrine system development, left-right patterning, and morphogenesis of facial structures and hair follicles. The common theme is embryonic tissue development and morphogenesis across multiple organs, rather than a single specific pathway.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060806","count":20},{"id":"GO:0003323","count":20},{"id":"GO:0060536","count":20},{"id":"GO:0003198","count":20},{"id":"GO:0060707","count":20}]},{"hash":"249123786069909705","title":"Transcriptional Regulation and Signaling Cluster","description":"This cluster centers on regulatory functions, with multiple proteins annotated for transcriptional control (RNA polymerase II) and modulation of signaling pathways (smoothened, IGF receptor signaling), plus associated cell-cycle and developmental/metabolic regulatory roles (macrophage differentiation, digestive tract development, lactation, gluconeogenesis, TNF production, hepatocyte apoptosis). The common thread is broad regulation of gene expression and signaling across development, metabolism, and immunity, rather than a single isolated pathway.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006357","count":3},{"id":"GO:0045879","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0045651","count":2},{"id":"GO:0048565","count":2}]},{"hash":"492281294164890522","title":"Actin Cytoskeleton Remodeling and Signaling","description":"The top GO terms point to actin dynamics (actin crosslink formation, actin cortical patch localization) and signaling pathways (Rho signaling, B cell receptor signaling, IL-2 production), along with membrane remodeling and junction assembly (plasma membrane tubulation, tight junction assembly). These collectively suggest a cluster centralized on cytoskeleton-driven membrane remodeling and related signaling, with secondary hints of muscle development and general cell-cycle/splicing processes that may reflect broader cell biology roles in this set.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097320","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0000398","count":5},{"id":"GO:0051764","count":4},{"id":"GO:1900042","count":4}]},{"hash":"903171424751166103","title":"Ubiquitin-Proteasome Regulation and Degradation","description":"The cluster is dominated by GO terms related to ubiquitination and proteasome-mediated protein turnover, including deubiquitination, sumoylation, ERAD, SCF-dependent and ubiquitin-independent degradation, and proteasome assembly. The presence of APC- and proteasome-related catabolic processes links to cell-cycle control, while connections to NF-kappaB and T cell receptor signaling suggest broader regulatory roles in signaling. Together these terms define a cohesive theme around ubiquitin-proteasome system function and protein quality control.","confidence":"High","size":28,"edges":344,"triangles":2537,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":17},{"id":"GO:0016925","count":12},{"id":"GO:0030433","count":11},{"id":"GO:0038061","count":10},{"id":"GO:0050852","count":9}]},{"hash":"766839097966695456","title":"ERAD and Autophagy Regulation","description":"The top terms cluster around endoplasmic reticulum\u2013associated degradation (ERAD), ubiquitin-dependent protein turnover, and autophagy-related processes (including aggrephagy and autophagosome maturation), with additional related regulation of endocytosis and proteostasis. Although some annotations are obsolete or broader (e.g., DNA repair or spindle components), the dominant theme ties to cellular protein quality control via degradation pathways.","confidence":"Medium","size":28,"edges":259,"triangles":1773,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1904378","count":11},{"id":"GO:0034140","count":10},{"id":"GO:0030433","count":10},{"id":"GO:1901097","count":9},{"id":"GO:0030474","count":9}]},{"hash":"521650814931797138","title":"Unknown","description":"The top GO terms cover a mix of ubiquitin-related processing, transcription regulation, autophagy control, cell cycle and morphogenesis, epigenetic regulation, signaling, calcium channel modulation, and xenobiotic response, suggesting a broad, non-specific set of regulatory proteins rather than a single cohesive function for the cluster.","confidence":"","size":28,"edges":352,"triangles":2925,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":13},{"id":"GO:0030433","count":12},{"id":"GO:0006357","count":11},{"id":"GO:1901097","count":11},{"id":"GO:0030474","count":11}]},{"hash":"2125529189094000323","title":"Ubiquitin-Proteasome-Dependent Proteolysis","description":"The cluster is dominated by GO terms describing ubiquitin-dependent protein catabolic processes, SCF complex\u2013mediated proteasomal degradation, and ERAD pathways, plus regulation of ubiquitination and cell-cycle related checkpoints. Some neuron-related terms suggest UPS roles in synapse assembly and neuron survival. Overall, the common thread is proteostasis and protein turnover via the ubiquitin-proteasome system, with ancillary links to cell-cycle control and neuronal development.","confidence":"Medium","size":28,"edges":18,"triangles":4,"max_degree":6,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":17},{"id":"GO:0031146","count":15},{"id":"GO:0030433","count":14},{"id":"GO:0031571","count":11},{"id":"GO:1902916","count":11}]},{"hash":"1624293255010074027","title":"Mitosis Exit and Genome Maintenance","description":"The cluster shows strong enrichment for mitosis-related terms (exit from mitosis, G2/M transition, chromosome segregation) and multiple DNA repair pathways (NER, translesion synthesis, postreplication repair), plus ubiquitin-proteasome\u2013dependent degradation. This pattern suggests proteins coordinating mitotic progression with genome maintenance, with additional developmental signaling contexts contributing to broader roles in proliferation.","confidence":"High","size":28,"edges":378,"triangles":3276,"max_degree":27,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0010458","count":28},{"id":"GO:0000086","count":28},{"id":"GO:0070911","count":28},{"id":"GO:0016032","count":28},{"id":"GO:0031146","count":28}]},{"hash":"1124198491904569950","title":"Seed Development and Lipid Metabolism in Plants","description":"This cluster is dominated by seed-associated processes (positive regulation of seed germination, seed coat development) and multiple fatty acid metabolic pathways (long-, medium-, very long-chain), along with phenylpropanoid metabolism, pointing to a plant seed biology theme centered on lipid-based energy/structure during germination and seed maturation. An outlier term for siderophore biosynthesis may reflect annotation noise rather than a core function of the cluster.","confidence":"High","size":28,"edges":285,"triangles":1524,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0019290","count":10},{"id":"GO:0001676","count":10},{"id":"GO:0090410","count":10},{"id":"GO:0010030","count":10},{"id":"GO:0010214","count":10}]},{"hash":"972844969348931670","title":"Retinoid and ethanol metabolism","description":"The cluster is dominated by retinol and retinoic acid metabolic processes, along with ethanol catabolic/oxidation and related redox activities, indicating a module of proteins involved in processing retinoids and alcohols; a minor LPS response term may reflect context-specific regulation but does not define the core function.","confidence":"High","size":28,"edges":376,"triangles":3224,"max_degree":27,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0042572","count":16},{"id":"GO:0046370","count":14},{"id":"GO:0055114","count":12},{"id":"GO:0006069","count":11},{"id":"GO:0006068","count":11}]},{"hash":"1893280058344711347","title":"Adaptive immune signaling and actin remodeling","description":"This cluster centers on adaptive immune processes (B cell receptor signaling, adaptive immune response, B cell proliferation) and cytoskeletal dynamics (actin filament bundle assembly, phagocytosis, actin crosslinking, cell migration), suggesting coordinated immune activation with actin remodeling. Some terms involve barrier establishment and ubiquitination, which may reflect contextual interactions with endothelial/epithelial contexts, but the core theme remains immune signaling coupled to cytoskeletal changes.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006909","count":6},{"id":"GO:0051017","count":5},{"id":"GO:0030890","count":5},{"id":"GO:0090557","count":5},{"id":"GO:0016477","count":5}]},{"hash":"1107946550098935906","title":"Rho-GTPase-driven cytoskeleton remodeling","description":"This cluster is dominated by GO terms for lamellipodium and filopodium assembly, and regulation of Rho signaling and GTPase activation, all central to actin cytoskeleton dynamics and cell movement. While there are some immune-related terms and developmental cues present, the strongest signal ties to cytoskeletal remodeling and motility, supporting this label.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030032","count":18},{"id":"GO:0035023","count":18},{"id":"GO:0090630","count":17},{"id":"GO:1904693","count":17},{"id":"GO:2001275","count":16}]},{"hash":"1340620606979886679","title":"Neuronal synaptic signaling and development","description":"The cluster is dominated by neural-related terms: synapse organization, neurotransmitter secretion, glutamatergic transmission, and long-term potentiation, plus nervous system development. Regulation of Rho signaling fits cytoskeletal changes for synapse formation, and apoptotic regulation aligns with neuron survival. A single heart development term is likely incidental, but overall the theme centers on neuronal synaptic function and development. ","confidence":"High","size":28,"edges":51,"triangles":11,"max_degree":8,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0034351","count":10},{"id":"GO:0043065","count":10},{"id":"GO:0050808","count":10},{"id":"GO:0035023","count":10},{"id":"GO:0007269","count":10}]},{"hash":"797485940471455974","title":"Redox homeostasis and protein quality control","description":"This cluster is driven by terms related to managing cellular redox states (oxidation-reduction, oxidant detoxification) and protein maintenance (ER-associated folding and repair, protein import/export regulation, and transcription-related processes). The combination suggests a coordinated response linking oxidative stress handling with protein quality control and some nuclear processes, despite some terms being labeled obsolete. Overall, a coherent theme of redox balance coupled with protein homeostasis emerges.","confidence":"Medium","size":28,"edges":5,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":12},{"id":"GO:0045454","count":11},{"id":"GO:0098869","count":8},{"id":"GO:1903206","count":8},{"id":"GO:0046826","count":7}]},{"hash":"277206268082838890","title":"Embryonic development and organogenesis","description":"The top GO terms cluster around developmental and differentiation processes, including cartilage morphogenesis, placental cell differentiation, heart/endocardial cushion EMT, pancreatic cell development, and general embryonic differentiation. While there are a couple of general cellular processes (protein folding in the ER, redox homeostasis) present, they likely support the developmental programs rather than define a single metabolic function. So the cluster is best described as embryonic development and organogenesis.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034975","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0045454","count":3},{"id":"GO:0016032","count":3},{"id":"GO:1903026","count":3}]},{"hash":"1339528131780084125","title":"Skin oxidative stress and inflammatory response","description":"The cluster centers on responses to oxidative stress (hydrogen peroxide), xenobiotic exposure, and acute inflammation, with hints of keratinocyte differentiation and glycosphingolipid biosynthesis linked to skin barrier biology. While some terms are obsolete or less connected (e.g., RNA processing), the dominant signal is stress- and inflammation-related processes in skin cells, including apoptosis tendencies.","confidence":"Medium","size":28,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":4},{"id":"GO:0006284","count":4},{"id":"GO:0006688","count":4},{"id":"GO:0070301","count":3},{"id":"GO:0042493","count":3}]},{"hash":"1586681419178115650","title":"Drosophila oogenesis and egg chamber development","description":"The cluster is enriched for terms tied to germarium-derived germ-line cyst encapsulation and follicle cell\u2013mediated egg chamber stalk formation, both key steps in Drosophila oogenesis. Ecdysone biosynthesis further links to hormonal control of ovarian development, while Wnt signaling and translation-related terms support a coordinated developmental program in the ovary. Altogether, the dominant theme is egg chamber formation and oogenesis in insects, particularly Drosophila.","confidence":"High","size":28,"edges":110,"triangles":0,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0030708","count":6},{"id":"GO:0030713","count":5},{"id":"GO:0006697","count":5},{"id":"GO:0006412","count":3},{"id":"GO:0051092","count":3}]},{"hash":"1577121745223508535","title":"Wnt Pathway Regulators in Development and Cell Cycle","description":"This cluster centers on regulation of the Wnt signaling pathway and developmental processes, with links to limb morphogenesis, apoptosis, cell migration, and cell-cycle control; the enrichment of negative regulation of canonical Wnt signaling, developmental morphogenesis terms, and processes related to proliferation and nuclear transport suggests a cohesive group of proteins that modulate signaling to coordinate embryonic development and cell-cycle dynamics.","confidence":"High","size":28,"edges":356,"triangles":2767,"max_degree":27,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0043065","count":14},{"id":"GO:0016477","count":14},{"id":"GO:0008285","count":14},{"id":"GO:0090090","count":14},{"id":"GO:0032471","count":13}]},{"hash":"677467504054174769","title":"Developmental transcriptional regulation","description":"The terms cluster around broad developmental processes across multiple organs (brain, heart, liver, palate) with the leading GO term being negative regulation of transcription by RNA polymerase II, suggesting a group of proteins involved in controlling transcription during development.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0030901","count":5},{"id":"GO:0060707","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0060021","count":5}]},{"hash":"1375615084535216783","title":"Neurodevelopmental and Organ Development Signaling","description":"The cluster shows enrichment for developmental signaling pathways across neural and organ contexts (nervous system and kidney development; SHH/ROBO/Wnt signaling; ERK/JNK cascades; dopamine signaling), indicating a cohesive theme of growth and patterning cues. A few terms (e.g., T cell receptor signaling) may reflect broader signaling capacity rather than a focused immune role.","confidence":"Medium","size":28,"edges":165,"triangles":241,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001822","count":10},{"id":"GO:0035385","count":9},{"id":"GO:0007224","count":9},{"id":"GO:0007399","count":9},{"id":"GO:0046330","count":8}]},{"hash":"2147650034700808461","title":"Auditory signaling and cochlear development","description":"The top GO terms cluster around auditory-related processes: sensory perception of sound, cochlear development, detection of mechanical stimulus in hearing, and sound-related excitatory postsynaptic potential, along with ion transport and membrane depolarization that underlie neuronal signaling. This points to proteins involved in auditory system signaling and cochlear function with membrane excitability as a core mechanism.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":15},{"id":"GO:0060079","count":15},{"id":"GO:0051899","count":15},{"id":"GO:0071805","count":15},{"id":"GO:0050910","count":13}]},{"hash":"1865738371549459296","title":"Mitochondrial maintenance and stress signaling","description":"The top GO terms cluster around mitochondrial processes: regulation of cellular respiration, autophagy of mitochondrion, and mitochondrion morphogenesis, with related signaling pathways (phosphatidylinositol-mediated signaling, calcium-modulated Wnt signaling). While a few terms point to broader cellular signaling or xenobiotic responses, the strongest recurring theme is mitochondrial maintenance and stress signaling, justifying a mitochondria-focused label.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043457","count":2},{"id":"GO:0010259","count":2},{"id":"GO:0000422","count":2},{"id":"GO:0048015","count":2},{"id":"GO:0007223","count":2}]},{"hash":"715166239461045099","title":"Transmembrane Transporters","description":"The matrix includes GO terms for vitamin and xenobiotic transmembrane transport, ion transport, and nutrient substrates (galactose, sialic acid, nitrite/nitrate, phosphate). This indicates a cluster of membrane transporter proteins with broad substrate specificity, justifying the label as transmembrane transporters.","confidence":"High","size":28,"edges":299,"triangles":1653,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":28},{"id":"GO:0006855","count":28},{"id":"GO:0042908","count":25},{"id":"GO:0071805","count":25},{"id":"GO:0042891","count":22}]},{"hash":"1220042156530280477","title":"Unknown","description":"The GO terms span immune signaling (B cell receptor signaling), neuronal signaling (glutamatergic synaptic transmission, synapse assembly, axon target recognition), broad signal transduction (Rac/MAPK, GPCR-related pathways), and stress responses (DNA repair, apoptosis). This mix across immune, neural, and cellular stress contexts does not point to a single cohesive function for the cluster, so there isn\u2019t a clear unifying theme. Unknown is the most appropriate label with no confidence in a representative function. ","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0035021","count":4},{"id":"GO:0000161","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0006281","count":4}]},{"hash":"328516721698412092","title":"Spliceosome-driven mRNA processing and translation regulation","description":"The cluster shows strong enrichment for spliceosome-related mRNA processing terms (negative and positive regulation of mRNA splicing via spliceosome, mRNA cis splicing) and multiple aspects of translation control (initiation, reinitiation, preinitiation complex formation, IRES-dependent viral translation, viral termination-reinitiation), plus stress-related mRNA stability. This points to a cohesive theme of RNA processing coupled to translational regulation, including viral mechanisms, hence the chosen name. ","confidence":"High","size":28,"edges":120,"triangles":103,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048025","count":21},{"id":"GO:0010610","count":21},{"id":"GO:0075522","count":21},{"id":"GO:0002188","count":21},{"id":"GO:0006378","count":21}]},{"hash":"2070964242518351784","title":"Post-transcriptional mRNA regulation and splicing","description":"The cluster is dominated by GO terms about mRNA stability, splicing control via the spliceosome, miRNA/ncRNA-mediated silencing, and translation initiation/reinitiation, all pointing to regulation of gene expression at the RNA level after transcription. This suggests a cohesive role in post-transcriptional mRNA processing and regulation rather than transcriptional control.","confidence":"High","size":28,"edges":378,"triangles":3276,"max_degree":27,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":25},{"id":"GO:0031047","count":22},{"id":"GO:0048026","count":22},{"id":"GO:1901407","count":21},{"id":"GO:0035278","count":20}]},{"hash":"1200299179026832986","title":"Cardiac development and heart morphogenesis","description":"This cluster is enriched with terms focused on heart development and cardiac tissue organization, including cardiac right atrium morphogenesis, regulation of SA node action potential, and Notch signaling in heart-field proliferation. Supporting terms like venous endothelial differentiation, actin filament assembly, cell migration, and cellular response to mechanical stimulus point to coordinated morphogenesis and cardiovascular tissue remodeling. The vitamin D response adds a minor cardiovascular signaling context but does not override the cardiac-focused theme. Overall, a cohesive label is cardiac development and morphogenesis.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":12},{"id":"GO:0051017","count":11},{"id":"GO:0090162","count":11},{"id":"GO:0060843","count":11},{"id":"GO:0098907","count":11}]},{"hash":"1083348622174165316","title":"Diverse Organic Compound Catabolism","description":"The top GO terms are dominated by various catabolic processes (e.g., triglyceride, stilbene, uracil, 3-phenylpropionate catabolism) and degradation pathways like the beta-ketoadipate pathway, suggesting a common theme of breakdown of diverse organic substrates. Some terms (secondary shoot formation, endocannabinoid signaling) seem less cohesive with catabolism and may reflect annotation noise or broad GO coverage. Overall, the cluster appears to group proteins involved in degradation of a range of organic compounds.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":7},{"id":"GO:0097755","count":6},{"id":"GO:0055114","count":6},{"id":"GO:0046272","count":6},{"id":"GO:0010223","count":6}]},{"hash":"1879462830399815521","title":"Proteoglycan Biosynthesis Cluster","description":"This cluster is dominated by GO terms for chondroitin sulfate and heparan sulfate proteoglycan biosynthesis, pointing to a core role in assembling extracellular proteoglycans. Some transcriptional regulation and cell wall-related terms appear but with lower counts, suggesting either annotation noise or secondary roles. Overall, the proteoglycan biosynthesis signal is strongest, justifying the label.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050650","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0045944","count":4},{"id":"GO:0071555","count":4},{"id":"GO:0030206","count":4}]},{"hash":"1409431116663487653","title":"Neural development and cell cycle regulation","description":"This cluster combines strong signals for neural development (axonogenesis, axon guidance, neuron fasciculation) with references to DNA replication and mitotic cell cycle, plus broader developmental processes like angiogenesis and heart morphogenesis. The proteins appear to participate in proliferative states during neural development as well as tissue morphogenesis, making \"Neural development and cell cycle regulation\" a representative, concise label.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006260","count":24},{"id":"GO:0000278","count":24},{"id":"GO:0051893","count":23},{"id":"GO:0021952","count":22},{"id":"GO:0031290","count":22}]},{"hash":"684917479336061713","title":"Insect neural behavior and sensory processing","description":"This cluster shows enrichment for neural/behavioral terms in insects, including courtship behavior, learning, grooming, visual perception, and dopamine biosynthesis from tyrosine, suggesting a cohesive theme of neural signaling and sensory processing. Some terms like rRNA processing and xenobiotic transport are more general cellular processes, but the prominence of neural and behavioral keywords supports the overall interpretation.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0006364","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0007619","count":1},{"id":"GO:0007612","count":1}]},{"hash":"2099141878429760599","title":"Neural signaling and sensory perception","description":"The top GO terms cluster around neuronal communication and sensory processing (visual perception and learning, pain perception, dopaminergic synaptic transmission) and reward-related signaling (cocaine response, ERK cascade), with prostaglandin signaling also involved. A couple of terms (saliva secretion, heart development) appear less central and may be incidental.","confidence":"Medium","size":28,"edges":297,"triangles":1573,"max_degree":26,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0046541","count":14},{"id":"GO:0007601","count":13},{"id":"GO:0010759","count":13},{"id":"GO:0019233","count":13},{"id":"GO:0007507","count":13}]},{"hash":"2122087818054145461","title":"Neural Development and Tissue Differentiation","description":"The top GO terms cluster around developmental processes, especially nervous system development, neuron projection development, and BMP signaling, along with related tissue differentiation such as myoblast differentiation and ossification, plus cell\u2013cell adhesion. The presence of ROBO signaling supports neural guidance, making a neural-development and differentiation theme the most representative for this cluster; a single outlier term (symbiont entry into host cell) does not override this overall pattern.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046718","count":12},{"id":"GO:0035385","count":12},{"id":"GO:0007399","count":12},{"id":"GO:0030513","count":12},{"id":"GO:0007157","count":12}]},{"hash":"2274910301848047583","title":"Neuronal Ion Transport and Synaptic Signaling","description":"The cluster is enriched for ion transmembrane transport (sodium, potassium, calcium) and neural signaling (GABA pathway, EPSP), along with behavioral and circadian-related processes such as startle response, locomotory behavior, and circadian sleep/wake regulation. These terms point to proteins involved in neuronal excitability and synaptic communication, suggesting ion channels/transporters and signaling components as core functions. Thus, a concise label focusing on neuronal ion transport and synaptic signaling fits best.","confidence":"High","size":28,"edges":206,"triangles":698,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":23},{"id":"GO:0071805","count":22},{"id":"GO:0098703","count":21},{"id":"GO:0045188","count":21},{"id":"GO:0001964","count":21}]},{"hash":"1079094257929278777","title":"Secretory and GPCR Signaling","description":"The top GO terms concentrate on GPCR signaling, peptide responses, and regulation of secretion (e.g., gastrin-induced acid secretion, serotonin secretion, and responses to peptides). Although some terms touch on visually perceiving or structural processes, the shared theme is signaling and secretory/peptide regulation across tissues, suggesting a group of proteins involved in hormonal/neural signaling rather than a single tissue-specific function.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":27},{"id":"GO:0007601","count":27},{"id":"GO:0010513","count":27},{"id":"GO:2000458","count":27},{"id":"GO:0001698","count":27}]},{"hash":"818464370152031445","title":"Nutrient-sensing growth and ciliogenesis","description":"The top GO terms cluster around nutrient signaling (TORC1 signaling; response to amino acid starvation) and ciliary biology (cilium assembly; intraciliary retrograde transport), plus related transcriptional and growth-related processes (DNA-templated transcription, ribosomal export) that often coordinate with TORC1 signaling and ciliogenesis in development, including hair follicle morphogenesis. This suggests a theme where nutrient cues regulate growth and ciliogenesis, influencing developmental processes.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0038202","count":3},{"id":"GO:0031069","count":3},{"id":"GO:1990928","count":3},{"id":"GO:0030433","count":2}]},{"hash":"410090457313375744","title":"MAPK signaling in inflammatory and growth-factor responses","description":"Based on the top GO terms, this cluster centers on MAPK signaling cascades (ERK1/2 and p38) activated by diverse stimuli, including cytokines (GM-CSF), growth factors (EGF), and inflammatory cues (LPS, PMA). The presence of receptor clustering and cell migration terms suggests these proteins participate in signal transduction leading to cytoskeletal and migratory responses. The grouping is most consistent with a coherent theme of MAPK-mediated signaling in immune and growth factor contexts.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097011","count":7},{"id":"GO:0071222","count":5},{"id":"GO:1904780","count":4},{"id":"GO:1904628","count":4},{"id":"GO:0070371","count":4}]},{"hash":"1702039258784966277","title":"Neuronal Transcription Regulation and Signaling","description":"This cluster combines transcription-related terms (DNA-templated transcription, transcriptional regulation) with multiple signaling pathways (Wnt, ephrin receptor signaling, GPCR signaling) and synaptic regulation terms, suggesting proteins involved in coordinating gene expression with neuronal signaling and synaptic plasticity, alongside related trafficking processes.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0016055","count":3},{"id":"GO:1900383","count":3},{"id":"GO:0007205","count":3},{"id":"GO:1901187","count":3}]},{"hash":"2072069595823267836","title":"SCF-Dependent Proteolysis in Mitosis","description":"Top GO terms cluster around mitotic regulation and ubiquitin-mediated proteolysis, including G2/M transition, exit from mitosis, mitotic cell cycle, chromosome segregation, and SCF-dependent ubiquitin-proteasomal degradation. This points to proteins coordinating mitotic progression via ubiquitin-mediated degradation, with secondary associations to development and repair pathways. ","confidence":"High","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0000086","count":27},{"id":"GO:0031146","count":27},{"id":"GO:0001701","count":26},{"id":"GO:0010458","count":26},{"id":"GO:0070911","count":26}]},{"hash":"959062159467715584","title":"UV-Triggered DNA Damage Repair and Transcription Regulation","description":"The cluster is strongly enriched for UV-induced responses and DNA repair, including pyrimidine dimer repair by nucleotide-excision repair and transcription-coupled NER, as well as transcription regulation by RNA polymerase II. This points to a core theme of UV-driven DNA damage repair and its coordination with transcription. Additional terms related to development and eye morphogenesis may reflect broader roles in gene regulation and developmental processes. Overall, the shared signal centers on UV-associated DNA repair and transcription control.","confidence":"Medium","size":27,"edges":12,"triangles":10,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0040034","count":5},{"id":"GO:0010225","count":5},{"id":"GO:0010224","count":5},{"id":"GO:0045944","count":5}]},{"hash":"1649042611505354797","title":"Inflammatory signaling and immune cell migration","description":"The cluster shows enrichment for innate immune responses (cellular response to fungal origin, neutrophil chemotaxis) alongside signaling pathways (ERK/MAPK cascade, STAT phosphorylation, calcium signaling) and responses to growth factors (TGF-beta, insulin). This suggests a cohesive theme of immune-related signaling and leukocyte movement, with broader context in growth factor\u2013driven remodeling.","confidence":"High","size":27,"edges":65,"triangles":60,"max_degree":12,"top_function":"wound healing","top_go_terms":[{"id":"GO:0071226","count":19},{"id":"GO:0043552","count":16},{"id":"GO:0030593","count":16},{"id":"GO:0070374","count":16},{"id":"GO:0036006","count":15}]},{"hash":"900442779463568428","title":"Ribosomal and mitochondrial translation machinery","description":"The dominant GO terms point to translation and ribosome biology, including cytosolic and mitochondrial translation, ribosomal subunit assembly, and regulation of translational fidelity, with occasional notes on responses to translation inhibitors. This suggests a cohesive cluster centered on the translation machinery, spanning both cytosolic and mitochondrial contexts.","confidence":"High","size":27,"edges":349,"triangles":2876,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0032543","count":3},{"id":"GO:0070126","count":2},{"id":"GO:0000027","count":2},{"id":"GO:0046898","count":1}]},{"hash":"943758594836486731","title":"Developmental Signaling and Stress Response","description":"The terms cluster around regulation of signaling pathways (NF-kappaB, phosphorylation, ubiquitination) and developmental processes (heart and organism development, substantia nigra development), with accompanying stress/hormone responses (hypoxia, glucocorticoid, abscisic acid signaling). Although some terms come from distant contexts, the common theme is modulation of signaling guiding development and stress adaptation.","confidence":"Medium","size":27,"edges":2,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0043123","count":6},{"id":"GO:0000742","count":6},{"id":"GO:0009738","count":5},{"id":"GO:0001666","count":5},{"id":"GO:0021762","count":5}]},{"hash":"1984153303014434255","title":"DNA Damage Response and Cell Cycle Control","description":"The top GO terms center on DNA damage response, p53-mediated signaling, and G2 checkpoint signaling, with processes like DNA replication, spindle assembly, and poly-ADP-ribosylation suggesting DDR coordination with mitosis and replication. Transcriptional regulation terms appear as a secondary layer, fitting DDR-associated control of transcription. Overall, this cluster seems to represent DDR and cell-cycle regulation themes.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070212","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0051225","count":3},{"id":"GO:0009636","count":3},{"id":"GO:0071222","count":3}]},{"hash":"422092187952539800","title":"Embryonic morphogenesis and placental development","description":"This cluster is dominated by GO terms related to embryo formation, placental differentiation, and related morphogenetic processes (trophoblast giant cell differentiation, placental development, left-right patterning, EMT in endocardial cushion formation, cartilage morphogenesis), with supportive terms pointing to broader developmental regulation and gene expression. The common thread is embryogenesis and placental morphogenesis, with a few general transcription/splicing terms present as background features.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060707","count":14},{"id":"GO:0060536","count":13},{"id":"GO:0060972","count":13},{"id":"GO:0060806","count":13},{"id":"GO:0003198","count":13}]},{"hash":"2215337668231363109","title":"Epithelial differentiation and ECM remodeling","description":"This cluster centers on epithelial differentiation signals (keratinocyte differentiation; Notch receptor processing) and extracellular matrix remodeling (collagen fibril organization; integrin-mediated adhesion; proteolysis), with associated angiogenic/inflammatory signaling (VEGF pathway; TNF response). These themes together point to coordinated epithelial maturation and tissue remodeling, possibly in a context of wound healing or development. The manganese response and ovarian-related term are less central but may reflect broader stress or remodeling contexts. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007220","count":8},{"id":"GO:0010042","count":8},{"id":"GO:0030216","count":8},{"id":"GO:0034612","count":8},{"id":"GO:1900748","count":8}]},{"hash":"285280925456620023","title":"RNA processing and translation regulation","description":"These proteins cluster around post-transcriptional RNA metabolism and control of translation. Top GO terms include translation initiation/reinitiation, preinitiation complex formation, mRNA export, splicing regulation, mRNA stability in response to stress, and miRNA/ncRNA-mediated silencing, plus IRES-dependent translational initiation. The shared theme is RNA maturation/export and regulation of translation, indicating a cohesive RNA-centric regulatory module.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":8},{"id":"GO:0001731","count":8},{"id":"GO:0006406","count":6},{"id":"GO:0031047","count":6},{"id":"GO:0006378","count":6}]},{"hash":"788494327686687284","title":"Unknown","description":"The top GO terms are mixed: mitochondrial respiration/assembly, translation, DNA repair, various biosynthetic processes and RNA modification, with no single cohesive function linking all proteins. The lack of edges also suggests the cluster isn\u2019t functionally tight, so a clear, specific label is not supported.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034553","count":4},{"id":"GO:0006120","count":4},{"id":"GO:0006412","count":3},{"id":"GO:0006281","count":2},{"id":"GO:0006744","count":2}]},{"hash":"986696590621719068","title":"Ribosome Biogenesis and Cytoplasmic Translation","description":"The cluster is dominated by GO terms for ribosome biogenesis, cytoplasmic translation, and general translation, along with related processes like ribosomal subunit biogenesis and tRNA modification, pointing to a core set of proteins involved in ribosome assembly and protein synthesis. A few cell cycle/division terms may reflect coordination with growth, but the overarching theme centers on ribosome formation and function, with some signals of nuclear export of ribosomal subunits. This supports labeling the cluster as assembly/translation machinery.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0042274","count":7},{"id":"GO:0042254","count":7},{"id":"GO:0002181","count":5},{"id":"GO:0007049","count":5}]},{"hash":"2017274345248624516","title":"Ribosome Biogenesis and Translation","description":"The dominant GO terms are about ribosome assembly, cytoplasmic translation, and SRP-dependent cotranslational targeting to the membrane, which together point to a core role in ribosome formation and protein synthesis. Additional terms related to calcium transport and signaling are present but appear secondary to the central ribosomal/translation functions, supporting a cohesive cluster of ribosome biology with related ER-targeting processes.","confidence":"High","size":27,"edges":68,"triangles":1,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0032060","count":3},{"id":"GO:0070588","count":3},{"id":"GO:0071353","count":2},{"id":"GO:0002181","count":2}]},{"hash":"2195146532052181327","title":"Neural crest development and immune interactions","description":"The terms cluster around development of neural crest derivatives and the sympathetic nervous system (neural crest cell migration, sympathetic neuron projection extension, synapse assembly), along with bone-related ossification. There is also a coordinated immune signal pattern (phagocytosis recognition, complement activation, macrophage activation regulation). This suggests a theme of neural crest\u2013driven development with linked immune signaling.","confidence":"Medium","size":27,"edges":3,"triangles":1,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043931","count":14},{"id":"GO:0007275","count":14},{"id":"GO:0006910","count":13},{"id":"GO:0007157","count":13},{"id":"GO:2000391","count":11}]},{"hash":"802119152487621652","title":"Metabolic biosynthesis and stress response","description":"This cluster shows enrichment for biosynthetic processes of vitamins and secondary metabolites (menaquinone, biotin, antibiotics), suggesting a focus on small-molecule production. It also includes processes related to cellular detoxification, response to toxic substances, and vacuolar acidification, pointing to stress defense and organelle homeostasis. While translation and a few regulatory terms are present, the dominant themes are biosynthesis and detoxification/stress response, making this label appropriate though not perfectly cohesive. ","confidence":"Medium","size":27,"edges":174,"triangles":478,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":4},{"id":"GO:0007035","count":3},{"id":"GO:0009102","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0006412","count":2}]},{"hash":"2000135928882598411","title":"Developmental Regulation & Ubiquitin-Dependent Proteolysis","description":"The set centers on developmental processes across various tissues (embryonic skeletal, epidermis, spleen, ureteric bud morphogenesis) and on transcriptional regulation plus ubiquitin\u2011dependent protein turnover, implying coordinated control of gene expression and proteostasis during development. This combination suggests a functional cluster of regulators that link transcriptional control with targeted proteolysis to shape developmental programs.","confidence":"Medium","size":27,"edges":14,"triangles":0,"max_degree":14,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0031146","count":2},{"id":"GO:0048536","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0043524","count":2}]},{"hash":"2239618081685008694","title":"Bacterial carbohydrate metabolism and LPS core biosynthesis","description":"The proteins cluster around sugar metabolism and handling, including glycolytic steps via fructose-6-phosphate, various sugar catabolic pathways (tagatose, sulfoquinovose, sucrose/fructose responses), and salvage pathways (AMP/adenosine). A notable function is ADP-L-glycero-beta-D-manno-heptose biosynthesis, a key precursor for the bacterial LPS inner core, supporting a cohesive theme of carbohydrate metabolism linked to cell envelope biosynthesis.","confidence":"High","size":27,"edges":8,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0097171","count":6},{"id":"GO:0055114","count":5},{"id":"GO:0044209","count":3},{"id":"GO:0009750","count":3},{"id":"GO:0006169","count":3}]},{"hash":"1428528699617616919","title":"Teichoic acid and cell wall polysaccharide biosynthesis","description":"The cluster shows strong enrichment for cell wall\u2013related and glycan biosynthesis processes, including teichoic acid biosynthesis, cell wall organization, UDP-glucose\u2013dependent pathways, and multiple O-linked and N-linked glycosylation terms, as well as cellulose and hyaluronan biosynthesis. This pattern points to proteins involved in building and modifying bacterial cell wall polysaccharides and teichoic acids, rather than unrelated metabolic roles.","confidence":"High","size":27,"edges":5,"triangles":0,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071555","count":5},{"id":"GO:0018243","count":5},{"id":"GO:0006011","count":5},{"id":"GO:0036108","count":5},{"id":"GO:0019350","count":5}]},{"hash":"717277301051933654","title":"Neural and muscular development signaling","description":"This cluster shows strong signals for nervous system development (axonogenesis, ROBO/SHH pathways) and muscle formation (myoblast fusion/differentiation), with Rho-regulated signaling linking cytoskeletal changes during morphogenesis. The mix suggests a broader developmental signaling module coordinating neural and muscular tissue formation, despite some broader terms present.","confidence":"Medium","size":27,"edges":230,"triangles":997,"max_degree":26,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":17},{"id":"GO:0007520","count":16},{"id":"GO:0035385","count":15},{"id":"GO:0007224","count":15},{"id":"GO:0050852","count":15}]},{"hash":"823358561617005284","title":"mRNA processing and translational regulation","description":"The cluster centers on post-transcriptional RNA processing (splicing via the spliceosome, regulation of alternative splicing, mRNA export, and stability) and on translation initiation/reinitiation control (preinitiation complex formation, IRES-dependent and viral translation mechanisms, and regulation of translation initiation), indicating a unified role in RNA processing and subsequent translation under stress or viral contexts.","confidence":"High","size":27,"edges":304,"triangles":1939,"max_degree":26,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":17},{"id":"GO:0045292","count":15},{"id":"GO:0000381","count":15},{"id":"GO:0010610","count":15},{"id":"GO:0075522","count":14}]},{"hash":"1800037238637818105","title":"Unknown","description":"The GO terms are spread across neural activity (exploration behavior, catecholamine secretion, dendrite development), development in non-neural tissues (placenta, stamen formation), immune signaling, and general protein turnover, with no clear shared function tying the cluster together. The lack of a coherent theme and zero edge connectivity suggest there isn\u2019t a single representative function for this group.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035640","count":3},{"id":"GO:0050432","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0019933","count":3},{"id":"GO:0016358","count":3}]},{"hash":"1294409600502999396","title":"Unknown","description":"The cluster\u2019s top GO terms span highly divergent processes (retinol metabolism, very long-chain fatty acid biosynthesis, tetrahydrobiopterin biosynthesis, plant tropane alkaloid biosynthesis, sporulation, antibiotic response, and lung development), with no clear shared function or theme. This suggests either heterogeneous protein functions or annotation noise, making a cohesive, specific label inappropriate.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0046677","count":8},{"id":"GO:0042572","count":7},{"id":"GO:0030324","count":7},{"id":"GO:0042208","count":6}]},{"hash":"1918225168074680566","title":"Calcium signaling in neural and immune processes","description":"This label is driven by the presence of calcium-related processes (release of sequestered calcium from the sarcoplasmic reticulum and calcium ion import) along with neural signaling (excitatory postsynaptic potential) and immune and developmental contexts (innate immune response, T cell homeostasis, bone ossification, circadian regulation, cardiac hypertrophy). The recurring role of calcium as a signaling mediator across these diverse functions suggests the cluster participates in calcium-dependent signaling in neural, immune, and developmental processes.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0043931","count":7},{"id":"GO:0014808","count":6},{"id":"GO:0098703","count":6},{"id":"GO:0045188","count":6}]},{"hash":"1595886798450856513","title":"B cell and Fc receptor signaling","description":"The top GO terms are dominated by B cell receptor signaling, adaptive immune response, and Fc-epsilon receptor signaling, indicating a cluster centered on immune signaling in lymphocytes and Fc receptor\u2013mediated pathways. Innate immune response and IL-2 regulation further support an overall immune activation/regulation theme, with some related hematopoietic lineage signals (e.g., megakaryocyte development) that align with broader immune/hematopoietic context.","confidence":"High","size":27,"edges":202,"triangles":779,"max_degree":25,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050853","count":26},{"id":"GO:0002250","count":26},{"id":"GO:1900042","count":26},{"id":"GO:0038095","count":26},{"id":"GO:0010765","count":19}]},{"hash":"1555512965417369998","title":"DNA replication and genome maintenance","description":"The top terms cluster around DNA replication (replication, primer synthesis) and related cell-cycle checkpoint signaling (intra-S DNA damage checkpoint), with a note of plasmid maintenance. A few terms (endosome transport, intein splicing, response to food) appear less related, suggesting overall theme centers on replication and genome integrity rather than a single cohesive complex. Confidence: Medium","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0031573","count":2},{"id":"GO:0090630","count":2},{"id":"GO:0048227","count":2},{"id":"GO:0051571","count":2}]},{"hash":"1010789595335201809","title":"Embryonic neural and craniofacial development regulation","description":"The top GO terms mix transcriptional regulation (RNA polymerase II activity and its negative regulation) with several developmental processes centered on neural tissues (midbrain and forebrain development) and craniofacial structures (cartilage development, cranial skeleton morphogenesis, inner ear development) as well as early embryogenesis (primitive streak formation). This suggests a coherent cluster of proteins involved in controlling transcription during embryonic neural and craniofacial development.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0051216","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0030901","count":6},{"id":"GO:0030900","count":5}]},{"hash":"887036186903050075","title":"Unknown","description":"The terms span diverse domains, including bacterial processes (lipopolysaccharide biosynthesis, response to antibiotic, PHB biosynthesis) and vertebrate neural development (retina development, interneuron axon guidance, neuron migration, heart tube patterning), with no clear shared pathway or function tying them together and no edges connecting proteins. This suggests no cohesive theme to label beyond Unknown.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":5},{"id":"GO:0046677","count":5},{"id":"GO:0009103","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0042619","count":4}]},{"hash":"1027423677377541589","title":"Nervous system signaling and autonomic regulation","description":"Top GO terms cluster around sensory perception (pain, vision), enteric nervous system development, peristalsis, blood pressure regulation, and GPCR signaling, which together point to neural and autonomic control. Some metabolic terms (thermogenesis, electron transport) may reflect energy needs in neural tissues, but the dominant theme is neural signaling and autonomic regulation. Confidence: High","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":15},{"id":"GO:0002024","count":15},{"id":"GO:0071502","count":15},{"id":"GO:0035025","count":14},{"id":"GO:0022900","count":14}]},{"hash":"1122788805069463183","title":"Inflammation and metabolic signaling network","description":"The top GO terms point to inflammatory signaling (negative regulation of NF-kappaB, NOD2 pathway, chemokine production) and immune cell differentiation processes (foam cell differentiation), alongside metabolic cues (glucose import in response to insulin, fat cell differentiation) and calcium signaling as a common mediator. Though some terms are tissue-specific (e.g., SA node action potential, pain response), the overall theme suggests immune-metabolic signaling cross-talk, warranting a label around inflammation and metabolism.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":5},{"id":"GO:0098907","count":5},{"id":"GO:0048265","count":5},{"id":"GO:0045444","count":5},{"id":"GO:0007205","count":5}]},{"hash":"1394529518774619388","title":"RNA processing and stress-response regulators","description":"The terms point to nuclear RNA metabolism (poly(A) tail shortening, histone mRNA decay) as a core theme, with additional signals of broader stress and regulatory roles (hypoxia response, IL-6 and MHC II regulation) and development. This suggests a cluster of proteins involved in RNA processing in the nucleus with links to stress signaling and immune regulation, rather than a single cohesive function.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000289","count":3},{"id":"GO:0007420","count":2},{"id":"GO:0071044","count":2},{"id":"GO:0000738","count":2},{"id":"GO:2001015","count":2}]},{"hash":"1207089600445208896","title":"Developmental Growth Signaling","description":"The top GO terms cluster around brain development, angiogenesis, fibroblast proliferation, and positive regulation of cell growth, suggesting a module of developmental and tissue-growth signaling. The presence of sphingosine-1-P pathway and non-canonical NF-kappaB signaling implies shared pathways that coordinate proliferation, vascular remodeling, and development, making \"Developmental Growth Signaling\" an appropriate umbrella label, though some terms are peripheral. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007420","count":6},{"id":"GO:0048146","count":5},{"id":"GO:0006648","count":5},{"id":"GO:0045766","count":5},{"id":"GO:0045987","count":5}]},{"hash":"2026611135129842209","title":"Rac GTPase Signaling and Cytoskeleton Regulation","description":"The GO terms cluster around regulation of GTPase activity (especially Rac) and cytoskeletal dynamics (stress fiber assembly), with related signaling and developmental processes (spinal cord development, pigmentation) and membrane trafficking (ER-Golgi transport, lipid biosynthesis). This suggests a cohesive theme of Rac-mediated signaling governing cytoskeleton remodeling during development, with ancillary trafficking and lipid signaling roles. The lack of protein\u2013protein edges implies the annotations reflect shared functions rather than direct physical interactions.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0021510","count":3},{"id":"GO:0006888","count":2},{"id":"GO:0043473","count":2}]},{"hash":"1131503668913238262","title":"Transcriptional regulation and development proteins","description":"The top GO terms point to DNA-templated transcription and regulation of transcription, along with development-related processes (multicellular organism development and skeletal system development). While other terms reference stress responses and nuclear trafficking, the strongest common theme is regulation of gene expression during development. This label captures the central function suggested by the enrichment while remaining concise.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0007275","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0016242","count":3}]},{"hash":"1779335062107013027","title":"Brain amino acid transport and neurotransmission","description":"These proteins center on amino acid transport (glycine, proline, leucine) and neural signaling (glycinergic synaptic transmission, serotonin secretion, dopamine catabolic processes), with brain development terms (thalamus, adenohypophysis) indicating a neural context. This supports a theme of brain-specific amino acid handling that underpins neurotransmission.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021794","count":13},{"id":"GO:0015824","count":10},{"id":"GO:0036233","count":10},{"id":"GO:1905847","count":10},{"id":"GO:1903346","count":10}]},{"hash":"1950473142057374508","title":"Neural development and synapse formation","description":"The top GO terms point to neural development, axon guidance/fasciculation, myelination, and synapse assembly, suggesting the proteins group around brain development and neural connectivity. While a few terms touch on broader embryonic morphogenesis (e.g., cranial skeleton, otolith morphogenesis) and may be peripheral, the dominant signal is neural differentiation and synaptic organization, making this a coherent neural-development cluster.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0014068","count":10},{"id":"GO:0042552","count":10},{"id":"GO:0032474","count":10},{"id":"GO:0051965","count":10},{"id":"GO:0007413","count":10}]},{"hash":"1769829063877009759","title":"Embryonic development and lineage differentiation","description":"The GO terms point to broad developmental processes across mesodermal tissues (mesoderm formation, bone and chondrocyte development, EMT in heart cushion formation) and neural development (axon guidance, synapse maturation), along with general gene regulation (DNA-templated transcription, DNA replication). This suggests a cohesive theme of embryonic development and lineage specification rather than a single pathway, making a development-focused label appropriate, though it remains broad given the diversity of terms.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0060348","count":7},{"id":"GO:0003198","count":6},{"id":"GO:0060074","count":5},{"id":"GO:0051481","count":5}]},{"hash":"2013747896034556839","title":"GPCR Signaling Regulation","description":"This cluster prominently features GO terms related to regulating GPCR signaling (positive regulation of GPCR signaling pathway) and related signaling responses (response to peptide, inflammatory signaling, astrocyte chemotaxis). While other terms touch on vascular, neural, and gastrointestinal processes (blood coagulation, visual perception, gastrin-induced acid secretion, cardiac development), they can be connected through broad, tissue-spanning regulation of signaling pathways, with GPCR pathways often central to these processes. Therefore, a label centered on GPCR signaling regulation best captures the shared functional theme.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":21},{"id":"GO:0007601","count":21},{"id":"GO:0010513","count":21},{"id":"GO:2000458","count":21},{"id":"GO:0001698","count":21}]},{"hash":"67283816334890177","title":"Polarity and cytoskeleton signaling","description":"Based on frequent terms related to epithelial cell polarity establishment, actin cytoskeleton dynamics (barbed-end capping), Rho-family GTPase regulation, and TGF-beta\u2013related signaling, the cluster appears to group proteins involved in signaling pathways that govern cell shape, polarity, and cytoskeletal remodeling. While bone development and innate immunity appear, the converging theme is regulation of cellular architecture and signaling.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0060348","count":7},{"id":"GO:0043547","count":6},{"id":"GO:0016567","count":5},{"id":"GO:0051660","count":5},{"id":"GO:0045087","count":5}]},{"hash":"1386310526890461667","title":"ECM remodeling and epidermal differentiation signaling","description":"The top terms cluster around extracellular matrix components and adhesion (collagen fibril organization, integrin-mediated adhesion), along with keratinocyte differentiation and Notch signaling, plus related inflammatory and vascular cues (TNF response, VEGF signaling). This suggests proteins involved in ECM interactions and epidermal differentiation with broader signaling context.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0032331","count":10},{"id":"GO:1900748","count":10},{"id":"GO:0010042","count":8},{"id":"GO:0033631","count":8},{"id":"GO:0030216","count":8}]},{"hash":"67242051613687796","title":"Aromatic Compound Metabolism and Detoxification","description":"The cluster shows enrichment for metabolic and detoxification processes, including chlorophyll catabolic process, cellular oxidant detoxification, beta-ketoadipate pathway, antibiotic biosynthetic process, and biotin biosynthetic process, suggesting a theme of aromatic compound metabolism and secondary metabolite production. Some terms like neural tube closure and forebrain development appear as outliers, likely misannotations, so the core signal centers on metabolism and detoxification rather than development. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015996","count":5},{"id":"GO:0098869","count":5},{"id":"GO:0042952","count":5},{"id":"GO:0017000","count":5},{"id":"GO:0001843","count":5}]},{"hash":"206123440834048750","title":"Retina development and melanosome transport","description":"This cluster centers on terms related to the visual system (retina development, visual perception) and pigment-related trafficking (endosome to melanosome transport), along with signaling pathways (VEGF, Notch, integrin) that often govern eye development and pigment cell biology. While there are some additional signaling and receptor terms, the dominant themes align with retina/pigment cell function and transport processes. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061298","count":4},{"id":"GO:1900746","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0045747","count":4},{"id":"GO:0046813","count":4}]},{"hash":"100918409837069544","title":"Cell-cycle transcription and chromatin remodeling","description":"Most terms converge on gene expression control linked to cell division: DNA-templated transcription, transcription initiation, chromatin remodeling/nucleosome mobilization, and mRNA processing, together with the mitotic cell cycle and cell division. A secondary cluster involves translation and a plant cytokinin signaling context; however the core signal is transcriptional regulation during the cell cycle.","confidence":"High","size":26,"edges":9,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0002181","count":3},{"id":"GO:0043044","count":3},{"id":"GO:0006367","count":3}]},{"hash":"1411336898615598317","title":"Embryonic Eye and Brain Development","description":"These proteins are enriched for GO terms tied to embryonic organogenesis, especially development of the eye (embryonic eye morphogenesis, retina development, camera-type eye development) and brain patterning (brain segmentation, rhombomere development). Additional terms point to broader morphogenesis (lung branching, osteoblast development) and transcriptional regulation, consistent with developmental programs. The shared emphasis on eye/brain development justifies this label.","confidence":"High","size":26,"edges":301,"triangles":2083,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":15},{"id":"GO:0048048","count":10},{"id":"GO:0035284","count":10},{"id":"GO:0021571","count":10},{"id":"GO:0060441","count":8}]},{"hash":"1929748536295325141","title":"Translation machinery and antiviral response with vesicle dynamics","description":"This cluster is enriched for core protein synthesis functions (translation, cytoplasmic translation, ribosomal subunit assembly) and innate antiviral signaling (interferon-alpha response, negative regulation of viral genome replication). Additional terms point to membrane and vesicle trafficking processes (membrane fusion; synaptic vesicle budding and recycling), suggesting a theme around coordinated protein synthesis with vesicle dynamics and antiviral defense. Confidence reflects a coherent, but not perfectly uniform, theme across the terms.","confidence":"Medium","size":26,"edges":223,"triangles":1029,"max_degree":24,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0035455","count":6},{"id":"GO:0045071","count":6},{"id":"GO:0000027","count":4},{"id":"GO:0061025","count":3}]},{"hash":"2079355455819773777","title":"Steroidogenesis and gonadal development","description":"The cluster is dominated by GO terms linked to sex hormone production and gonadal development (female gonad development, testosterone biosynthetic process, androgen metabolic process, prostate gland growth, uterus development), suggesting a cohesive theme of steroid biosynthesis and reproductive organ differentiation. A few terms appear unrelated (retina vasculature development, camphor/kaurene metabolism), likely noise or cross-annotation, but do not override the main theme. ","confidence":"High","size":26,"edges":16,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":11},{"id":"GO:0061370","count":8},{"id":"GO:0008209","count":8},{"id":"GO:0061298","count":6},{"id":"GO:0019383","count":6}]},{"hash":"911059299179664313","title":"Oxidative Stress and Angiogenesis in Wound Healing","description":"The top GO terms point to cellular oxidant detoxification and redox homeostasis, alongside angiogenesis-related processes such as endothelial cell migration and vasodilation, which together suggest a program of managing oxidative stress while promoting vascular remodeling in wound healing. The presence of myoblast proliferation also aligns with tissue regeneration contexts. ","confidence":"High","size":26,"edges":233,"triangles":1251,"max_degree":25,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0098869","count":13},{"id":"GO:0045454","count":8},{"id":"GO:0045444","count":7},{"id":"GO:0033194","count":7},{"id":"GO:0042311","count":7}]},{"hash":"2030935211347806296","title":"Spliceosome-driven mRNA processing and stability regulation","description":"The top GO terms center on spliceosome-mediated splicing (mRNA splicing, cis splicing, and regulation of splicing), plus regulation of mRNA stability in response to stress and RNA polyadenylation (including mitochondrial polyadenylation). There's also regulatory ncRNA-mediated gene silencing and hints of host\u2013virus RNA genome interactions, all pointing to a cohesive theme of RNA maturation, processing, and stress-responsive regulation. ","confidence":"High","size":26,"edges":325,"triangles":2600,"max_degree":25,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":22},{"id":"GO:0000398","count":13},{"id":"GO:0006378","count":13},{"id":"GO:0031047","count":13},{"id":"GO:0048026","count":13}]},{"hash":"2152673589895033003","title":"Neuronal Synapse Organization and Signaling (Rho-regulated)","description":"Based on the top GO terms, the proteins cluster around neural connectivity and communication: synapse organization, chemical synaptic transmission, and Rho protein signaling, with ties to cerebellar development and behavior (exploration, vocalization). This coherent theme supports labeling as neuronal synapse organization and signaling, including cytoskeletal signaling aspects.","confidence":"High","size":26,"edges":95,"triangles":247,"max_degree":17,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0050808","count":18},{"id":"GO:0035023","count":18},{"id":"GO:0051612","count":14},{"id":"GO:1901206","count":14},{"id":"GO:0050953","count":14}]},{"hash":"126899180075719178","title":"Unknown","description":"The terms are highly heterogeneous, spanning ubiquitin-dependent protein catabolism, development (male gonad, placenta morphogenesis), spindle assembly, immune responses, isotype switching, and even plant gravitropism, with obsolete GO entries and no edges linking the proteins. There is no single cohesive function or pathway that ties all proteins together, so a specific label isn\u2019t justifiable.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:1901536","count":6},{"id":"GO:1900477","count":6},{"id":"GO:0008584","count":5},{"id":"GO:0051225","count":4}]},{"hash":"1422566919266491826","title":"Cartilage formation and collagen-driven ossification","description":"Top terms cluster around collagen fibril organization and collagen biosynthesis, together with cartilage condensation, cartilage development in endochondral bone morphogenesis and intramembranous ossification, pointing to cartilage and bone formation driven by ECM collagen. Additional terms reference skin morphogenesis and angiogenesis regulation, but the dominant theme is skeletogenesis through collagen-rich extracellular matrix and ossification processes. Therefore the label Cartilage formation and collagen-driven ossification captures the main function of this cluster.","confidence":"High","size":26,"edges":13,"triangles":1,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030199","count":8},{"id":"GO:0016525","count":7},{"id":"GO:0001502","count":6},{"id":"GO:0070374","count":5},{"id":"GO:0070208","count":5}]},{"hash":"1097241549033246088","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":27,"triangles":5,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035690","count":7},{"id":"GO:0050852","count":6},{"id":"GO:0060065","count":5},{"id":"GO:0061370","count":5},{"id":"GO:0008209","count":5}]},{"hash":"1048483099350447551","title":"Mitochondrial Translation and RNA Modification","description":"The top GO terms cluster around mitochondrial protein synthesis (translation), RNA processing and methylation (tRNA and rRNA methylation, SSU rRNA maturation), and mitochondrial energy metabolism (aerobic respiration, NADH to ubiquinone). This suggests a cohesive module focused on mitochondrial gene expression and ribosome biogenesis, coupled with energy production and related mitochondrial transport processes such as calcium import. ","confidence":"High","size":26,"edges":116,"triangles":156,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0006120","count":4},{"id":"GO:0030488","count":3},{"id":"GO:0071897","count":3},{"id":"GO:0055114","count":3}]},{"hash":"1723879997131886525","title":"Neuronal signaling and nucleotide salvage","description":"The top GO terms point to neural communication functions (synapse organization; negative regulation of serotonin uptake) and nucleotide metabolism (CTP/UMP salvage, pyrimidine metabolism), with phosphorylation/dephosphorylation indicating active signaling regulation. DNA repair and viral process appear less integral to the core theme, suggesting the cluster centers on neural signaling coupled with nucleotide turnover rather than a single cohesive pathway. Confidence: Medium","confidence":"","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0016310","count":5},{"id":"GO:0006281","count":4},{"id":"GO:0016032","count":4},{"id":"GO:0016311","count":4},{"id":"GO:0051612","count":3}]},{"hash":"1875076907877261661","title":"NOD2-driven immune signaling and ubiquitin regulation","description":"This cluster centers on NOD2 signaling and innate immune responses to pathogens (MDP and dsRNA), including IFN-gamma pathways and NF-kappaB-related regulation, while also featuring ubiquitin-proteasome processes (SCF-mediated ubiquitination) and cytoskeletal/polarity functions, suggesting a module that coordinates pathogen sensing with ubiquitin-dependent signaling and cytoskeletal dynamics.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070431","count":9},{"id":"GO:0090307","count":9},{"id":"GO:0016567","count":9},{"id":"GO:0032088","count":9},{"id":"GO:0031146","count":9}]},{"hash":"463284499636455682","title":"Wnt-driven cell cycle regulation","description":"The cluster centers on canonical Wnt signaling and mitotic processes (G2/M transition, spindle pole separation) with strong transcription-related terms (DNA-templated transcription, RNA Pol II regulation), suggesting a module where Wnt signaling interfaces with transcriptional control and cell division.","confidence":"High","size":26,"edges":173,"triangles":447,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060070","count":12},{"id":"GO:0051301","count":12},{"id":"GO:0000122","count":11},{"id":"GO:0006351","count":11},{"id":"GO:0032026","count":11}]},{"hash":"349645447195163907","title":"Synaptic signaling and dendrite morphogenesis regulators","description":"The cluster\u2019s top GO terms are dominated by neuronal signaling and synaptic plasticity concepts (long-term potentiation, excitatory postsynaptic potential, cellular response to epinephrine) and regulatory processes affecting dendrite morphology (negative regulation of dendrite morphogenesis) plus signaling modulation (positive regulation of GTPase activity, negative regulation of protein ubiquitination). While a few terms (fibrinolysis, skeletal muscle development) seem less connected, the core theme centers on synaptic function and dendritic regulation, suggesting regulatory proteins involved in neuronal signaling. Confidence: Medium","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0071872","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0060079","count":3}]},{"hash":"1038531538082381661","title":"Cell cycle and developmental signaling","description":"This cluster centers on DNA replication and centrosome cycle (cell cycle) and includes developmental processes such as multicellular organism development and embryonic cranial skeleton morphogenesis, with hippo signaling indicating growth-control involvement. The combination of proliferation-related terms with development and growth regulation suggests a cohesive theme of cell cycle progression linked to morphogenesis and organismal growth.","confidence":"High","size":26,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007118","count":21},{"id":"GO:0010571","count":21},{"id":"GO:0006260","count":21},{"id":"GO:0048701","count":21},{"id":"GO:0007098","count":21}]},{"hash":"1052256897130095549","title":"Developmental transcription and signaling cluster","description":"This cluster centers on DNA-templated transcription with multiple developmental programs across tissues (neural development, adipogenesis, cartilage growth, placental development) and includes the p38 MAPK cascade, as well as cellular responses to LPS and retinoic acid. The co-occurrence of transcription-related GO terms with diverse developmental and signaling processes suggests a module where signaling cues regulate transcription during development and stress responses.","confidence":"Medium","size":26,"edges":28,"triangles":17,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":15},{"id":"GO:2001275","count":14},{"id":"GO:0021952","count":14},{"id":"GO:0071222","count":14},{"id":"GO:0038066","count":14}]},{"hash":"2150772218125444080","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":4},{"id":"GO:0006261","count":4},{"id":"GO:0009611","count":3},{"id":"GO:0000289","count":3},{"id":"GO:0000738","count":3}]},{"hash":"2049907551707409061","title":"Nuclear import and chromatin localization proteins","description":"The prevalent GO terms focus on importing proteins into the nucleus (NLS-bearing import, ribosomal protein import), nuclear pore complex assembly, and localization to chromatin, indicating a cluster enriched for nuclear transport and chromatin-targeting functions. A few terms about spindle dynamics and GTPase regulation are related but do not override the core theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051232","count":6},{"id":"GO:0060188","count":5},{"id":"GO:0006607","count":5},{"id":"GO:0000060","count":5},{"id":"GO:0006610","count":5}]},{"hash":"1174326902816598736","title":"Retinal Ganglion Cell Axon Guidance","description":"The top GO terms cluster around neural development and axon pathfinding in the visual system: retinal ganglion cell axon guidance, CNS projection neuron axonogenesis, and visual perception, indicating a set of proteins coordinating guidance and growth of visual-pathway neurons. Supporting terms related to axon fasciculation and cellular polarization reinforce a neurite outgrowth/axon guidance theme, though a few terms (like heart development) appear less connected. Overall, the dominant signal is retinal/visual neuron axon guidance.","confidence":"High","size":26,"edges":303,"triangles":2120,"max_degree":25,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046827","count":26},{"id":"GO:0021952","count":25},{"id":"GO:0007601","count":25},{"id":"GO:0045819","count":25},{"id":"GO:1901196","count":25}]},{"hash":"1521711115168783643","title":"DNA Damage Response and Inflammatory Signaling","description":"The cluster centers on responses to DNA damage and repair (base-excision repair, nucleotide-excision repair, DNA replication) alongside cell fate decisions (intrinsic apoptotic signaling in response to DNA damage, neuron apoptotic process) and inflammatory signaling (inflammatory response, cytokine production and NOD2 pathway). The presence of protein homooligomerization terms supports assembly of repair and signaling complexes. Together, these terms point to a cohesive module connecting DNA damage repair with apoptosis and inflammatory signaling.","confidence":"High","size":26,"edges":107,"triangles":212,"max_degree":20,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007568","count":6},{"id":"GO:0006284","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0051402","count":5},{"id":"GO:0006954","count":5}]},{"hash":"1541477824667727613","title":"Mitotic Cell Cycle Regulation","description":"The top terms cluster around mitosis and cell cycle control, including G1/S and G2/M transitions, CDK activity regulation, chromosome condensation (H3S10 phosphorylation), and spindle dynamics, pointing to mitotic entry and progression as the core theme. Some terms about transcription regulation and epithelial proliferation may reflect broader coordination during cell division.","confidence":"High","size":26,"edges":19,"triangles":8,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000082","count":16},{"id":"GO:0045737","count":14},{"id":"GO:2000775","count":13},{"id":"GO:0000086","count":13},{"id":"GO:0010696","count":13}]},{"hash":"135117395438077490","title":"MAPK/ERK Pathway Negative Regulators","description":"This cluster is driven by GO terms pointing to dephosphorylation and inhibition of MAPK/ERK signaling (negative regulation of T cell receptor signaling, negative regulation of ERK cascade, peptidyl-tyrosine dephosphorylation) and related roles in cell cycle control and mitotic regulation, suggesting a group of MAPK pathway inhibitors linked to cell division processes.","confidence":"Medium","size":26,"edges":323,"triangles":2553,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":22},{"id":"GO:0000200","count":22},{"id":"GO:0070373","count":22},{"id":"GO:0035335","count":19},{"id":"GO:0007049","count":18}]},{"hash":"1301363798563584847","title":"cGMP signaling and olfactory perception","description":"The top GO terms cluster around cGMP-mediated signaling and metabolism (cellular response to cGMP, cGMP catabolic process, regulation of receptor guanylyl cyclase signaling), together with sensory perception of smell, indicating a module centered on guanylyl cyclase\u2013linked signaling in olfactory pathways, with some supporting dopamine-related signaling context.","confidence":"High","size":26,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071321","count":16},{"id":"GO:0007608","count":16},{"id":"GO:0010754","count":16},{"id":"GO:0042053","count":15},{"id":"GO:0071560","count":15}]},{"hash":"1207982387243054979","title":"Post-transcriptional RNA processing and translational control","description":"The cluster is enriched for splicing-related terms (mRNA splicing via spliceosome, regulation of alternative splicing, polyadenylation) together with mRNA stability and translational control (mRNA stabilization, translation reinitiation, miRNA/ncRNA-mediated silencing, IRES-dependent translation), indicating a cohesive focus on post-transcriptional regulation of gene expression.","confidence":"High","size":26,"edges":325,"triangles":2600,"max_degree":25,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":14},{"id":"GO:0010610","count":13},{"id":"GO:0006378","count":12},{"id":"GO:0031047","count":12},{"id":"GO:0035278","count":11}]},{"hash":"743263842636392327","title":"Cartilage condensation and facial morphogenesis with signaling regulation","description":"The top GO terms point strongly to cartilage condensation and face morphogenesis, indicating a craniofacial developmental role. Supporting signals include regulation of Rho and Ras signaling, TGF-beta responses, receptor internalization, and substrate adhesion-dependent cell spreading, which together reflect signaling and cytoskeletal remodeling during development. A complement/immune term appears but does not override the developmental theme, so the label emphasizes morphogenesis with signaling control.","confidence":"Medium","size":26,"edges":4,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071226","count":16},{"id":"GO:0001502","count":13},{"id":"GO:0060325","count":11},{"id":"GO:0001867","count":11},{"id":"GO:0050764","count":10}]},{"hash":"762945490730642060","title":"RNA Processing and Translation Regulation","description":"This cluster is enriched for translation-related terms (translation reinitiation, formation of translation preinitiation complex, IRES-dependent initiation) and for post-transcriptional RNA processing and regulation (regulatory ncRNA-mediated gene silencing, regulation of mRNA splicing via spliceosome, mRNA stability in response to stress, miRNA-mediated gene silencing). Together these GO terms indicate coordinated control of gene expression at the RNA level, spanning initiation of translation and spliceosome-mediated splicing.","confidence":"High","size":26,"edges":16,"triangles":6,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":19},{"id":"GO:0001731","count":19},{"id":"GO:0031047","count":16},{"id":"GO:0048025","count":16},{"id":"GO:0006378","count":16}]},{"hash":"1267097653290185227","title":"Innate NF-kappaB and TLR signaling","description":"Top GO terms indicate a cohesive set of proteins driving innate immune activation via TLR and TNF/NF-kappaB pathways, with regulation of apoptosis/necroptosis and ubiquitination as key modulators. This suggests a functionally connected cluster of signaling and regulatory components in innate inflammatory responses.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0060544","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0071157","count":3},{"id":"GO:0034121","count":3}]},{"hash":"1709119512339113172","title":"Innate Immune and Stress Response","description":"The terms point to activation of innate immune signaling (lipopolysaccharide response, IL-6 production, dsRNA response) and cellular stress/damage control (apoptosis, base-excision repair, xenobiotic response). These together suggest a functional cluster centered on immune defense, inflammatory signaling, and DNA damage repair; a few terms about development or behavior (myotome, thigmotaxis) may reflect broader roles in signaling networks or annotation noise.","confidence":"Medium","size":26,"edges":14,"triangles":1,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0061055","count":4},{"id":"GO:0010738","count":4},{"id":"GO:0042226","count":4}]},{"hash":"1047574561910502440","title":"Immune signaling and ubiquitin regulation","description":"The cluster is dominated by GO terms related to adaptive immunity, including B cell receptor signaling, germinal center formation, type 2 immune response, and regulation of IgE isotype switching, along with ubiquitin-related processes (ubiquitin-dependent protein catabolic process and negative regulation of protein ubiquitination). This points to a theme of immune cell signaling modulated by ubiquitin-dependent regulation, though a few terms like phototropism/gravitropism may reflect annotation noise. Overall, an immune signaling plus ubiquitin-regulation theme fits best.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0050853","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0048294","count":5},{"id":"GO:0009958","count":5}]},{"hash":"814670231569014533","title":"Mitochondrial respiration and cristae assembly","description":"The cluster is dominated by GO terms tied to mitochondrial energy production: proton transmembrane transport, assembly of the respiratory chain complex IV, respirasome assembly, and cristae formation, plus overall aerobic respiration and electron transport. While a few terms (AMP salvage, liver development, GTP metabolism) are less representative, the core theme points to mitochondrial inner-mMEMbrane processes and oxidative phosphorylation. Hence, the label reflects the likely function of these proteins as participants in mitochondrial respiration and cristae organization.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":3},{"id":"GO:0033617","count":2},{"id":"GO:0042407","count":2},{"id":"GO:0009060","count":2},{"id":"GO:0097250","count":2}]},{"hash":"1672167587505767721","title":"Developmental Transcriptional Regulation and Organ Morphogenesis","description":"The cluster is enriched for transcription by RNA polymerase II and its negative regulation, alongside multiple organ morphogenesis terms (eye, ear, pituitary, pancreas, lung) and neuronal commitment. This combination suggests proteins coordinate transcriptional programs that drive embryonic organ development and tissue specification, rather than a single tissue. ","confidence":"High","size":26,"edges":213,"triangles":717,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":11},{"id":"GO:0000122","count":11},{"id":"GO:0060441","count":8},{"id":"GO:0043010","count":8},{"id":"GO:0048048","count":8}]},{"hash":"1615885833308435625","title":"Ribosome Biogenesis and RNA Processing","description":"The strongest signals are maturation of rRNA (SSU/LSU) and mRNA processing/transport, which point to ribosome biogenesis and RNA maturation; additional GO terms for ER-Golgi vesicle transport, TORC1 signaling, GTPase regulation, and actin nucleation suggest coordinated regulation of the secretory pathway and cytoskeleton during growth. This combination supports a theme centered on RNA maturation and ribosome assembly with linked trafficking and signaling processes.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000463","count":6},{"id":"GO:0006888","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0051028","count":5},{"id":"GO:0070262","count":5}]},{"hash":"1784083803600553461","title":"Aromatic Compound Catabolism and Redox Detoxification","description":"The terms point to degradation and processing of diverse organic compounds (beta-ketoadipate pathway, stilbene catabolic, triglyceride catabolic, antibiotic biosynthesis) along with redox-related activities (oxidation-reduction, cellular oxidant detoxification). This suggests a cluster of proteins involved in broad catabolic metabolism, especially aromatic compound degradation, with supporting glycolysis and proteolysis. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0017000","count":5},{"id":"GO:0042952","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0006508","count":5},{"id":"GO:0098869","count":5}]},{"hash":"339626135824775764","title":"Embryonic development and organ morphogenesis","description":"The proteins are enriched for GO terms spanning embryonic tissue formation and organogenesis, including palate development, mesoderm and cartilage morphogenesis, endocardial cushion EMT, placental/trophoblast differentiation, pancreatic endocrine development, endocrine system development, and left\u2013right pattern formation, indicating a developmental/morphogenetic program.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":10},{"id":"GO:0003323","count":9},{"id":"GO:0007498","count":8},{"id":"GO:0060806","count":7},{"id":"GO:0060536","count":7}]},{"hash":"757343444470330082","title":"Actin Cytoskeleton Remodeling and Cell Polarity","description":"The top GO terms point to actin cytoskeleton dynamics (reorganization, crosslinking), regulation of Rho signaling, and processes governing cell shape and polarity, along with related vesicle trafficking, all of which together define cytoskeletal remodeling and how cells migrate or polarize. A mitotic spindle term appears but is less central to the cluster\u2019s core theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0090307","count":6},{"id":"GO:0031532","count":6},{"id":"GO:0090051","count":5},{"id":"GO:0051764","count":5},{"id":"GO:0071963","count":5}]},{"hash":"114300068793192950","title":"Retina visual signaling and dopaminergic behavior","description":"The cluster is dominated by GO terms for visual perception, opsin signaling, visual learning, and dopaminergic synaptic transmission, plus a behavioral response to cocaine, all pointing to retinal/visual signaling and dopamine-mediated neural pathways. GPCR internalization and regulation of GTPase activity support receptor signaling dynamics relevant to these processes; while terms like macrophage chemotaxis and heart development are present, they are less central to the core theme. Overall, the label captures the primary theme of visual system signaling with dopaminergic modulation.","confidence":"High","size":26,"edges":74,"triangles":26,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":20},{"id":"GO:0010759","count":20},{"id":"GO:0043547","count":20},{"id":"GO:0022400","count":20},{"id":"GO:0019233","count":20}]},{"hash":"1320958268255615468","title":"Cardiovascular GPCR\u2013cAMP Signaling","description":"This cluster is characterized by GO terms tied to GPCR signaling and downstream cAMP activation (including activation of adenylate cyclase) and cardiovascular processes such as blood pressure regulation and heart development. While some terms point to broader tissue contexts (e.g., visual perception, saliva secretion), the strongest signal centers on GPCR-mediated signaling pathways that govern cardiovascular function and development, with supporting roles in energy metabolism and cytoskeletal regulation.","confidence":"Medium","size":26,"edges":5,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":21},{"id":"GO:0022900","count":21},{"id":"GO:0010579","count":21},{"id":"GO:0007190","count":19},{"id":"GO:0035025","count":18}]},{"hash":"1066693720309038749","title":"Actin-driven cell projections and cytoskeleton remodeling","description":"The top GO terms are dominated by lamellipodium and filopodium assembly, actin filament-based movement, actin network formation, and Rac signaling, pointing to actin cytoskeleton remodeling that drives cellular protrusions. Developmental terms like neuron projection development and glomerulus/megakaryocyte morphogenesis suggest actin-mediated morphogenesis. Together, these indicate a cohesive theme of actin dynamics underpinning cell projections and movement.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030032","count":5},{"id":"GO:0031175","count":4},{"id":"GO:0051764","count":4},{"id":"GO:0016055","count":3},{"id":"GO:0051639","count":3}]},{"hash":"1851325313619333623","title":"Actin-driven cell migration and polarity","description":"The cluster\u2019s proteins are tied to actin cytoskeleton remodeling and motility, with multiple terms for actin filament/bundle assembly, filopodium and lamellipodium formation, and cell migration, along with signals that regulate GTPase activity and epithelial polarity\u2014together framing actin-driven movement and polarity establishment (with heart development as a potential tissue-context connection).","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":7},{"id":"GO:0043547","count":6},{"id":"GO:0051017","count":6},{"id":"GO:0090162","count":6},{"id":"GO:0046847","count":6}]},{"hash":"681349434321313414","title":"Dendritic spine morphogenesis and actin remodeling","description":"The proteins are enriched for actin cytoskeleton organization, filopodium and lamellipodium assembly, and dendritic spine morphogenesis, pointing to actin-driven changes in neuronal morphology such as spine and dendrite development. The inclusion of regulators of Rho signaling supports this actin remodeling theme. Some terms like insulin signaling or sensory perception of sound may reflect broader signaling contexts but do not override the dominant spine\u2013cytoskeleton signal.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046847","count":5},{"id":"GO:2000463","count":4},{"id":"GO:0060997","count":4},{"id":"GO:0030036","count":4},{"id":"GO:0035023","count":4}]},{"hash":"1621203180578329918","title":"T Cell Activation and Immune Regulation","description":"The dominant terms point to T cell signaling and control of immune responses: T cell costimulation, negative regulation of activated T cell proliferation, and regulation of IL-2/IL-10 production, along with cell\u2013cell adhesion and macrophage activation regulation. While a couple of terms (spermatid development, detection of tumor cell) are less related, the core cluster centers on adaptive immune activation and its modulation.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031295","count":9},{"id":"GO:0014068","count":8},{"id":"GO:0046007","count":8},{"id":"GO:2001181","count":8},{"id":"GO:0007157","count":8}]},{"hash":"1844557206324613918","title":"Neuronal adhesion and synapse formation","description":"Top GO terms are dominated by nervous system development (GO:0007399), neuron projection development (GO:0031175), and cell-cell adhesion (GO:0007156, GO:0007157). The strong representation of both homophilic and heterophilic adhesion and the positive regulation of synapse assembly suggest proteins involved in neural connectivity and synapse formation. While there are immune-related terms present (innate immune response, complement activation), they appear ancillary to the central neural theme. ","confidence":"High","size":26,"edges":71,"triangles":37,"max_degree":11,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":18},{"id":"GO:0007156","count":17},{"id":"GO:0007157","count":17},{"id":"GO:0051965","count":16},{"id":"GO:0043931","count":15}]},{"hash":"712254969714308396","title":"Unknown","description":"The top GO terms point to a variety of disparate processes (mitochondrial morphogenesis, lens morphogenesis, protein deglutamylation, neurotransmitter catabolic process, iron transport/homeostasis, ERAD-related glycoprotein processing, and other trafficking/modulation activities), with no single dominant function linking all proteins. This lack of a cohesive theme makes a specific, informative label unlikely.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070584","count":2},{"id":"GO:0070309","count":2},{"id":"GO:0035609","count":1},{"id":"GO:0042135","count":1},{"id":"GO:0033572","count":1}]},{"hash":"1743515674032722646","title":"Embryonic Development and Morphogenesis","description":"The top GO terms cluster around embryogenesis and tissue formation across multiple organ systems (cartilage morphogenesis, placenta and endocrine development, EMT in heart cushion formation, left-right patterning, pancreatic cell differentiation). Additional terms on transcription regulation and protein folding are general supporting processes in development. Overall, the proteins appear tied to broad developmental programs rather than a single pathway, supporting a label centered on embryonic morphogenesis.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060536","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0003323","count":3}]},{"hash":"680097576621841973","title":"Developmental signaling and cytoskeletal dynamics","description":"The top GO term is positive regulation of GTPase activity, and there are multiple development-related terms (bone, neuron projection, adipose) along with cytoskeletal/membrane processes (cleavage furrow formation, plasma membrane tubulation) and mitotic cell cycle. This pattern suggests a cluster of proteins involved in signaling that coordinates development with cytoskeletal remodeling and cell division. A focused label like \u201cDevelopmental signaling and cytoskeletal dynamics\u201d captures these themes without overcommitting to a single pathway.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0060348","count":3},{"id":"GO:0031175","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0031139","count":2}]},{"hash":"916441135467044644","title":"Neuronal remodeling and cytoskeletal signaling","description":"The top GO terms point to neuronal structural change and signaling, including dendritic spine morphogenesis and collateral sprouting (cytoskeletal remodeling), plus regulation of Rho/GTPase activity and GPCR signaling (actin dynamics and signaling pathways in neurons). The presence of aggresome assembly and cellular response to misfolded protein suggests concurrent proteostasis stress that can accompany remodeling. A few terms like bone development or thrombin-activated receptor signaling may reflect shared signaling components across tissues, but the core cluster seems centered on neuronal plasticity driven by cytoskeletal regulation.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":2},{"id":"GO:0006909","count":2},{"id":"GO:0071218","count":2},{"id":"GO:0070493","count":2},{"id":"GO:0070842","count":2}]},{"hash":"1082401232376782493","title":"Ubiquitin-Proteostasis Regulators","description":"This cluster is enriched in ubiquitin-related processes (ubiquitin-dependent ERAD, deubiquitination) and protein quality control (aggresome assembly, autophagosome maturation). It also includes GO terms linking to regulation of signaling pathways (Wnt and T cell receptor signaling) and transcription, suggesting these proteins modulate signaling by controlling proteostasis. The combination points to a coherent theme of ubiquitin-mediated proteostasis that shapes diverse signaling outputs, hence the label. ","confidence":"High","size":25,"edges":266,"triangles":1655,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":11},{"id":"GO:0016579","count":9},{"id":"GO:0070842","count":8},{"id":"GO:0090263","count":6},{"id":"GO:0090090","count":6}]},{"hash":"1113833474947817783","title":"Translation initiation and regulation","description":"Most GO terms center on initiation of protein synthesis and its control, including formation of the translation preinitiation complex, regulation of translational initiation, and miRNA-mediated inhibition of translation, as well as IRES-dependent viral initiation. Additional terms touch on transcription, ER-Golgi trafficking, and ubiquitination, which may reflect multifunctional roles of cluster members rather than defining a single process; however the dominant signal is translation initiation and its regulation.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0006446","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0090502","count":3}]},{"hash":"414126316906354086","title":"Neural Development with Synaptic Signaling","description":"The cluster is dominated by GO terms tied to neural development and synaptic function (axonogenesis, Schwann cell development, long-term potentiation, excitatory postsynaptic potential) and includes a visual perception component, suggesting involvement in neural differentiation and synapse formation with a possible retinal/vision link; cell cycle terms likely reflect developmental proliferation. ","confidence":"High","size":25,"edges":8,"triangles":1,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":15},{"id":"GO:0010800","count":15},{"id":"GO:0007275","count":15},{"id":"GO:0007507","count":15},{"id":"GO:0060291","count":15}]},{"hash":"1885936327122994586","title":"Rho/Rac-Integrin Immune Signaling","description":"The top GO terms point to regulation of Rho and Rac GTPase signaling and integrin-mediated pathways, indicating cytoskeletal and receptor signaling roles. Additional terms about IL-4 production, hematopoiesis, and NK T cell differentiation support involvement in immune cell development and activation. Together these suggest a cohesive module centered on small GTPase and integrin signaling in immune contexts.","confidence":"High","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":20},{"id":"GO:0007229","count":17},{"id":"GO:0046580","count":17},{"id":"GO:2001275","count":16},{"id":"GO:0048009","count":16}]},{"hash":"1766859747623701545","title":"Organ Development and Vascular Differentiation","description":"The top GO terms point to development and differentiation across multiple organs (retina vasculature, hepatocytes, uterus, prostate) and to endothelial adhesion, suggesting a theme of organogenesis and vascular formation. A few metabolic/catabolic terms are present but appear less central to the cluster\u2019s core signals. Overall, the cluster seems driven by developmental and vascular processes rather than a single specific biochemical pathway.","confidence":"Medium","size":25,"edges":38,"triangles":3,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0061298","count":7},{"id":"GO:0019383","count":7},{"id":"GO:0060736","count":7},{"id":"GO:0010164","count":7},{"id":"GO:0010241","count":7}]},{"hash":"1479777870340345077","title":"Metal Ion Homeostasis & Stress Response","description":"The Top Terms show strong signals for metal ion handling (zinc, cobalt, cadmium) and related transport/homeostasis, along with broad stress-response terms (response to toxic substance, hypoxia, acute-phase response). This suggests the cluster centers on metal ion regulation and general stress signaling, despite a few outlier terms like gonad development or embryo implantation that appear less representative.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":3},{"id":"GO:0010043","count":3},{"id":"GO:0009636","count":2},{"id":"GO:0007566","count":2},{"id":"GO:0006953","count":2}]},{"hash":"1502845039804688861","title":"RNA processing and translational regulation","description":"The top GO terms center on mRNA processing (splicing, polyadenylation, stabilization) and translation control (cytoplasmic translation, translation reinitiation, miRNA-mediated silencing, regulatory ncRNA silencing, IRES-dependent initiation), indicating a cohesive cluster of proteins involved in post-transcriptional regulation of gene expression.","confidence":"High","size":25,"edges":23,"triangles":7,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0002181","count":2},{"id":"GO:0035278","count":2},{"id":"GO:0031047","count":2}]},{"hash":"545921317054454487","title":"Craniofacial bone development","description":"The cluster is enriched for terms tied to bone formation and craniofacial morphogenesis (positive regulation of osteoblast differentiation, viscerocranium morphogenesis, roof of mouth development, primitive streak formation) and includes transcriptional regulation and calcium-responsive signaling, suggesting a coherent embryonic craniofacial skeletal development program.","confidence":"High","size":25,"edges":281,"triangles":1934,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045669","count":13},{"id":"GO:0006351","count":12},{"id":"GO:0003151","count":11},{"id":"GO:0071277","count":11},{"id":"GO:0060021","count":9}]},{"hash":"2071966849803666592","title":"Ribosome biogenesis and translation machinery","description":"This cluster is dominated by GO terms for translation, cytoplasmic translation, ribosome biogenesis, and tRNA aminoacylation, pointing to proteins involved in ribosome assembly and protein synthesis. A couple of terms (subtelomeric heterochromatin formation, endocytosis) appear as outliers and may reflect annotation noise or multifunctionality.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0042254","count":5},{"id":"GO:0006426","count":5},{"id":"GO:0006420","count":5},{"id":"GO:0002181","count":3}]},{"hash":"1425386385240904462","title":"Innate Immune Signaling and Cytoskeletal Dynamics","description":"The top terms show a clear emphasis on innate immune response and antiviral defense, along with regulators of Rho signaling and microtubule-based movement, suggesting a cluster of proteins involved in immune signaling coupled with cytoskeletal dynamics. Some terms are less related (developmental, obsolete), but the core theme centers on immune defense supported by cytoskeletal regulation.","confidence":"Medium","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0045087","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0001782","count":3},{"id":"GO:0051092","count":3}]},{"hash":"1863681955201728490","title":"Nucleocytoplasmic Transport and Vesicle Trafficking","description":"The top GO terms point to intracelluar transport and organelle organization, notably nuclear envelope dynamics and NLS-mediated nuclear import, along with endosome-to-lysosome transport and vacuole fusion. This suggests a shared theme around intracellular trafficking and protein localization, despite the lack of edge connectivity in the cluster. Therefore, labeling it as nucleocytoplasmic transport and vesicle trafficking captures the core common function.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006998","count":3},{"id":"GO:0022417","count":2},{"id":"GO:0006607","count":2},{"id":"GO:0043065","count":2},{"id":"GO:1990172","count":2}]},{"hash":"1361441715233648147","title":"Developmental transcriptional regulation and lineage differentiation","description":"This cluster centers on transcriptional control (DNA-templated transcription, RNA polymerase II regulation, chromatin remodeling) and is enriched in developmental differentiation terms (endocrine pancreas development, skeletal muscle cell differentiation, melanocyte differentiation, semicircular canal morphogenesis). The shared theme is transcriptional regulation guiding lineage specification during development.","confidence":"Medium","size":25,"edges":224,"triangles":1058,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0000122","count":9},{"id":"GO:0031018","count":8},{"id":"GO:0060303","count":7},{"id":"GO:0035914","count":7}]},{"hash":"1862565736517083462","title":"Translation Initiation and mRNA Regulation","description":"This cluster shows strong enrichment for translation-related terms (translation reinitiation, preinitiation complex formation, IRES-dependent initiation) along with miRNA/ncRNA-mediated silencing and mRNA stability, plus some splicing regulation. Together these terms point to a cohesive theme of post-transcriptional control of gene expression through translation initiation and RNA processing.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":14},{"id":"GO:0002188","count":10},{"id":"GO:0001731","count":10},{"id":"GO:0035278","count":9},{"id":"GO:0031047","count":9}]},{"hash":"190685305967474200","title":"Cerebellar development and neural signaling","description":"The cluster is enriched for cerebellar-specific developmental terms (cerebellar cortex formation, Bergmann glial cell differentiation) and neural signaling/regulation (axon regeneration, ERK cascade), suggesting a primary theme of cerebellar neural development and signaling. Although there are also cell cycle and immune signaling terms present, the cerebellar development signals are the strongest cue for the cluster\u2019s core function.","confidence":"High","size":25,"edges":270,"triangles":1695,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045736","count":21},{"id":"GO:0034501","count":21},{"id":"GO:0050852","count":18},{"id":"GO:0008285","count":18},{"id":"GO:0060020","count":17}]},{"hash":"2224745743594065226","title":"Hepatic energy metabolism during fasting","description":"The cluster is dominated by liver-centric energy metabolism under fasting: gluconeogenesis, ketone body biosynthesis, fatty acid beta-oxidation, cholesterol metabolism, and amino acid catabolism (leucine). Glyoxysome/peroxisome organization and starvation response terms support lipid processing in liver, while liver development hints at tissue specificity; an apoptosis-related term may reflect hepatocyte stress resilience, but the overall theme is hepatic energy remodeling during starvation.","confidence":"High","size":25,"edges":299,"triangles":2277,"max_degree":24,"top_function":"mitochondrion organization","top_go_terms":[{"id":"GO:0042594","count":13},{"id":"GO:0001889","count":13},{"id":"GO:0046951","count":12},{"id":"GO:0006094","count":10},{"id":"GO:0006635","count":8}]},{"hash":"783961207641537189","title":"Oocyte meiosis and DNA damage response","description":"The cluster combines terms tied to female germ cell development and meiosis (ovarian follicle development; female meiosis sister chromatid cohesion; oocyte karyosome formation) with strong DNA damage/repair signals (responses to camptothecin, cisplatin, and X-ray; telomere maintenance via recombination). This points to a cohesive theme of meiosis-specific chromosome maintenance in oocytes alongside DNA damage sensing and repair mechanisms. ","confidence":"High","size":25,"edges":154,"triangles":473,"max_degree":22,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000722","count":11},{"id":"GO:0001541","count":9},{"id":"GO:0009636","count":8},{"id":"GO:0001932","count":8},{"id":"GO:0007066","count":8}]},{"hash":"688703465650091040","title":"DNA Replication and Repair Cluster","description":"This cluster is dominated by GO terms for DNA replication, mitotic cell cycle, DNA-templated transcription, and DNA repair, indicating a core function in DNA maintenance during cell division. While terms like hippocampus development, dendrite morphogenesis, and signaling pathways (ephrin and T cell receptor, JNK) appear, they are secondary, suggesting some multifunctionality or shared pathways, but the central theme remains nuclear DNA metabolism and cell cycle processes.","confidence":"High","size":25,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":24},{"id":"GO:0000278","count":23},{"id":"GO:0006351","count":21},{"id":"GO:0006281","count":21},{"id":"GO:0021766","count":19}]},{"hash":"1679797438733164024","title":"Inflammatory signaling and cytoskeletal dynamics","description":"GO terms point to inflammatory signaling (NOD2 pathway, chemokine production, NF-kappaB-related activity) and cytoskeletal regulation (calcium signaling, actin filament assembly), with links to cell cycle and apoptosis as well as angiogenesis. This suggests a broader theme of signaling cascades coordinating inflammation and cytoskeletal remodeling rather than a single isolated function.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":14},{"id":"GO:2001275","count":13},{"id":"GO:0070431","count":13},{"id":"GO:0071651","count":13},{"id":"GO:0098703","count":13}]},{"hash":"348747187598931339","title":"Neuro-astrocyte development and synaptic plasticity","description":"The cluster is dominated by neural- and glia-focused GO terms: long-term synaptic potentiation, regulation of neuronal synaptic plasticity, astrocyte differentiation and activation, and substantia nigra development, pointing to brain development and neuron-glia interactions shaping synaptic function. Additional terms like response to methylmercury and complement activation reflect CNS immune/neurotoxic contexts, supporting a cohesive theme around neural development and astrocyte-driven plasticity, despite a few peripheral terms.","confidence":"High","size":25,"edges":17,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060291","count":12},{"id":"GO:0000278","count":12},{"id":"GO:0048708","count":11},{"id":"GO:0008016","count":11},{"id":"GO:0051597","count":11}]},{"hash":"1018040625599434934","title":"Chromatin organization and transcriptional regulation","description":"The top GO terms cluster around chromatin remodeling, heterochromatin formation, histone modification, and transcriptional control (including transcription initiation-coupled remodeling, RNA Pol II repression), with links to dosage compensation and mating-type silencing, suggesting a cohesive epigenetic regulation role.","confidence":"High","size":25,"edges":286,"triangles":2004,"max_degree":24,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0000122","count":21},{"id":"GO:0051290","count":21},{"id":"GO:0000183","count":16},{"id":"GO:0045815","count":16},{"id":"GO:0006335","count":16}]},{"hash":"781223095765689633","title":"Muscle structure and calcium signaling","description":"These proteins show a clear muscle-focused theme: actin crosslinking and skeletal muscle fiber development, along with calcium-modulated signaling pathways and regulation of cardiac muscle contraction via calcium release. The inclusion of glycogen catabolic processes supports muscle energy metabolism, which fits with contraction-related functions. Some terms (visual perception, nephron/kidney development) may reflect broader multi-function proteins or annotation noise, but the dominant pattern is muscle cytoskeleton organization and calcium-dependent contraction signaling.","confidence":"Medium","size":25,"edges":24,"triangles":0,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051764","count":5},{"id":"GO:0048741","count":5},{"id":"GO:0007223","count":5},{"id":"GO:0043123","count":5},{"id":"GO:0010881","count":4}]},{"hash":"104439762940371688","title":"Embryonic tissue differentiation programs","description":"The top GO terms show a broad developmental theme rather than a single tissue function: transcription by RNA polymerase II underpins regulation of many genes, while the other terms cover neural differentiation (GABAergic interneurons, floor plate, subpallium), motor neuron specification, somitogenesis, skeletal muscle differentiation, amacrine cell differentiation, and endocrine pancreas development. This indicates a cluster of proteins involved in coordinating embryonic tissue specification and lineage commitment across multiple tissues via transcriptional control.","confidence":"High","size":25,"edges":299,"triangles":2277,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":22},{"id":"GO:0031018","count":14},{"id":"GO:0035914","count":13},{"id":"GO:0021520","count":12},{"id":"GO:0060426","count":12}]},{"hash":"2102240734260183091","title":"Eye and sensory organ morphogenesis","description":"The top GO terms cluster around camera-type eye development, retina development, and embryonic eye morphogenesis, with additional sensory organ morphogenesis terms like inner ear development, supporting a theme of ocular and sensory organ development. Transcription regulation terms nearby suggest regulatory programs steering this morphogenesis. Confidence reflects a strong link to eye/sensory organ development within the cluster.","confidence":"High","size":25,"edges":123,"triangles":129,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0006366","count":12},{"id":"GO:0060441","count":11},{"id":"GO:0043010","count":11},{"id":"GO:0048048","count":11}]},{"hash":"1479710135692823621","title":"Immune and Developmental Signaling","description":"The top terms point to immune responses (interferon-alpha/beta, biotic stimulus), skeletal development (bone morphogenesis, mineralization), and neuronal/trafficking processes (synaptic vesicle clustering, endosome-to-plasma membrane transport), suggesting a broad theme of signaling and vesicle trafficking across tissues rather than a single function. Therefore, this label captures the multi-system signaling context represented by the cluster.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044381","count":2},{"id":"GO:0035455","count":2},{"id":"GO:0060349","count":2},{"id":"GO:0050884","count":2},{"id":"GO:0009607","count":2}]},{"hash":"2254521818078043273","title":"Developmental transcriptional regulation and morphogenesis","description":"The top GO terms emphasize transcriptional regulation and RNA processing (e.g., regulation of DNA-templated transcription, transcription, splicing) alongside developmental processes such as cartilage morphogenesis, left-right pattern formation, and EMT-related placental/embryonic differentiation, suggesting a cohesive theme of transcriptional control driving embryonic development and tissue morphogenesis.","confidence":"High","size":25,"edges":21,"triangles":3,"max_degree":10,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":4},{"id":"GO:0032298","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0000398","count":3}]},{"hash":"354755261206595529","title":"RNA Pol II transcription termination and RNA processing","description":"Most of the top GO terms cluster around RNA processing and RNA polymerase II transcription control (polyadenylation, CTD dephosphorylation, mRNA cleavage, termination). There are also DNA maintenance terms (DNA repair, replication) and silencing, suggesting a nuclear context tied to transcription with some genome-maintenance associations. The core signal appears to be transcription/processing with ancillary DNA maintenance roles.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006378","count":4},{"id":"GO:0070940","count":4},{"id":"GO:0051533","count":3},{"id":"GO:0010526","count":3},{"id":"GO:0006379","count":3}]},{"hash":"1625467534671804512","title":"Diverse Signaling Regulators in Development and Immunity","description":"The top GO terms cluster around modulation of signaling pathways (Rho, Ras, insulin/PI3K), synaptic function, and developmental/immune processes (heart development, B cell differentiation, adaptive immune response). There is also mention of intracellular transport and lipid metabolism, suggesting these proteins act as general regulators of signaling and development across tissues rather than a single pathway. This justifies a label focused on signaling modulation in development and immunity.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0031914","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0038028","count":3}]},{"hash":"913975654115635934","title":"Neuronal adhesion and synapse development","description":"This cluster is strongly enriched for cell\u2013cell adhesion terms (heterophilic and homophilic adhesion) and for nervous system development and synapse assembly, suggesting a shared role in neuronal cell adhesion and synapse formation. While other terms (angiogenesis, ossification, neutrophil extravasation, symbiont entry) indicate broader developmental or immune contexts, the dominant signals point to adhesion-mediated neural development processes. Confidence: Medium","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":17},{"id":"GO:0046718","count":14},{"id":"GO:0032516","count":13},{"id":"GO:0007156","count":12},{"id":"GO:0051965","count":12}]},{"hash":"650670852634067899","title":"Mechanotransduction and Signaling","description":"Dominant terms are cellular response to mechanical stimulus and muscle stretch, implying mechanotransduction; additional terms for GPCR and NOD1 signaling, ubiquitination, and development contexts suggest a broader signaling/regulatory theme across tissues. The lack of direct interactions within the cluster indicates functional diversity, but the core pattern aligns with mechanotransduction and signaling processes.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":7},{"id":"GO:0007286","count":6},{"id":"GO:0048873","count":6},{"id":"GO:0032729","count":6},{"id":"GO:0010765","count":6}]},{"hash":"673084476922768706","title":"Rho GTPase signaling and actin remodeling","description":"The cluster is dominated by GO terms tied to small GTPase signaling (GO:0043547, GO:0007264, GO:0007266) and to cytoskeletal/adhesion processes (stress fiber and filopodium assembly, cell spreading). This points to a shared theme of cytoskeletal dynamics driven by Rho-family GTPases, influencing cell shape, motility, and related neuronal processes (e.g., LTP and myelination). Thus, the label captures the core function tying these proteins together.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0071222","count":4},{"id":"GO:0051496","count":4},{"id":"GO:0090307","count":3},{"id":"GO:0060291","count":3}]},{"hash":"80598344480817523","title":"Developmental differentiation and angiogenesis","description":"The top GO terms point to diverse lineage differentiation (myoblast, melanocyte, dendritic cell, skeletal development) together with angiogenesis, cell adhesion, and immune cell chemotaxis. This pattern suggests a cluster of proteins involved in developmental signaling guiding multiple cell fates and vascular/immune-related processes, rather than a single pathway.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0001501","count":3},{"id":"GO:0045663","count":3},{"id":"GO:0030318","count":3},{"id":"GO:0007157","count":3}]},{"hash":"468763378543557484","title":"GTPase Signaling Regulators","description":"The top GO terms cluster around regulation of small GTPases (Rho and Ras), including regulation of Rho protein signal transduction and regulation of GTPase activity, suggesting a shared function in modulating GTPase-driven signaling pathways. Other terms hint at broader roles in signaling and development, but the core theme is regulation of GTPase activity. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0043087","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0046580","count":4},{"id":"GO:0038028","count":4}]},{"hash":"1297031109103657248","title":"Cartilage and vascular development with inflammation","description":"This cluster highlights processes linked to cartilage biology (negative regulation of chondrocyte differentiation; collagen biosynthesis) and vascular/angiogenic signaling (Notch processing; BMP/VEGF responses; endothelial tube morphogenesis), plus inflammatory context (leukocyte migration; TNF response). Together these terms point to a cohesive module involving cartilage differentiation along with angiogenesis and inflammatory signaling.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032331","count":9},{"id":"GO:0010042","count":8},{"id":"GO:0002523","count":8},{"id":"GO:0030216","count":8},{"id":"GO:0034612","count":8}]},{"hash":"949902536611552708","title":"Unknown","description":"The GO terms show a heterogeneous mix (coagulation, vision, gastric acid secretion, heart morphogenesis, inflammatory regulation, peptide responses, GPCR signaling) with no single unifying function linking the proteins, and no network edges to reveal a common pathway.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":20},{"id":"GO:0007601","count":20},{"id":"GO:0010513","count":20},{"id":"GO:2000458","count":20},{"id":"GO:0001698","count":20}]},{"hash":"402188865924985508","title":"Chromatin Remodeling and Transcription Regulation","description":"This cluster is dominated by GO terms related to chromatin state and transcription control, including negative regulation of RNA Pol II transcription, chromatin remodeling, and nucleosome disassembly, with additional signals for cell cycle regulation and protein ubiquitination that often accompany chromatin-based control of gene expression.","confidence":"High","size":25,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0043044","count":2},{"id":"GO:0006337","count":2},{"id":"GO:0003139","count":2},{"id":"GO:0071157","count":2}]},{"hash":"1218488888722671705","title":"Neuropeptide signaling and neural behavior","description":"This cluster centers on neural signaling and behavioral functions, highlighted by terms like neuropeptide signaling, GPCR signaling regulation, ERK cascade activation, and learning. It also includes pain perception, locomotory behavior, fear response, and even enteric nervous system development and peristalsis, pointing to a connected role of neuronal signaling in both central and enteric nervous system control.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042493","count":15},{"id":"GO:0007626","count":13},{"id":"GO:0019233","count":13},{"id":"GO:0001662","count":13},{"id":"GO:0007218","count":13}]},{"hash":"2108047175953736030","title":"Innate antiviral and interferon response","description":"The top GO terms cluster around innate immunity, defense against viruses, and cellular response to type I interferon, suggesting these proteins mostly participate in antiviral defense and interferon signaling. A few terms (steroid hormone receptor assembly, prostate development) are less aligned, which may reflect broader regulatory roles or annotation noise.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0051607","count":4},{"id":"GO:0071357","count":4},{"id":"GO:0006463","count":4},{"id":"GO:0046661","count":4}]},{"hash":"73928364183011536","title":"Neural vesicle trafficking and signaling","description":"The terms cluster around vesicle movement and secretion (synaptic vesicle recycling, platelet secretion) together with neural development (spinal cord) and growth factor signaling (IGF/insulin, PI3K\u2013AKT). This points to a broader theme of vesicle dynamics linked with signaling pathways across neural and secretory contexts, rather than a single precise function. The mix spans neural, endocrine, and immune-related processes but centers on vesicle transport and signaling.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0021510","count":3},{"id":"GO:0007018","count":3},{"id":"GO:0070560","count":2},{"id":"GO:2001275","count":2},{"id":"GO:0045792","count":2}]},{"hash":"403847607706138161","title":"GPCR-Mediated Signaling","description":"This cluster is best described by GPCR-related functions: several terms point to GPCR signaling and its regulation (e.g., positive regulation of GPCR signaling, EGFR transactivation by GPCR signaling, visual perception linked to GPCR activity, and astrocyte chemotaxis modulation), suggesting the proteins collectively participate in GPCR-driven communication and downstream pathways. Some terms like blood coagulation and cardiac morphogenesis appear, but these can reflect broader or pleiotropic roles of proteins within GPCR-associated networks or annotation noise.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":25},{"id":"GO:0007596","count":24},{"id":"GO:0007601","count":24},{"id":"GO:0010513","count":24},{"id":"GO:2000458","count":24}]},{"hash":"2129784949354083742","title":"Immune and Neural Signaling with Junctions","description":"This cluster shows GO terms spanning immune signaling (insulin receptor pathway, B cell receptor signaling, adaptive immune response, phagocytosis) and neural/plasticity terms (long-term potentiation, excitatory postsynaptic potential, vocalization behavior), plus cell\u2013cell junction processes (adherens junction localization, tight junction assembly). The combination suggests a broad theme of intercellular signaling and communication across immune and nervous systems, with junctional coordination.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0008286","count":7},{"id":"GO:0071625","count":5},{"id":"GO:0050731","count":5},{"id":"GO:0050853","count":5},{"id":"GO:0060291","count":5}]},{"hash":"1340423949773872555","title":"Actin Cytoskeleton & Organelle Inheritance","description":"The cluster is dominated by actin-related processes (actin filament polymerization, actin cortical patch assembly/localization) and cell shape/polarity regulation, with additional associations to organelle inheritance (mitochondrion and vacuole). Together, these terms point to a cohesive theme of actin-driven cytoskeletal dynamics coordinating organelle inheritance and endocytic activities, making the label with high relevance.","confidence":"High","size":24,"edges":146,"triangles":538,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0032508","count":11},{"id":"GO:0000147","count":8},{"id":"GO:0000011","count":8},{"id":"GO:0000001","count":8},{"id":"GO:0071963","count":8}]},{"hash":"2092505277860489538","title":"Cerebellar neuron development and axonogenesis","description":"The cluster is enriched for cerebellar development signals (Bergmann glial differentiation, cerebellar cortex formation) and neuronal differentiation/axonal growth (CNS projection neuron axonogenesis, regulation of axon regeneration). Cell-cycle regulation and insulin signaling terms may reflect growth control during CNS development, but the dominant pattern centers on cerebellar neuron development and axonogenesis.","confidence":"High","size":24,"edges":67,"triangles":55,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045736","count":24},{"id":"GO:0034501","count":24},{"id":"GO:0060020","count":22},{"id":"GO:0021697","count":22},{"id":"GO:2001275","count":22}]},{"hash":"1717817497338724735","title":"Ubiquitin-regulated signaling and degradation","description":"The terms point to ubiquitin-dependent proteolysis and deubiquitination (including K48-linked deubiquitination), alongside signaling pathways (Rho signaling, neurotrophin signaling) and developmental processes (heart development). This suggests the cluster centers on ubiquitin-mediated control of signaling and protein turnover, potentially tying stress/necrotic signaling to developmental signaling. While not a single, tight function, the shared theme is ubiquitin-regulated proteostasis and signaling.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:1901026","count":4},{"id":"GO:1903070","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0048011","count":4}]},{"hash":"234092842767668234","title":"Cell Cycle and Nuclear Transport Cluster","description":"The GO terms repeatedly point to cell proliferation processes (cell division, DNA replication) alongside nucleocytoplasmic transport and vesicle trafficking (mRNA export, NLS-mediated nuclear import, ER\u2013Golgi transport), plus RNA granule dynamics and GTPase-regulated movement. These together suggest a cohesive group of proteins involved in coordinating cell cycle progression with intracellular transport and RNA handling, with development-related terms likely reflecting broader roles in proliferative contexts. Confidence: Medium","confidence":"","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0035617","count":6},{"id":"GO:0006888","count":6},{"id":"GO:0048364","count":5},{"id":"GO:0006260","count":5}]},{"hash":"1285484204356041318","title":"Ubiquitin-Proteasome-Mediated Degradation & Circadian Regulation","description":"The top GO terms are dominated by ubiquitin-dependent protein catabolic processes, protein polyubiquitination, and SCF-dependent proteasomal degradation, indicating a cluster centered on ubiquitin-mediated protein turnover. A strong signal for regulation of circadian rhythm accompanies this, suggesting a link between proteostasis and circadian control. Additional terms point to broader roles in microtubule dynamics and cell-cycle related processes, but the clearest common theme is ubiquitin-proteasome\u2013driven degradation coupled with circadian regulation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":19},{"id":"GO:0042752","count":13},{"id":"GO:0000209","count":10},{"id":"GO:1903378","count":9},{"id":"GO:0007057","count":8}]},{"hash":"472443971636464471","title":"Neural development and ciliogenesis","description":"The cluster shows strong enrichment for neural and ectodermal development terms (Purkinje cell differentiation, spinal cord motor neuron fate, ectoderm formation) along with a prominent signal for cilium assembly, suggesting proteins involved in neural differentiation linked to ciliogenesis; additional terms like cAMP response and pole plasm localization imply broader developmental signaling context.","confidence":"Medium","size":24,"edges":24,"triangles":3,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0070560","count":22},{"id":"GO:0035847","count":22},{"id":"GO:0021702","count":22},{"id":"GO:0045856","count":22},{"id":"GO:0021524","count":22}]},{"hash":"1004054428675245990","title":"RNA splicing and translation regulation","description":"These proteins cluster around post-transcriptional control: spliceosome-mediated splicing, regulation of alternative splicing, translation initiation and reinitiation, and small RNA\u2013mediated silencing. The combination of splicing regulation with translation control and miRNA/ncRNA\u2013mediated silencing points to a cohesive module governing mRNA fate after transcription.","confidence":"High","size":24,"edges":271,"triangles":1916,"max_degree":23,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":14},{"id":"GO:0048026","count":14},{"id":"GO:0002188","count":13},{"id":"GO:0001731","count":13},{"id":"GO:0045292","count":11}]},{"hash":"633890752338779025","title":"Embryonic development and organ morphogenesis","description":"Most terms point to embryonic development, tissue differentiation, and morphogenesis across various organs (placenta, pancreas, cartilage, heart cushion EMT, endocrine system) with Wnt signaling implicated; the common thread is developmental patterning rather than a single tissue, justifying a label centered on Embryonic Development and Organ Morphogenesis.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060806","count":9},{"id":"GO:0003323","count":9},{"id":"GO:0060536","count":9},{"id":"GO:0003198","count":9},{"id":"GO:0060707","count":9}]},{"hash":"414978263245080323","title":"Rho/Rac GTPase signaling and cytoskeletal migration","description":"The cluster is dominated by GO terms related to filopodium assembly, adhesion-dependent spreading, and small GTPase\u2013mediated signaling (Rho and Rac), all pointing to cytoskeletal remodeling and cell movement. While there are immune-related terms (IL-4 production, NK T cell differentiation, B cell maturation), the strongest signal centers on Rho/Rac-regulated cytoskeletal dynamics and migration, with immune terms possibly reflecting broader signaling contexts in immune cells.","confidence":"High","size":24,"edges":32,"triangles":4,"max_degree":9,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0046847","count":19},{"id":"GO:1900026","count":19},{"id":"GO:0007264","count":18},{"id":"GO:0016477","count":18},{"id":"GO:0035023","count":18}]},{"hash":"1404362690957923026","title":"Developmental and Immune Signaling","description":"The top GO terms point to a variety of signaling pathways (NF-kappaB, PI3K, ERK/MAPK, STAT phosphorylation, Rho, PLC) across developmental contexts (heart and nervous system development, Roundabout signaling) and immune signaling (B cell receptor pathway). This mixture suggests a broad signaling cluster tied to development and immune-related signaling rather than a single, cohesive pathway, so a label emphasizing developmental and immune signaling fits best.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051092","count":11},{"id":"GO:0043552","count":10},{"id":"GO:0007507","count":9},{"id":"GO:0035385","count":9},{"id":"GO:0035023","count":9}]},{"hash":"1250844053233040821","title":"Cell signaling and trafficking proteins","description":"This cluster is driven by signaling and GTPase regulation terms, along with intracellular transport and cell polarity processes; the presence of neural (long-term synaptic potentiation, visual perception) and immune-response terms (defense response to virus, response to lipopolysaccharide) suggests a broad role for these proteins in signaling and vesicle trafficking across contexts.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0007205","count":4},{"id":"GO:0006886","count":4},{"id":"GO:0051607","count":4},{"id":"GO:0071222","count":4}]},{"hash":"1015596291220969769","title":"Mammalian placental development and maternal regulation","description":"This cluster centers on maternal and placental development (parturition, placenta development) and broader multicellular development, with supporting signals of transcriptional control, protein turnover, and apoptosis (MOMP). While it also touches on skin development and immune-related processes, the strongest recurring theme is mammalian placental/maternal development and its regulatory mechanisms. Confidence: Medium.","confidence":"","size":24,"edges":76,"triangles":113,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060137","count":4},{"id":"GO:0043588","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0007275","count":3}]},{"hash":"1806772582442272884","title":"Inflammation-Linked Developmental Signaling","description":"This cluster is characterized by prominent innate immune and inflammatory terms (innate immune response, defense response to virus, positive regulation of IL-1\u03b2 production) alongside multiple developmental processes (cornea development, bone development, myoblast development, synapse assembly) and cell cycle regulation. The co-occurrence suggests proteins that participate in inflammatory signaling intertwined with tissue development/remodeling, rather than a single, tightly focused function. Confidence: Medium","confidence":"","size":24,"edges":29,"triangles":0,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050718","count":4},{"id":"GO:0061303","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0045842","count":4},{"id":"GO:0051607","count":4}]},{"hash":"1026213460553763475","title":"Axon guidance and heart morphogenesis","description":"This cluster is driven by neural development terms (retina layer formation, axon extension/guidance, paranodal junction, juxtaparanode localization) alongside cardiovascular morphogenesis terms (coronary artery morphogenesis, heart development) and related endothelial/smooth muscle migration. The enrichment suggests proteins involved in coordinated tissue patterning during development, notably in nervous system wiring and heart/vasculature formation, justifying the label \u201cAxon guidance and heart morphogenesis.\u201d","confidence":"High","size":24,"edges":68,"triangles":60,"max_degree":18,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0010842","count":12},{"id":"GO:1900242","count":12},{"id":"GO:0048846","count":10},{"id":"GO:0048842","count":10},{"id":"GO:0060982","count":10}]},{"hash":"1730709515757090682","title":"Post-transcriptional RNA processing and silencing","description":"The top GO terms cluster around spliceosome-mediated regulation of mRNA splicing (positive/negative regulation), mRNA stability, regulatory ncRNA and miRNA\u2013mediated silencing, and translation initiation/reinitiation. This points to a cohesive theme of post-transcriptional RNA processing and translational control rather than transcriptional regulation, making this label representative of the cluster.","confidence":"High","size":24,"edges":230,"triangles":1224,"max_degree":23,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":18},{"id":"GO:0000381","count":17},{"id":"GO:0031047","count":16},{"id":"GO:0048026","count":16},{"id":"GO:0035278","count":15}]},{"hash":"69067185353743541","title":"Skin, lens, and neural tissue development","description":"This cluster centers on developmental processes across skin, eye (lens), and neural lineages, as seen in terms like establishment of skin barrier, keratinocyte migration, lens fiber cell development, astrocyte development, and peripheral nervous system axonogenesis. While some terms touch on general transporter/exocytosis and cytokine regulation, the strongest signal is coordinated development of barrier-forming epidermal cells, neural/glial lineages, and ocular tissues.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045806","count":3},{"id":"GO:0045956","count":2},{"id":"GO:0015031","count":2},{"id":"GO:0050715","count":2},{"id":"GO:0061436","count":2}]},{"hash":"41993512014146735","title":"RNA Pol II transcriptional regulators in development","description":"This cluster is dominated by GO terms for both positive and negative regulation of RNA polymerase II transcription, pointing to transcriptional regulatory roles. The accompanying development- and morphogenesis-related terms suggest these regulators participate in broader developmental programs across multiple tissues.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:1903142","count":8},{"id":"GO:0030901","count":8},{"id":"GO:0045944","count":8},{"id":"GO:0035264","count":8}]},{"hash":"1300135304032273720","title":"Developmental Regulation and Hematopoietic Differentiation","description":"These proteins are enriched for developmental processes across multiple tissues (primitive streak formation, PNS neuron and pituitary gland development) and for differentiation of major blood lineages (erythrocytes, granulocytes, megakaryocytes), along with regulators of gene expression (RNA pol II transcription repression, miRNA transcription, DNA methylation). This points to a theme of developmental regulation coordinating lineage specification, including hematopoiesis.","confidence":"Medium","size":24,"edges":5,"triangles":0,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0090009","count":8},{"id":"GO:0048935","count":8},{"id":"GO:0045648","count":7},{"id":"GO:0030851","count":7}]},{"hash":"1872941473995933289","title":"Brain sensory perception and drug response","description":"The cluster is heavily enriched for neural sensory terms (visual perception, visual learning, sensory perception of pain) and behavioral drug responses (response to morphine, behavioral response to cocaine), with supporting brain-system and signaling processes (brain renin-angiotensin system, regulation of membrane potential, protein phosphorylation). Together, this points to a brain-centric group of proteins involved in sensory processing and addiction-related behavioral responses.","confidence":"Medium","size":24,"edges":173,"triangles":570,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":22},{"id":"GO:0010759","count":22},{"id":"GO:0043278","count":22},{"id":"GO:0002035","count":22},{"id":"GO:0042391","count":22}]},{"hash":"879138869749885009","title":"Dopaminergic signaling and drug response","description":"The cluster is dominated by GO terms tied to neural signaling and reward-related behavior, including dopaminergic synaptic transmission, visual perception/learning, and behavioral responses to cocaine and morphine. ERK signaling and its positive regulation also appear, consistent with plasticity in dopaminergic pathways. While a few terms like brain renin-angiotensin system and heart development are present, the strongest recurring theme is brain/neural signaling and drug-induced behavioral responses, supporting this label.","confidence":"High","size":24,"edges":261,"triangles":1721,"max_degree":23,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":22},{"id":"GO:0010759","count":22},{"id":"GO:0043278","count":22},{"id":"GO:0002035","count":22},{"id":"GO:0019233","count":22}]},{"hash":"669715131378387185","title":"Negative Regulation of Signaling Pathways","description":"The Top Terms show multiple instances of negative regulation across several key signaling cascades (Ras, ERK, VEGF receptor, Notch) and related activity (phosphatase inhibition), pointing to a theme of dampening signaling rather than a single pathway. Additional terms related to cell cycle and development (centrosome cycle, photoreceptor development, synaptic potentiation) fit within broader regulatory roles of signaling, suggesting these proteins act as broad inhibitors of signaling networks rather than a single function.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046580","count":4},{"id":"GO:0010923","count":3},{"id":"GO:0034383","count":2},{"id":"GO:0030948","count":2},{"id":"GO:0045746","count":2}]},{"hash":"1692298134045848959","title":"Osteoblast differentiation and bone remodeling","description":"The top GO terms point to osteoblast differentiation, bone resorption, and regulation of cell\u2013matrix adhesion and integrin-mediated adhesion, along with angiogenesis and signaling pathways (JNK, PI3K) that support bone formation and remodeling. This combination suggests a cluster focused on bone biology, especially osteogenesis and the coordinated remodeling processes involving osteoblasts and the ECM.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":3},{"id":"GO:0045956","count":3},{"id":"GO:0001954","count":2},{"id":"GO:0051893","count":2},{"id":"GO:2000811","count":2}]},{"hash":"1108831375185251943","title":"Immune cell adhesion and activation","description":"The top GO terms cluster around immune system activity: cell-cell adhesion (heterophilic/homophilic), T and B cell activation and costimulation, innate immune response, complement activation, and phagocytosis (recognition and engulfment). Together they point to proteins involved in immune cell interactions and signaling across innate and adaptive immunity, with some host-pathogen interaction context (symbiont entry). This supports a label focused on immune cell adhesion and activation as representative of the cluster.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":13},{"id":"GO:0006958","count":11},{"id":"GO:0046718","count":11},{"id":"GO:0031295","count":10},{"id":"GO:0007156","count":10}]},{"hash":"586949297404611940","title":"Cardiac immune activation and inflammation","description":"The cluster shows a clear immune/inflammatory signature: complement activation, immunoglobulin production, phagocytosis, and monocyte extravasation, indicating immune engagement. It also contains cardiac electrophysiology terms (atrial action potential, conduction, depolarization) and adhesion, suggesting immune-related modulation of heart tissue function. Together these points align with immune processes integrated in cardiac contexts, justifying a label highlighting both aspects.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":9},{"id":"GO:0086014","count":8},{"id":"GO:0086091","count":8},{"id":"GO:0007157","count":8},{"id":"GO:0002377","count":8}]},{"hash":"2258695617012994109","title":"Neuronal signaling and synaptic plasticity","description":"This cluster is dominated by neural function terms: retrograde axonal transport, calcium ion transport, excitatory postsynaptic potentials, and long-term potentiation/depression, plus long-term memory, indicating a focus on neuronal signaling and synaptic plasticity. A few outliers (mitotic cell cycle, establishment of skin barrier) may reflect multifunctional proteins or annotation noise, but the core theme remains neuronal communication and plasticity.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008090","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0035176","count":3},{"id":"GO:0006816","count":3},{"id":"GO:0001975","count":3}]},{"hash":"2213985981020086911","title":"Embryonic Morphogenesis and Organ Development","description":"The top GO terms cluster around developmental processes and morphogenesis across embryonic tissues (roof of mouth development, cartilage morphogenesis, left-right pattern formation, hair follicle morphogenesis, endocardial cushion EMT, endocrine system and pancreatic cell development). This indicates a cohesive theme of tissue formation and organogenesis during embryogenesis, with some regulatory transcriptional control terms as ancillary features. Confidence: High","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":9},{"id":"GO:0060536","count":8},{"id":"GO:0000122","count":8},{"id":"GO:0060806","count":8},{"id":"GO:0003198","count":8}]},{"hash":"1615558207720820563","title":"Regulation of Kinase and GTPase Signaling","description":"The most represented terms are dephosphorylation, negative regulation of protein kinase activity, and positive regulation of GTPase activity, pointing to modulation of signaling cascades by phosphorylation states and GTPase activity. Other terms (antibacterial humoral response, muscle and root growth) are less cohesive with this core theme, so the label centers on general signal transduction regulation rather than a single pathway.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016311","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0016049","count":3},{"id":"GO:0010745","count":3}]},{"hash":"2134919972274409253","title":"Redox Regulation and Diverse Biosynthesis","description":"This cluster centers on redox-related GO terms (oxidation-reduction, cellular oxidant detoxification, redox homeostasis) and a mix of biosynthetic processes (long-chain fatty acids, melanin, tetrahydrobiopterin, tropane alkaloids, acetoin catabolism), suggesting a theme of metabolic regulation under oxidative stress across primary and secondary pathways. The presence of sporulation and antibiotic response hints at stress-adaptive metabolism, reinforcing a redox-centric but diverse biosynthetic theme.","confidence":"Medium","size":23,"edges":16,"triangles":14,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0098869","count":4},{"id":"GO:0045454","count":4},{"id":"GO:0045150","count":4},{"id":"GO:0009710","count":4}]},{"hash":"918715807375152769","title":"Detoxification, oxidative stress, and DNA repair","description":"The top GO terms point to cellular defenses against toxins and oxidative stress (response to toxic substance, response to starvation as a stress cue, toxin catabolic process, cellular oxidant detoxification, glutathione metabolism) and DNA repair (nucleotide-excision repair). Additional terms reflect metabolic adjustment and growth regulation, with a hint of calcium-signaling involvement related to stress responses. Together, these suggest a cohesive theme of stress response and maintenance of cellular integrity, hence the label.","confidence":"High","size":23,"edges":251,"triangles":1730,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":22},{"id":"GO:0042594","count":22},{"id":"GO:0014810","count":22},{"id":"GO:0006289","count":22},{"id":"GO:0006749","count":22}]},{"hash":"401434096240239099","title":"Amino acid and cofactor biosynthesis","description":"The top GO terms cluster around biosynthetic processes for amino acids and cofactors (biotin, histidine, protoporphyrinogen IX, and lysine biosynthesis) and related metabolic activities (oxaloacetate metabolism, fatty acid transport, L-alanine catabolism). While DNA-templated transcription appears in the terms, the strongest signal is toward biosynthesis/metabolism, suggesting a group of proteins involved in building amino acids and cofactors rather than a single regulatory or signaling function.","confidence":"Medium","size":23,"edges":27,"triangles":36,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0055114","count":7},{"id":"GO:0042853","count":7},{"id":"GO:0009102","count":6},{"id":"GO:0000105","count":6}]},{"hash":"206199147012439057","title":"Transcription Regulation and Chromatin Modification","description":"The top GO terms cluster around regulation of DNA-templated transcription and transcription control, with supporting links to chromatin dynamics via ubiquitin-related deubiquitination and histone modification (K11-linked deubiquitination, ubiquitin recycling, histone H2B deubiquitination). Spliceosomal complex assembly hints at RNA processing involvement, while signaling terms like Rho/Intracellular signal transduction add broader context. Overall, the proteins appear connected to transcriptional regulation and chromatin/RNA processing rather than a single signaling pathway.","confidence":"Medium","size":23,"edges":22,"triangles":3,"max_degree":6,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0006355","count":5},{"id":"GO:0035556","count":4},{"id":"GO:0035871","count":4}]},{"hash":"993344808161248447","title":"Cardiac and neural development and signaling","description":"This cluster centers on heart development and cardiac hypertrophy, but also includes neural signaling terms (synaptic potentiation, excitatory postsynaptic potentials) and broad developmental regulation, implying proteins involved in developmental signaling spanning cardiac and nervous system processes.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0007601","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0045944","count":5},{"id":"GO:0006469","count":5}]},{"hash":"629531946505194154","title":"Ubiquitin-Dependent Stress Signaling & Apoptosis","description":"The cluster shows enrichment for ubiquitin-dependent protein catabolic process, autoubiquitination, and regulation of signaling pathways such as the JNK cascade, I-kappaB phosphorylation (NF-kB), and TNF signaling, all tying to apoptosis regulation. While histone-related processes and X-chromosome dosage compensation appear, they are less central to the main theme of ubiquitin-mediated proteolysis and stress signaling. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":17},{"id":"GO:0046328","count":12},{"id":"GO:1903762","count":12},{"id":"GO:0042981","count":12},{"id":"GO:1903721","count":12}]},{"hash":"770868438296061905","title":"Post-transcriptional RNA regulation","description":"The cluster is driven by GO terms for RNA silencing (miRNA and regulatory ncRNA), splicing regulation by the spliceosome, mRNA stabilization, and translation initiation/reinitiation, all pointing to control of gene expression at the RNA level after transcription.","confidence":"High","size":23,"edges":52,"triangles":50,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0035278","count":9},{"id":"GO:0031047","count":9},{"id":"GO:0075522","count":9},{"id":"GO:0048025","count":9},{"id":"GO:0000381","count":9}]},{"hash":"2100335686163732909","title":"Mitotic Cell Cycle and Membrane Remodeling","description":"The top terms show a clear focus on mitosis and cell cycle control (exit from mitosis, chromosome condensation, spindle regulation) alongside membrane remodeling/trafficking processes (membrane fission, MVB sorting, ER membrane targeting). This suggests proteins coordinated between cell division and vesicle/membrane dynamics, with one developmental term indicating context but not changing the core theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":8},{"id":"GO:0090148","count":7},{"id":"GO:0006620","count":7},{"id":"GO:0010458","count":7},{"id":"GO:0071985","count":7}]},{"hash":"1693151265974780488","title":"Embryonic organogenesis and tissue differentiation","description":"These proteins show enrichment across a broad set of developmental GO terms, including ectoderm formation, various neuronal differentiations (spinal cord motor neurons, Purkinje cells, visceral motor neurons), uterine epithelium development, kidney morphogenesis, and pancreatic D cell development, plus actin filament bundle assembly. The unifying theme is embryonic development and tissue morphogenesis, suggesting a role in developmental patterning across multiple tissues rather than a single specialized function.","confidence":"High","size":23,"edges":35,"triangles":16,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0035847","count":22},{"id":"GO:0021702","count":22},{"id":"GO:0045856","count":22},{"id":"GO:0021524","count":22},{"id":"GO:0001705","count":22}]},{"hash":"1928176684535355088","title":"Neurodevelopmental cell-adhesion proteins","description":"This cluster emphasizes nervous system development, synapse assembly, and cell-cell adhesion (homophilic/heterophilic), with multiple terms for multicellular development. While there are some immune and ossification terms present, the strongest signals point to adhesion and neural connectivity during development, suggesting proteins involved in neural network formation.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":9},{"id":"GO:0051092","count":8},{"id":"GO:0007156","count":8},{"id":"GO:0007399","count":8},{"id":"GO:0043931","count":8}]},{"hash":"237359282951488434","title":"Cerebellar development and axon regeneration","description":"This cluster is dominated by neural development terms focused on the cerebellum, including cerebellar cortex formation and Bergmann glial differentiation, plus regulation of axon regeneration. While there are some cell-cycle and signaling annotations present, the cerebellar development/neuronal regeneration theme best captures the main signal across the set.","confidence":"Medium","size":23,"edges":244,"triangles":1599,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045736","count":21},{"id":"GO:0034501","count":21},{"id":"GO:2001275","count":17},{"id":"GO:0060020","count":17},{"id":"GO:0050852","count":17}]},{"hash":"2110775175184553023","title":"Neural and Ectodermal Morphogenesis","description":"These proteins cluster around developmental and signaling pathways shaping neural and ectodermal tissues, including nervous system development, hair follicle morphogenesis, salivary gland formation, and regulation of Wnt and ERK signaling. The recurring terms point to coordinated morphogenesis of neural and ectodermal organs, supporting this label as representative.","confidence":"High","size":23,"edges":185,"triangles":790,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021762","count":22},{"id":"GO:0071338","count":22},{"id":"GO:0031532","count":22},{"id":"GO:0060501","count":22},{"id":"GO:0090263","count":22}]},{"hash":"539962108886745523","title":"Synaptic regulation and receptor trafficking","description":"The cluster is enriched for terms tied to neuronal signaling and membrane dynamics, notably glutamatergic synaptic transmission, regulation of Rho signaling (affecting cytoskeleton and synapse structure), receptor recycling, and endosome size regulation, as well as regulation of protein localization to the cell surface. These together point to a coherent theme of synaptic function and receptor/membrane trafficking, even though a few terms are older or less directly related. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0035249","count":3},{"id":"GO:0051036","count":3},{"id":"GO:0034968","count":3},{"id":"GO:0006355","count":3}]},{"hash":"700799303987865447","title":"Hexosamine biosynthesis and histone modification","description":"This cluster combines strong signals for the hexosamine pathway (UDP-N-acetylglucosamine biosynthesis, glucosamine/amino sugar catabolism, pentose phosphate shunt) with chromatin-related processes (peptidyl-lysine dimethylation/trimethylation and rDNA heterochromatin formation), suggesting a link between sugar metabolism and histone modification/chromatin regulation. ","confidence":"Medium","size":23,"edges":22,"triangles":2,"max_degree":8,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0006098","count":4},{"id":"GO:0005975","count":4},{"id":"GO:0000183","count":3},{"id":"GO:0006048","count":3},{"id":"GO:0009051","count":3}]},{"hash":"1876356614777434436","title":"GABAergic and glycinergic synaptic signaling","description":"The top GO terms show strong enrichment for gamma-aminobutyric acid signaling and glycinergic synaptic transmission, along with related neural activity features such as excitatory postsynaptic potentials and ion transport. The presence of locomotory behavior and conditioned taste aversion links these terms to neural circuits governing movement and learned behaviors. While acrosome reaction and cochlea development are more specialized, they can reflect broader roles of neurons and sensory processing; overall the cluster centers on inhibitory and mixed synaptic signaling in nervous system function.","confidence":"High","size":23,"edges":24,"triangles":31,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007214","count":15},{"id":"GO:0001661","count":15},{"id":"GO:0035725","count":15},{"id":"GO:0007626","count":15},{"id":"GO:0060079","count":15}]},{"hash":"1018878898529290931","title":"Golgi\u2013ER Vesicle Trafficking","description":"This cluster is dominated by GO terms for Golgi vesicle budding, retrograde transport from Golgi to ER, and endocytosis, pointing to vesicle trafficking between Golgi and endomembrane compartments. Additional terms on polarity and signaling align with coordination of cellular organization, making Golgi\u2013ER trafficking the most representative shared function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":3},{"id":"GO:0007286","count":2},{"id":"GO:0035088","count":2},{"id":"GO:0046330","count":2},{"id":"GO:0033138","count":2}]},{"hash":"1372483311316035637","title":"Embryonic Organ Morphogenesis","description":"This cluster centers on developmental morphogenesis across multiple organs during embryogenesis (eye, lung, pancreas, digestive tract, tooth) and brain structures (habenula, hypothalamus), with regulatory transcription activity supporting developmental programs. The shared theme is embryonic organ formation and tissue patterning reflected by the GO terms.","confidence":"High","size":23,"edges":67,"triangles":25,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0060441","count":8},{"id":"GO:0043010","count":8},{"id":"GO:0048048","count":8},{"id":"GO:0006366","count":8}]},{"hash":"97512896400095457","title":"Embryonic Organogenesis","description":"This cluster includes GO terms for developmental processes across multiple organs and tissues during embryogenesis (eye, midbrain, kidney, cartilage, heart, placenta), indicating a broad organogenesis/morphogenesis theme rather than a single molecular function.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0043010","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0003323","count":5},{"id":"GO:0030901","count":5},{"id":"GO:0060806","count":4}]},{"hash":"878196694329381816","title":"Chromatin silencing and histone methylation","description":"The cluster\u2019s top GO terms cluster around chromatin state regulation: histone methylation marks (H3K9, H3K27, H3K4, H4K20), and heterochromatin formation/chromatin silencing, with a transposition-related term that can reflect transposon silencing by chromatin modifiers. Although a Notch-regulation term appears, the dominant theme is epigenetic control of chromatin structure and gene expression. This makes a label centered on chromatin silencing and histone modification most representative.","confidence":"High","size":23,"edges":46,"triangles":11,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006313","count":3},{"id":"GO:0001935","count":3},{"id":"GO:0031937","count":1},{"id":"GO:0036124","count":1},{"id":"GO:0098532","count":1}]},{"hash":"1203391638502978467","title":"Neuronal signaling and sensory perception","description":"The cluster is dominated by GO terms related to neural communication and sensory processing, including sensory perception of pain and visual perception, dopaminergic synaptic transmission, cocaine response, and ERK signaling. While there are some development-related terms (heart development, prostaglandin response), the prevailing pattern points to neuronal signaling and sensory pathways.","confidence":"Medium","size":23,"edges":26,"triangles":0,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":14},{"id":"GO:0007507","count":14},{"id":"GO:0071380","count":14},{"id":"GO:0007601","count":13},{"id":"GO:0008542","count":13}]},{"hash":"1145061865051387665","title":"Signaling and endocytosis regulation with immune cues","description":"The top terms cluster around regulated signaling and trafficking processes, including positive regulation of pinocytosis (endocytosis), regulation of GTPase activity, calcium signaling, and chemokine production, with notable immune and vascular contexts (NOD2 signaling, angiogenesis). While diverse, these terms collectively point to coordinated signal transduction, vesicle trafficking, and immune-related communication. This supports a label focused on signaling and endocytosis regulation with immune associations.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048549","count":12},{"id":"GO:0043547","count":11},{"id":"GO:0098907","count":10},{"id":"GO:0007205","count":10},{"id":"GO:2001275","count":9}]},{"hash":"1489349115958559703","title":"Meiotic Chromosome Cohesion and Segregation","description":"The top GO terms center on meiotic sister chromatid cohesion (centromeric), sister chromatid biorientation, and establishment of protein localization to chromosomes, plus spindle orientation checkpoint signaling, all of which point to chromosome organization and proper segregation during meiosis. A related term (P granule assembly) aligns with germline RNA-protein granules, but the dominant theme remains meiotic chromosome dynamics. Despite zero edges, the functional signals support this cohesive label.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051754","count":6},{"id":"GO:0043547","count":4},{"id":"GO:0031134","count":4},{"id":"GO:0070199","count":4},{"id":"GO:1903863","count":4}]},{"hash":"2261603400010162334","title":"Neural GPCR signaling and pain perception","description":"The top GO terms cluster around brain-centered signaling and sensory processing, notably GPCR-mediated pathways (adenylate cyclase activation, membrane potential regulation) and pain/morphine response, with additional hints of visual perception and autonomic regulation (blood pressure, brain RAS). This points to neural GPCR signaling involved in perception and modulation of pain, metabolism, and autonomic function.","confidence":"High","size":23,"edges":86,"triangles":56,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":21},{"id":"GO:0007601","count":20},{"id":"GO:0045777","count":20},{"id":"GO:0010759","count":20},{"id":"GO:0007190","count":20}]},{"hash":"523594253734243315","title":"GPCR-cAMP Signaling in Vascular and Neural Tissues","description":"The cluster is dominated by GO terms linked to GPCR-mediated signaling and cAMP production (activation of adenylate cyclase, adenylate cyclase-activating GPCR signaling), alongside PI signaling, Rho pathway regulation, and vascular/nerve functions (blood pressure, coagulation, visual perception, astrocyte chemotaxis). This suggests a cohesive theme around GPCR-driven signal transduction affecting vascular and neural processes, with supporting energy metabolism signals (electron transport). ","confidence":"Medium","size":23,"edges":36,"triangles":3,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":19},{"id":"GO:0022900","count":19},{"id":"GO:0010579","count":19},{"id":"GO:0042493","count":18},{"id":"GO:0007190","count":18}]},{"hash":"122319455936064661","title":"Immune Activation and Vesicle Secretion","description":"This cluster centers on cytokine production (IL-2, IL-4, TNF), regulatory T cell differentiation, and secretory/phagocytic processes, with exocytosis and actin remodeling supporting vesicle trafficking and engulfment in immune cells. Some terms like cilium assembly or atrial depolarization may reflect broader cytoskeletal or signaling roles rather than core immune function, but the dominant theme is immune activation, cytokine production, and vesicle-mediated secretion.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900042","count":2},{"id":"GO:0045404","count":2},{"id":"GO:0045590","count":2},{"id":"GO:0006887","count":2},{"id":"GO:2000009","count":2}]},{"hash":"47330615922502989","title":"GTPase-regulated intracellular trafficking and membrane remodeling","description":"The top GO terms cluster around regulation of GTPase activity, intracellular transport, and various membrane-related processes (plasma membrane tubulation, membrane formation) with associated phosphatidylinositol signaling and centrosome localization. This points to a shared theme of coordinating signaling with cytoskeletal/vesicular trafficking and membrane remodeling, rather than a single tissue-specific function. Some development terms (heart, thymus, bone) appear broader and less cohesive with the trafficking theme.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0048538","count":2},{"id":"GO:0051642","count":2}]},{"hash":"443962007853302348","title":"Golgi trafficking and endocytic recycling","description":"The top GO terms cluster around endocytic recycling, Golgi organization, and protein retention in the Golgi, with related processes like pinocytosis and Rho/cytoskeletal regulation, suggesting a common role in Golgi-associated trafficking and recycling pathways.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042517","count":2},{"id":"GO:0032456","count":2},{"id":"GO:1903358","count":2},{"id":"GO:0030035","count":2},{"id":"GO:0045053","count":2}]},{"hash":"336964908490650239","title":"Meiotic Chromosome Cohesion and Spindle Dynamics","description":"The top GO terms cluster around meiotic chromosome behavior and spindle control\u2014sister chromatid cohesion and separation, meiotic spindle elongation, and female meiotic division\u2014supported by cell-cycle regulation and related post-translational modification processes, with basal body docking linking to spindle organization.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0070262","count":7},{"id":"GO:0051754","count":7},{"id":"GO:1903538","count":7},{"id":"GO:0051232","count":7},{"id":"GO:2001241","count":7}]},{"hash":"2025175030767198219","title":"Neural cell adhesion and synapse assembly","description":"The cluster is dominated by GO terms for cellular adhesion (heterophilic and homophilic) and synapse formation (including neuroligin clustering and postsynaptic membrane organization) and nervous system development, indicating proteins involved in neural cell adhesion and synaptogenesis. Other terms (bone maturation, lung morphogenesis) are less representative of the core function.","confidence":"High","size":23,"edges":2,"triangles":0,"max_degree":2,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007157","count":22},{"id":"GO:0007399","count":22},{"id":"GO:0007156","count":22},{"id":"GO:0051965","count":21},{"id":"GO:0043931","count":21}]},{"hash":"1513589172078013017","title":"Membrane Transporters for Sugars and Ions","description":"The top GO terms are dominated by transmembrane transport across various substrates (sodium, nitrate/nitrite, galactose, fucose, vitamins, and other metabolites), plus related sugar metabolism links. This suggests the cluster is enriched for transporter proteins involved in nutrient uptake and ion transport, with one outlier splicing term and a host-symbiont reference, but the transporter signal is strong. ","confidence":"Medium","size":23,"edges":22,"triangles":0,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0046597","count":2},{"id":"GO:0035461","count":2},{"id":"GO:0006004","count":2},{"id":"GO:1900754","count":2}]},{"hash":"1201591002863520402","title":"Immune adhesion and tissue remodeling","description":"The cluster is enriched for cell adhesion terms (heterophilic and general cell adhesion), immune-related regulation (dendritic cell differentiation, monocyte chemotactic protein-1 production), and wound healing/remodeling, with additional signals connected to bone formation and synapse organization. This suggests proteins involved in cell-cell adhesion that coordinate immune cell interactions and tissue remodeling, with some neuronal-adhesion\u2013related processes. Therefore, the label Immune adhesion and tissue remodeling is appropriate, though some terms point to neuronal adhesion components as well.","confidence":"Medium","size":23,"edges":78,"triangles":138,"max_degree":21,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":13},{"id":"GO:1904597","count":13},{"id":"GO:2001200","count":13},{"id":"GO:1904604","count":13},{"id":"GO:0071639","count":13}]},{"hash":"90354451999632191","title":"GPCR Signaling and Visual Perception","description":"Reasoning: The most represented GO terms cluster around GPCR signaling, including positive regulation of GTPase activity, Rho signaling, and GPCR desensitization by arrestin, as well as sensory pathway terms like morphine response and visual perception. These collectively suggest a functional theme of GPCR-mediated signaling and sensory processes; several other terms may reflect broad or incidental associations rather than a single cohesive pathway.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":15},{"id":"GO:0043278","count":15},{"id":"GO:0042391","count":15},{"id":"GO:0007601","count":14},{"id":"GO:0042742","count":14}]},{"hash":"156033899206227036","title":"GPCR Signaling Across Systems","description":"Many of the top GO terms center on G protein-coupled receptor signaling and downstream responses (including PI biosynthesis and peptide-related responses). The terms span visual perception (rhodopsin-like GPCRs), gastric acid secretion via GPCRs, astrocyte chemotaxis regulation, and inflammatory signaling, suggesting a unifying theme of GPCR-mediated communication that operates across sensory, neuroendocrine, and vascular contexts rather than a single tissue-specific process.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":20},{"id":"GO:0007601","count":20},{"id":"GO:0010513","count":20},{"id":"GO:2000458","count":20},{"id":"GO:0001698","count":20}]},{"hash":"44544008520886280","title":"Cardiovascular GPCR and Neuropeptide Signaling","description":"The top GO terms cluster around blood pressure regulation, vascular smooth muscle control, coagulation, and neuropeptide/ GPCR signaling (including Rho and GTPase regulation). This points to a coherent theme of GPCR-driven neuropeptide signaling governing cardiovascular tone and related processes, with energy metabolism terms likely reflecting general cellular activity. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":9},{"id":"GO:0022900","count":9},{"id":"GO:0010579","count":9},{"id":"GO:0019233","count":9},{"id":"GO:0035025","count":9}]},{"hash":"1458385812863464001","title":"Neural and Epithelial Development","description":"The top GO terms point to development and maintenance of neural and epithelial tissues (skin/keratinocytes, retina, lens, astrocytes) with axon-related processes (axonogenesis, retrograde transport, microtubule polarity, axon diameter). This suggests a cohesive theme of tissue development intertwined with cytoskeletal dynamics and nervous system differentiation, rather than a single pathway.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061436","count":3},{"id":"GO:0048936","count":3},{"id":"GO:0051546","count":3},{"id":"GO:0070307","count":3},{"id":"GO:0001895","count":3}]},{"hash":"735376588306619120","title":"RNA Pol II Transcriptional Repression & Chromatin Regulation","description":"This cluster centers on negative regulation of transcription by RNA polymerase II, along with protein ubiquitination and chromatin-related modifications (histone modification terms). These together suggest a set of transcriptional regulators and chromatin modifiers that control gene expression and developmental signaling, with NF-kappaB regulation strengthening the regulatory theme. Some terms are obsolete but still point to chromatin-regulatory functions rather than metabolic roles. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0007399","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0010216","count":2},{"id":"GO:1901674","count":2}]},{"hash":"956516419890278809","title":"Bone formation and skeletal development (BMP signaling)","description":"The set is enriched for skeletal development, ossification, and positive regulation of BMP signaling, pointing to bone formation and skeletogenesis as the core theme. Other terms reflect broader development or inflammatory contexts, but BMP-driven bone morphogenesis is the strongest signal.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":4},{"id":"GO:0002544","count":4},{"id":"GO:0001501","count":4},{"id":"GO:0030513","count":4},{"id":"GO:0043931","count":4}]},{"hash":"2202502498390984575","title":"Histone acetylation and chromatin regulation","description":"The top terms cluster around histone acetylation (H3/H4) and chromatin dynamics (nucleosome disassembly, chromatin localization) as well as RNA Pol II\u2013mediated transcription regulation, pointing to epigenetic control of gene expression. This combination suggests the proteins function together in chromatin modification and transcriptional regulation, despite some legacy/obsolete terms present.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043966","count":3},{"id":"GO:0043981","count":3},{"id":"GO:0043982","count":3},{"id":"GO:0002755","count":3},{"id":"GO:0071169","count":3}]},{"hash":"2237708975647106887","title":"Visual and dopaminergic neural signaling","description":"This cluster centers on neural signaling and sensory processing: several terms point to vision (visual perception, visual learning), sensory/pain perception, and dopaminergic synaptic transmission with behavioral responses to cocaine, plus signaling pathways (ERK cascade). A couple of terms (heart development, blood coagulation) appear as outliers, but the dominant theme is neural sensory processing and dopaminergic signaling.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":20},{"id":"GO:0019233","count":20},{"id":"GO:0007507","count":20},{"id":"GO:0008542","count":20},{"id":"GO:0010759","count":20}]},{"hash":"1225368021626600491","title":"Retinal GPCR Signaling and Visual Function","description":"This cluster is dominated by GO terms tied to GPCR signaling (including positive regulation of GPCR signaling and dopamine receptor signaling), prostaglandin response, and visual system processes (photoreceptor maintenance, visual perception). Together these point to proteins involved in retinal signal transduction and vision, with inflammation-related terms likely reflecting broader tissue context rather than core function. Therefore, a retinal GPCR/vision-focused label fits best.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045745","count":11},{"id":"GO:0006954","count":11},{"id":"GO:0007626","count":11},{"id":"GO:0008283","count":11},{"id":"GO:0071380","count":11}]},{"hash":"284839596285307018","title":"Unknown","description":"The terms span retina vasculature development in the camera-type eye, multiple tissue development processes (prostate, liver/hepatocyte, uterus), and diverse metabolic/catabolic reactions (camphor, kaurene oxidation, carbazole) with additional xenobiotic and ion-response terms. There is no single coherent biological theme uniting these functions, so a specific label is not warranted.","confidence":"","size":22,"edges":12,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0061298","count":20},{"id":"GO:0019383","count":20},{"id":"GO:0060736","count":20},{"id":"GO:0010164","count":20},{"id":"GO:0010241","count":20}]},{"hash":"1982667038346039619","title":"NF-kappaB signaling and ubiquitin-mediated immune regulation","description":"The cluster is enriched in NF-kappaB\u2013related terms (positive regulation of NF-kappaB transcription factor activity and canonical NF-kappaB signaling), ubiquitin-dependent degradation (ERAD and proteolysis), and immune functions (T cell receptor signaling, innate immune response), plus apoptosis and aggresome formation. This suggests a cohesive role in regulating immune responses through ubiquitin-driven control of NF-kappaB activity and protein turnover.","confidence":"High","size":22,"edges":94,"triangles":129,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051092","count":6},{"id":"GO:0030433","count":5},{"id":"GO:0042787","count":5},{"id":"GO:0008284","count":5},{"id":"GO:0007275","count":5}]},{"hash":"1986534658661512459","title":"Ubiquitin-Proteasome Proteolysis in Neural Development","description":"The cluster is dominated by GO terms for ubiquitin-dependent protein catabolic processes, including SCF-dependent and polyubiquitination pathways, pointing to proteostasis. Concurrent neural-development terms (third ventricle development, initiation of neural tube closure, and synapse assembly) suggest a linkage between protein turnover and neural development. Some circadian rhythm regulation and stress response terms are present but appear ancillary to the main proteolysis\u2013neural development theme.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":19},{"id":"GO:0042752","count":13},{"id":"GO:0031146","count":10},{"id":"GO:0021678","count":9},{"id":"GO:1903378","count":9}]},{"hash":"298007373928171312","title":"Cadmium-Responsive Transcription and Ubiquitin Regulation","description":"This cluster centers on cadmium stress response, transcriptional regulation, and ubiquitin-mediated protein turnover (autoubiquitination and proteolysis), suggesting a module that couples environmental stress signals to gene expression and protein degradation. The presence of development and immune-related terms may reflect broader, context-dependent roles for these proteins.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071276","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0051865","count":5},{"id":"GO:1903265","count":5},{"id":"GO:0042787","count":5}]},{"hash":"1601543536073803607","title":"Adaptive immune development and cell adhesion","description":"Top GO terms indicate adaptive immune response, multicellular organism development, and cell adhesion/matrix adhesion, with supporting terms for transcription and ERK signaling modulation. This points to a group of proteins involved in coordinating immune development and cell\u2013cell interactions, rather than a single metabolic function. The lack of observed edges reduces evidence for a tight interaction module, but the GO-term theme remains coherent.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051260","count":6},{"id":"GO:0051965","count":5},{"id":"GO:0002250","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0007155","count":4}]},{"hash":"1559318415385108145","title":"Ubiquitin-Dependent Proteolysis and ERAD","description":"The cluster is dominated by ubiquitin-related catabolic processes (ubiquitin-dependent proteolysis, ERAD, K48- and K6-linked ubiquitination, autoubiquitination), pointing to protein quality control and degradation pathways. The presence of JNK pathway regulation and apoptotic process terms suggests a broader stress-response linkage. A peroxisomal protein import term is present but secondary. Overall, it reflects a module of ubiquitin-proteasome system components involved in proteolysis and stress signaling.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0030433","count":10},{"id":"GO:0070936","count":9},{"id":"GO:0051865","count":9},{"id":"GO:0016558","count":9}]},{"hash":"863588667852259136","title":"RNA processing and translational regulation","description":"This cluster is enriched for post-transcriptional control terms: mRNA splicing via the spliceosome, mRNA export, formation of the translation preinitiation complex, and various RNA silencing processes (miRNA-mediated and ncRNA-mediated). The presence of regulatory terms around RNA polymerase II CTD phosphorylation and polyadenylation, along with IRES-dependent initiation, points to coordinated control of mRNA maturation, export, and translation, possibly involving RNA-based regulation mechanisms.","confidence":"High","size":22,"edges":230,"triangles":1520,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":6},{"id":"GO:1901407","count":6},{"id":"GO:0006406","count":6},{"id":"GO:0001731","count":5},{"id":"GO:0043547","count":5}]},{"hash":"494040309177453467","title":"Nuclear import and cell cycle regulation","description":"The top GO terms center on NLS-bearing protein import into the nucleus and various aspects of cell-cycle control (regulation of the cell cycle, mitotic regulation, cytokinesis), with supporting hints from GTPase activity and organelle trafficking. This suggests a cohesive theme where nuclear transport and cell division processes are linked, justifying a label around nuclear import coupled with cell-cycle regulation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0015991","count":10},{"id":"GO:0007050","count":9},{"id":"GO:0006607","count":9},{"id":"GO:0043547","count":9},{"id":"GO:0032471","count":8}]},{"hash":"2229730392816422628","title":"Ribosome biogenesis and translation initiation","description":"The cluster is driven by GO terms related to ribosome production and translation initiation: ribosome biogenesis (GO:0042254), formation of translation preinitiation complex (GO:0001731), maturation of rRNA species (GO:0000463, GO:0000466), translation reinitiation (GO:0002188), regulation of translational initiation (GO:0006446), and IRES-dependent viral translational initiation (GO:0075522). There are also terms on cell proliferation and mitotic cell cycle (GO:0008283, GO:0000278), but the dominant pattern centers on components and steps of ribosome assembly and protein synthesis initiation. Therefore, the label reflects the core function of this cluster.","confidence":"High","size":22,"edges":103,"triangles":264,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":7},{"id":"GO:0001731","count":6},{"id":"GO:0000463","count":6},{"id":"GO:0002188","count":6},{"id":"GO:0008283","count":5}]},{"hash":"965577096334564016","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0000209","count":6},{"id":"GO:0045087","count":5},{"id":"GO:0002635","count":5},{"id":"GO:0061470","count":5}]},{"hash":"804131099086691589","title":"Cell Polarity and Actin Dynamics","description":"Based on the prominent GO terms, this cluster centers on regulation of cell polarity and actin-driven restructuring of the cytoskeleton. Terms include establishment of epithelial cell polarity and regulation of cell shape, podosome/filopodium/ruffle assembly, actin filament branching, and small GTPase signaling that drives cytoskeletal remodeling. The presence of T cell receptor signaling hints at cytoskeletal changes during immune signaling as well. Overall, the proteins likely coordinate polarity cues with dynamic actin structures and cell adhesion.","confidence":"High","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071803","count":12},{"id":"GO:0090162","count":11},{"id":"GO:0071963","count":11},{"id":"GO:0050852","count":11},{"id":"GO:0007264","count":11}]},{"hash":"1042667196794922684","title":"Cellular stress responses and mitochondrial transport","description":"The top GO terms reveal stress-related signaling (cellular response to insulin stimulus, hydrogen peroxide, amino acid starvation) and mitochondrial-associated processes (malate-aspartate shuttle, ion transport into/out of mitochondria). This suggests a theme around metabolic/oxidative stress responses integrated with mitochondrial function and nutrient sensing, justifying a label that combines stress signaling with mitochondrial transport.","confidence":"Medium","size":22,"edges":23,"triangles":0,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0032869","count":5},{"id":"GO:1901407","count":4},{"id":"GO:0045842","count":4},{"id":"GO:0070301","count":4},{"id":"GO:0030302","count":4}]},{"hash":"2284051790682707617","title":"Neural development and protein turnover","description":"Top GO terms indicate a core focus on translation and proteasomal degradation (including IRES-dependent translation), plus morphogenesis-related terms tied to neural development such as cerebellar Purkinje cell layer morphogenesis. While other terms touch on cell cycle and cytoskeleton remodeling, the shared theme centers on protein synthesis/degradation driving neural morphogenesis. This supports a label of neural development linked to protein homeostasis.","confidence":"Medium","size":22,"edges":154,"triangles":537,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0032436","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0008285","count":2}]},{"hash":"506296487032174483","title":"T Cell Signaling and Actin Remodeling","description":"The cluster is dominated by T cell\u2013associated signaling terms (T cell receptor signaling, small GTPase-mediated signaling) and strong links to actin cytoskeleton dynamics (actin filament branching, podosome assembly). Immune outputs like interleukin-4 production and NK T cell differentiation further support a T cell\u2013driven functional theme. Other receptor pathways (EGFR, ephrin) appear but do not override the primary immune-signaling and cytoskeletal remodeling pattern. High confidence this label captures the core function of the cluster.","confidence":"High","size":22,"edges":28,"triangles":3,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007264","count":14},{"id":"GO:0050852","count":13},{"id":"GO:0090135","count":13},{"id":"GO:0043552","count":13},{"id":"GO:0090263","count":13}]},{"hash":"1904836179891561285","title":"Developmental Growth Signaling and Proliferation","description":"This cluster seems to collect proteins involved in developmental signaling and proliferation, with GO terms pointing to TGF-beta\u2013related responses, various developmental processes (retina, skeletal system), and cell cycle activities (cell division, spindle orientation, GTPase regulation). Although some terms are obsolete, the core theme centers on growth signaling guiding development and cell proliferation.","confidence":"Medium","size":22,"edges":60,"triangles":57,"max_degree":19,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0071560","count":13},{"id":"GO:0007568","count":13},{"id":"GO:0008283","count":12},{"id":"GO:0043547","count":11},{"id":"GO:0060041","count":11}]},{"hash":"1871783464568247162","title":"Retinal neuron axon guidance and visual development","description":"Based on the top GO terms, the cluster is dominated by neural development processes tied to the visual system: CNS projection neuron axonogenesis, retinal ganglion cell axon guidance, fasciculation of sensory neuron axons, and visual perception. These consistently point to proteins involved in retinal/central visual pathway formation, with a few broader developmental terms present but not overriding the main theme.","confidence":"High","size":22,"edges":230,"triangles":1520,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021952","count":22},{"id":"GO:0007601","count":22},{"id":"GO:0045819","count":22},{"id":"GO:1901196","count":22},{"id":"GO:1990803","count":22}]},{"hash":"2007210563449662068","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":21,"triangles":0,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0018406","count":4},{"id":"GO:0007286","count":4},{"id":"GO:0007614","count":3},{"id":"GO:0060291","count":3}]},{"hash":"956223338305435569","title":"Diverse metabolite biosynthesis","description":"GO terms are dominated by varied biosynthetic processes (melanin, phylloquinone, retinal, very long-chain fatty acids, tetrahydrobiopterin, tropane alkaloids) with acetoin catabolic process also present, suggesting proteins in this cluster participate in broad metabolite production and related pathways. A few terms (lung development, response to antibiotic) are broader or ancillary, but the common thread is metabolism and biosynthesis across diverse compounds.","confidence":"Medium","size":22,"edges":106,"triangles":159,"max_degree":17,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0045150","count":18},{"id":"GO:0055114","count":18},{"id":"GO:0009710","count":18},{"id":"GO:0042761","count":18},{"id":"GO:0006729","count":18}]},{"hash":"91787750920806862","title":"Axonogenesis and neuronal differentiation","description":"The terms cluster around neural development: neuron projection axonogenesis, retinal ganglion cell axon guidance, fasciculation and neuron cell\u2013cell adhesion, with supportive signaling through PI3K/AKT and STAT pathways that regulate differentiation and growth. While interleukin-27 signaling is listed, the dominant pattern is neuronal growth and pathfinding, supporting a cohesive theme of axonogenesis and neural differentiation.","confidence":"High","size":22,"edges":229,"triangles":1500,"max_degree":21,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0070106","count":12},{"id":"GO:0042517","count":12},{"id":"GO:0035745","count":12},{"id":"GO:0045663","count":11},{"id":"GO:0021952","count":11}]},{"hash":"1988070922511705705","title":"mRNA Processing and Export Regulators","description":"This cluster is dominated by GO terms tied to RNA metabolism: regulation of polyadenylation, ncRNA-mediated gene silencing, regulation of translational initiation, and mRNA splicing and export via the spliceosome. Together these terms suggest a core function in mRNA maturation and control of gene expression at the RNA level. Some terms related to calcium-dependent exocytosis, cell migration, and GTPase signaling appear, but the strongest signal centers on RNA processing and translation regulation. ","confidence":"Medium","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1900363","count":4},{"id":"GO:0031047","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0006406","count":3}]},{"hash":"2140811962564893296","title":"Transcriptional Regulation & Chromatin Remodeling in Differentiation","description":"The cluster is dominated by transcription-related terms\u2014negative regulation of RNA Pol II transcription, DNA-templated transcription, chromatin remodeling, and nucleosome assembly\u2014along with differentiation. Additional terms hint at signaling and cytoskeletal processes, but the central thread is epigenetic control of gene expression during development.","confidence":"High","size":22,"edges":49,"triangles":0,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0030154","count":3},{"id":"GO:0043044","count":3},{"id":"GO:0006334","count":3}]},{"hash":"1440743580875537618","title":"Neural development and transcription regulation","description":"This cluster is dominated by GO terms related to neural development and signaling (cerebral cortex development, synapse assembly, sensory perception of sound, membrane potential regulation) and transcriptional control (regulation of DNA-templated transcription). While there are outliers related to other developmental processes, the strongest signal centers on neuronal development and transcriptional regulation of neuronal function.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":7},{"id":"GO:0048240","count":6},{"id":"GO:0042391","count":5},{"id":"GO:0007605","count":5},{"id":"GO:0021987","count":4}]},{"hash":"788307079271248381","title":"Mitochondrial lipid signaling and metabolism","description":"This cluster shows a clear emphasis on lipid-related processes and mitochondrial membrane dynamics (cardiolipin biosynthesis, lipid catabolic process, and positive regulation of mitochondrial fusion), suggesting a central theme around mitochondrial lipid metabolism and membrane signaling, with other terms like LPS response or EMT likely representing peripheral or overlapping roles.","confidence":"Medium","size":22,"edges":41,"triangles":0,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":3},{"id":"GO:0001837","count":2},{"id":"GO:0051310","count":2},{"id":"GO:0007173","count":2},{"id":"GO:0048017","count":2}]},{"hash":"1135978797185751912","title":"Neural Crest\u2013driven Embryogenesis and Organogenesis","description":"GO terms point to vertebrate embryonic development with emphasis on neural crest\u2013derived structures and organogenesis: heart and cranial skeleton morphogenesis, neural crest cell migration, organ induction, neuron migration, and later neural differentiation such as retinal axon guidance and visual perception.","confidence":"High","size":22,"edges":44,"triangles":41,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0031290","count":9},{"id":"GO:0007275","count":9},{"id":"GO:0048701","count":9},{"id":"GO:0003350","count":8},{"id":"GO:0007338","count":8}]},{"hash":"232304017280269904","title":"VEGF-Driven Endothelial Angiogenesis Signaling","description":"The top GO terms center on angiogenesis and endothelial cell chemotaxis driven by VEGF signaling (GO:0001525, GO:0038033), indicating a vascular development role. Supporting terms for GTPase activity and serine phosphorylation reflect signaling cascades that regulate endothelial cell movement and cytoskeletal dynamics. While some terms are broader or obsolete, the dominant theme is endothelial angiogenic signaling.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0090331","count":3},{"id":"GO:0060384","count":3},{"id":"GO:0032930","count":3},{"id":"GO:0001525","count":3}]},{"hash":"468576768630982659","title":"Innate immune defense against bacteria and viruses","description":"This cluster is dominated by innate immune terms: responses to lipopolysaccharide and dsRNA, LPS signaling, defense against viruses and Gram-positive bacteria, and cytokine-mediated signaling, indicating a cohesive innate immune activation group. The presence of actin remodeling terms suggests cytoskeletal changes accompanying immune responses.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0071222","count":9},{"id":"GO:0043330","count":8},{"id":"GO:0031663","count":8},{"id":"GO:0006915","count":7},{"id":"GO:0019221","count":7}]},{"hash":"7785764399743687","title":"Splicing and post-transcriptional mRNA regulation","description":"These proteins show strong enrichment for spliceosome-mediated splicing and mRNA stability regulation, plus translation control and RNA silencing pathways (miRNA/ncRNA). This points to a cohesive role in post-transcriptional gene regulation, including splicing, mRNA stability, and translational control. ","confidence":"High","size":22,"edges":210,"triangles":1188,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":17},{"id":"GO:0000381","count":15},{"id":"GO:0006378","count":15},{"id":"GO:0045292","count":15},{"id":"GO:0035278","count":14}]},{"hash":"423192272578440383","title":"RNA silencing and translational control","description":"The top GO terms cluster around miRNA- and regulatory ncRNA-mediated gene silencing, as well as processes governing translation and mRNA processing (IRES-dependent initiation, preinitiation complex formation, translation reinitiation, and mRNA stabilization). There is also involvement in splicing regulation via spliceosome components, all pointing to post-transcriptional gene regulation at the RNA level, rather than protein-centric functions.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0035278","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0048025","count":3},{"id":"GO:0000381","count":3}]},{"hash":"1274709869621681134","title":"Embryonic organogenesis and lung development","description":"Top GO terms indicate a developmental theme across multiple organs, especially lung development (right lung morphogenesis; lung ciliated cell differentiation) and embryonic patterning (in utero embryonic development, heart tube anterior/posterior pattern specification). While a few terms touch on immune regulation, the overall cluster centers on organogenesis and respiratory differentiation.","confidence":"Medium","size":22,"edges":105,"triangles":258,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:2000824","count":9},{"id":"GO:0002725","count":9},{"id":"GO:0060461","count":9},{"id":"GO:0072144","count":9},{"id":"GO:0001701","count":9}]},{"hash":"158015424237903984","title":"Neural signaling and sensory perception cluster","description":"The top terms are dominated by neural and sensory-related processes: sensory perception of pain, visual perception, regulation of GABAergic synaptic transmission, regulation of dopamine secretion, and response to morphine, plus general signaling (GTPase activity). This suggests a cohesive theme of neural signaling and sensory processing, with some secondary cardiovascular/metabolic terms that are less central to the core function.","confidence":"High","size":22,"edges":92,"triangles":104,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":11},{"id":"GO:0007596","count":10},{"id":"GO:0007601","count":10},{"id":"GO:0010759","count":10},{"id":"GO:0032228","count":10}]},{"hash":"1550945349599509257","title":"Hypoxia-Driven Neural and Heart Development","description":"GO terms show a coordinated response to low oxygen, including hypoxia and erythropoietin signaling, oxidative stress responses, and AKT pathway activation, alongside neural (astrocyte) and heart development. Mitochondrial complex IV assembly and hydrogen peroxide handling point to mitochondria-focused adaptation under hypoxic stress, with zinc transport supporting neural and cardiac metabolism. This combination suggests a theme of hypoxia-adaptive development in neural and cardiac contexts, anchored by mitochondrial and survival signaling.","confidence":"Medium","size":22,"edges":58,"triangles":44,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0071456","count":6},{"id":"GO:0043524","count":6},{"id":"GO:0036018","count":6},{"id":"GO:0033617","count":5},{"id":"GO:0007507","count":5}]},{"hash":"784296465970231128","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":42,"triangles":23,"max_degree":12,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":5},{"id":"GO:0002181","count":3},{"id":"GO:0042273","count":3},{"id":"GO:1902626","count":3},{"id":"GO:0000463","count":3}]},{"hash":"1055472746200839615","title":"Mitochondrial Energy Production and Lipid Remodeling","description":"This cluster is driven by mitochondrial-focused GO terms: mitochondrial ribosome assembly, NADH to ubiquinone electron transport, ATP synthesis linked to electron transport, and cardiolipin remodeling. Additional lipid biosynthetic terms (triglyceride and ether lipids) align with mitochondrial membrane metabolism, while a few unrelated terms (e.g., plant-related biosynthesis) appear as noise. Overall, the dominant theme is mitochondrial energy production and membrane lipid remodeling.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061668","count":2},{"id":"GO:0006067","count":2},{"id":"GO:0006120","count":2},{"id":"GO:0070970","count":1},{"id":"GO:0042775","count":1}]},{"hash":"566707813076264209","title":"Developmental Transcription Regulation","description":"The cluster is enriched for GO terms related to transcriptional control by RNA polymerase II (both positive and negative regulation, and DNA-templated transcription) and several development-related processes (midbrain development, skeletal muscle development, angiogenesis, and visual perception), suggesting these proteins function as transcriptional regulators involved in developmental pathways. Confidence: Medium","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0045766","count":5},{"id":"GO:0014068","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0071333","count":5}]},{"hash":"316634266822939221","title":"Embryonic heart and craniofacial organogenesis","description":"This cluster is enriched for terms tied to vertebrate embryonic organ formation, especially heart development and outflow tract morphogenesis, craniofacial skeleton and palate formation, and various organ induction processes. Additional signals for midbrain and pituitary development, plus visceral motor neuron differentiation, point to broad developmental regulation. The inclusion of negative regulation of transcription by RNA Pol II suggests coordinated gene regulation during these programs. Overall, it reflects embryonic organogenesis with emphasis on cardiovascular and craniofacial tissues.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0030901","count":6},{"id":"GO:0003148","count":6},{"id":"GO:0021983","count":6},{"id":"GO:0060021","count":6}]},{"hash":"215219531375693424","title":"Neural development and axon guidance","description":"Most of the top GO terms describe neural development processes\u2014corpus callosum development, axonal fasciculation, synapse assembly, nerve branching morphogenesis, and regulation of axon growth. While a few terms relate to heart development or signaling pathways, the dominant theme is CNS development and neural connectivity, justifying the label neural development and axon guidance.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:2000172","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0016525","count":3}]},{"hash":"622953831248834495","title":"Diverse Biosynthetic Pathways","description":"Most top GO terms describe biosynthetic or metabolic processes (very long-chain fatty acid biosynthesis, melanin biosynthesis, retinal metabolic process, tetrahydrobiopterin biosynthesis, phylloquinone catabolic process, tropane alkaloid biosynthesis, acetoin catabolic process). Some terms like response to antibiotic and lung development are broader, but they don\u2019t define a single unified pathway. This suggests a cluster of proteins tied to multiple, diverse biosynthetic/metabolic activities, hence the label Diverse Biosynthetic Pathways. ","confidence":"Medium","size":22,"edges":190,"triangles":905,"max_degree":21,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":21},{"id":"GO:0045150","count":19},{"id":"GO:0009710","count":19},{"id":"GO:0042761","count":19},{"id":"GO:0006729","count":19}]},{"hash":"1152958832036451212","title":"Immune activation and antibody production","description":"The top GO terms are dominated by immune functions: complement activation (classical pathway), innate immune response, phagocytosis, B cell receptor signaling, and immunoglobulin production, plus regulation of macrophage activation and cell adhesion relevant to immune interactions. While some terms touch on neural development, the strongest signal reflects immune defense and antibody-related processes, justifying a label centered on immune activation and antibody production.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":8},{"id":"GO:0045087","count":8},{"id":"GO:0007157","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0046718","count":7}]},{"hash":"451692735980647543","title":"Amino acid membrane transport","description":"The cluster\u2019s top GO terms are dominated by transmembrane transport of amino acids and related metabolites (L-lysine, L-arginine, D-alanine, methionine, carnitine) across the plasma membrane, indicating a cohesive function in amino acid import/transport. Additional terms about nitric oxide production and macrophage activation may relate to downstream effects of amino acid availability (e.g., arginine), but the transport function is the core theme. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010923","count":7},{"id":"GO:0097639","count":6},{"id":"GO:0042941","count":6},{"id":"GO:0002537","count":6},{"id":"GO:0035826","count":6}]},{"hash":"1190930892525532520","title":"Dendritic spine actin remodeling via Rho signaling","description":"The cluster\u2019s top GO terms cluster around actin cytoskeleton dynamics (filament formation, bundling, crosslinking, uncapping) and regulation of GTPase/Rho signaling, together with neuronal synapse concepts such as dendritic spine maintenance and long-term synaptic depression, indicating a cohesive theme of actin-driven synaptic remodeling governed by Rho GTPases.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007205","count":6},{"id":"GO:0035023","count":5},{"id":"GO:0043087","count":4},{"id":"GO:0097062","count":4},{"id":"GO:0060292","count":4}]},{"hash":"294108577545725306","title":"Actin Dynamics and Epithelial Barrier in Innate Immunity","description":"Despite diverse GO terms, a common thread is actin cytoskeleton dynamics (actin filament severing, cytoskeletal anchoring), which influence platelet aggregation, endocytosis, and epithelial barrier integrity. Additional terms point to extracellular matrix organization (collagen fibrils) and antiviral innate defense, suggesting a cluster of proteins involved in cytoskeletal remodeling that supports barrier function and innate responses rather than a single specific pathway.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070527","count":3},{"id":"GO:0007016","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0051014","count":2}]},{"hash":"1506459735172834150","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"This cluster centers on actin cytoskeleton dynamics, including filopodium and lamellipodium assembly, cell spreading, and overall cytoskeleton organization, along with regulation of cell movement processes such as extravasation and GTPase signaling. The presence of terms tied to vascular remodeling and nervous system development (myelination of the PNS, midbrain morphogenesis) suggests a cohesive theme of actin-driven cellular motility and morphogenesis in development and tissue remodeling.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060313","count":5},{"id":"GO:0043314","count":5},{"id":"GO:0022011","count":4},{"id":"GO:0046847","count":4},{"id":"GO:1900026","count":4}]},{"hash":"859534328670536535","title":"Developmental Morphogenesis","description":"This cluster is dominated by GO terms tied to morphogenesis and development across a range of tissues and organs\u2014cartilage, placenta, heart cushion EMT, trophoblast, pancreatic cells, endocrine system, left-right patterning, roof of the mouth, hair follicles, and vitamin D regulation. The common thread is embryonic tissue formation and organ morphogenesis rather than a single tissue-specific pathway, suggesting a broad developmental program.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060536","count":17},{"id":"GO:0060806","count":17},{"id":"GO:0003198","count":17},{"id":"GO:0060707","count":17},{"id":"GO:0003323","count":17}]},{"hash":"1923136277430888400","title":"Rho/JNK-regulated dendritic spine formation","description":"The cluster centers on regulation of Rho signaling and the JNK cascade, with several terms pointing to dendritic spine morphogenesis and excitatory postsynaptic potential, i.e., neuronal synapse development and cytoskeletal remodeling. Some junction-related terms (adherens/tight junctions, endothelial barrier) suggest broader cell\u2013cell adhesion roles that can intersect with synaptic adhesion mechanisms, but the strongest signal is neural development and spine formation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0046328","count":2},{"id":"GO:2000463","count":2},{"id":"GO:0035176","count":2},{"id":"GO:0051660","count":2}]},{"hash":"1703249724023886295","title":"Glycosylation and carbohydrate metabolism","description":"The top GO terms point to glycan biosynthesis and carbohydrate processing, including glycosphingolipid biosynthesis and flavonoid glycoside biosynthesis, suggesting a common theme around sugar-containing molecule modification. Some terms are obsolete or organism-specific (sporulation, estrogen/antibiotic metabolism) but the recurring signal is glycosylation-related processes. Confidence in this label is medium.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030259","count":2},{"id":"GO:0001833","count":2},{"id":"GO:0031321","count":2},{"id":"GO:0006688","count":1},{"id":"GO:0033580","count":1}]},{"hash":"1415051177263602451","title":"GPCR Signaling and Trafficking","description":"This cluster centers on G protein-coupled receptor signaling, especially neuropeptide signaling, activation of adenylate cyclase, GPCR internalization, and ERK cascade regulation. The prominent terms for sensory pain and neuropeptide signaling point to GPCR-mediated communication, with receptor trafficking and downstream pathways reinforcing a cohesive GPCR-centric theme. Some terms reflect broader roles of GPCRs in heart development and responses to xenobiotics or pathogens, but they complement rather than contradict the core GPCR signaling signature.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":17},{"id":"GO:0007218","count":16},{"id":"GO:0007190","count":16},{"id":"GO:0042742","count":16},{"id":"GO:0051482","count":16}]},{"hash":"2069944527205262203","title":"Cell wall remodeling and peptidoglycan/chitin metabolism","description":"This cluster is dominated by GO terms related to cell envelope dynamics and carbohydrate metabolism (cell wall organization, peptidoglycan biosynthesis/catabolism, chitin catabolic/response processes) and includes a sporulation term, suggesting a shared theme of cell wall remodeling and spore-related development. A couple terms (sensory perception of pain, olfactory learning) are unusual for this context and may be annotation spillover, but the core signals point to cell wall and related metabolism.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008360","count":3},{"id":"GO:0019233","count":3},{"id":"GO:0008355","count":3},{"id":"GO:0071555","count":2},{"id":"GO:0009252","count":2}]},{"hash":"1835704402834429530","title":"Innate Immune Signaling and Inflammation","description":"The top GO terms center on innate immune response, TLR4 signaling, and NF-kappaB activation, plus inflammatory response, suggesting the proteins collectively participate in immune signaling and inflammatory pathways. Additional terms on cytoskeletal remodeling and barrier establishment (integrin signaling, Rho regulation, microspike assembly, endothelial barrier) align with immune cell migration and barrier dynamics typical of inflammation, reinforcing a cohesive theme of immune-driven signaling and inflammation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0016239","count":3},{"id":"GO:0007229","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0030035","count":3},{"id":"GO:0090557","count":3}]},{"hash":"1958464736365545630","title":"Transcription Elongation and Ribosome Biogenesis","description":"The terms cluster around transcription elongation (Pol I and II) with regulation of transcription, alongside ribosome biogenesis and chromatin-related marks, suggesting a coordinated transcription-centered/nucleolar growth program; metabolic terms are comparatively minor. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051568","count":3},{"id":"GO:0006362","count":2},{"id":"GO:0006368","count":2},{"id":"GO:0032968","count":2},{"id":"GO:0042254","count":2}]},{"hash":"1556983875099028579","title":"Vascular GPCR signaling and blood pressure regulation","description":"The cluster is strongly enriched for vascular- and signaling-related GO terms, including positive regulation of blood pressure, adenylate cyclase-activating GPCR signaling (including dopamine receptor signaling) and prostaglandin response, as well as blood coagulation. While electron transport and cell proliferation terms appear, the dominant theme centers on GPCR-mediated signaling in cardiovascular regulation and hemostasis. Confidence: Medium","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":17},{"id":"GO:0022900","count":17},{"id":"GO:0010579","count":17},{"id":"GO:0008283","count":17},{"id":"GO:0007191","count":17}]},{"hash":"972163788304619318","title":"Cardiac conduction and development","description":"The top GO terms are dominated by heart-related processes: regulation of atrial and ventricular membrane depolarization/repolarization, SA node cell action potential, regulation of heart rate by cardiac conduction, and heart development. This indicates the cluster is best characterized by cardiac electrophysiology and development, with a few outliers likely due to annotation noise (e.g., pollen tube guidance, glycosylation). ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060371","count":2},{"id":"GO:0086091","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0086015","count":2},{"id":"GO:0060307","count":2}]},{"hash":"1241385656080070936","title":"Inflammatory Cytokine and Oxidative Stress Response","description":"The cluster prominently features GO terms tied to innate immune signaling and inflammation (cellular response to TNF, IL-1, lipopolysaccharide, and type II interferon production) along with oxidative stress responses (response to hydrogen peroxide) and related apoptosis pathways, suggesting a cohesive module of inflammatory and stress-related signaling. A few terms also touch on membrane lipid handling and mucosal epithelium maintenance, which can relate to membrane signaling in immune responses within epithelia.","confidence":"High","size":21,"edges":133,"triangles":409,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010628","count":10},{"id":"GO:0055091","count":10},{"id":"GO:0097192","count":8},{"id":"GO:0071356","count":7},{"id":"GO:0070301","count":7}]},{"hash":"455969465201021508","title":"Hypoxia-responsive circadian transcription network","description":"The dominant terms are DNA-templated transcription and circadian regulation of gene expression, with a strong link to hypoxia signaling (HIF\u20111\u03b1). This suggests a cluster of genes coordinating transcriptional control under oxygen fluctuations and circadian cues, with additional links to stress and metabolic responses, rather than a single, isolated pathway.","confidence":"High","size":21,"edges":205,"triangles":1241,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":21},{"id":"GO:0032922","count":19},{"id":"GO:0006935","count":18},{"id":"GO:0021502","count":18},{"id":"GO:0061419","count":18}]},{"hash":"487974618043583488","title":"Ubiquitin-Dependent Degradation and Signaling","description":"The dominant GO terms are centered on ubiquitin-mediated protein turnover (ubiquitin-dependent proteolysis, autoubiquitination, histone catabolic processes, ERAD) with additional links to signaling pathways (TNF, JNK) and apoptosis (I-kappaB regulation). This suggests the proteins function together in ubiquitin-dependent degradation as well as in regulating signaling and cell fate, rather than a single enzymatic activity. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0036205","count":12},{"id":"GO:0051865","count":12},{"id":"GO:0030433","count":12},{"id":"GO:1903265","count":12}]},{"hash":"1017911137610171987","title":"Epigenetic Regulation in Neural Development","description":"The cluster shows strong signals for histone acetylation, an epigenetic mechanism controlling gene expression, together with neural development terms (forebrain development, neural tube closure) and other developmental processes (skin development) plus cell proliferation and ciliogenesis. This pattern points to proteins involved in chromatin modification linked to developmental programs, especially neural development.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043966","count":6},{"id":"GO:0043981","count":6},{"id":"GO:0043982","count":6},{"id":"GO:0060271","count":6},{"id":"GO:0043547","count":6}]},{"hash":"2176057290043006709","title":"Ubiquitin-Proteasome Degradation and Circadian Regulation","description":"This cluster is dominated by GO terms for ubiquitin-dependent proteolysis (including SCF-dependent proteasomal degradation and polyubiquitination), indicating a heavy emphasis on targeted protein turnover. The presence of circadian rhythm regulation and cell-cycle related terms suggests coupling of proteostasis with rhythmic control of growth and division, with a secondary link to stress response (cadmium ion). Overall, the common thread is ubiquitin-mediated protein degradation shaping cell cycle and circadian regulation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":17},{"id":"GO:0031146","count":12},{"id":"GO:0071276","count":9},{"id":"GO:0000209","count":9},{"id":"GO:0042752","count":9}]},{"hash":"298884046848952633","title":"Ribosome Biogenesis and Translation Machinery","description":"The top GO terms cluster strongly around ribosome assembly and function (ribosome biogenesis, ribosomal subunit biogenesis/export, cytoplasmic translation, tRNA modification) and related cell-cycle processes (cell cycle, cell division, septum assembly). The inclusion of protein homooligomerization also fits assembly of ribosomal components and translation factors. Together, these indicate a cohesive role in producing and deploying ribosomes for protein synthesis during growth and division.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051260","count":13},{"id":"GO:0002181","count":8},{"id":"GO:0090529","count":8},{"id":"GO:1901001","count":8},{"id":"GO:0042274","count":8}]},{"hash":"1378186546555629204","title":"MAPK-PI3K signaling and cell migration","description":"The cluster shows strong representation of positive regulation in PI3K activity/signaling and the ERK1/ERK2 (MAPK) cascade, along with processes like cell proliferation, differentiation, chemotaxis, and neuron migration. This points to a cohesive theme where growth-factor\u2013driven signaling via MAPK and PI3K pathways governs cell movement, proliferation, and cross-cell communication across diverse cell types, including immune cells and neurons.","confidence":"High","size":21,"edges":106,"triangles":305,"max_degree":19,"top_function":"wound healing","top_go_terms":[{"id":"GO:0043552","count":15},{"id":"GO:0048661","count":15},{"id":"GO:0070374","count":15},{"id":"GO:0045663","count":14},{"id":"GO:0002551","count":14}]},{"hash":"597028473607688571","title":"Mitochondrial Electron Transport and Translation","description":"The terms cluster around mitochondrial energy metabolism: proton transmembrane transport, proton motive force-driven ATP synthesis, and the mitochondrial electron transport chain, plus regulation of mitochondrial translation. A few non-mitochondrial terms appear, but the dominant signal is mitochondrial respiration and translation, supporting this label.","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":2},{"id":"GO:0015986","count":2},{"id":"GO:0099132","count":2},{"id":"GO:0070131","count":2},{"id":"GO:0006123","count":2}]},{"hash":"2233934105562460135","title":"Craniofacial development and neural crest patterning","description":"The top GO terms are heavily skewed toward craniofacial and neural crest biology (nose development, neural crest cell development, anterior/posterior pattern specification) with a related neuromuscular balance component, suggesting this cluster centers on craniofacial patterning and head development. Some metabolic terms appear less informative and may reflect broader annotation, but the predominant theme is craniofacial/neural crest development.","confidence":"High","size":21,"edges":105,"triangles":336,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0009952","count":13},{"id":"GO:0006678","count":13},{"id":"GO:0043584","count":13},{"id":"GO:0019413","count":13},{"id":"GO:0032180","count":13}]},{"hash":"1830126705018590154","title":"Neural Axon Guidance and Visual System Development","description":"Most frequent GO terms point to neural development and axon pathfinding in the visual system, including CNS projection neuron axonogenesis, retinal ganglion cell axon guidance, and fasciculation of sensory neuron axons, as well as visual perception. Some terms are peripheral or broader (e.g., ER polarization, angiogenesis), but the dominant theme is neural axon guidance related to vision.","confidence":"High","size":21,"edges":201,"triangles":1183,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021952","count":21},{"id":"GO:0007601","count":21},{"id":"GO:0045819","count":21},{"id":"GO:1901196","count":21},{"id":"GO:1990803","count":21}]},{"hash":"23978934967050425","title":"Sulfur amino acid metabolism and nucleotide biosynthesis","description":"The cluster is enriched for sulfur-containing amino acid pathways (homocysteine catabolism, transsulfuration, serine/cysteine metabolism, H2S production) and nucleotide biosynthesis (GTP and GMP biosynthesis). This points to a cohesive metabolic theme where sulfur amino acid metabolism intersects with nucleotide production, with some redox and cell-cycle related terms present likely due to multi-functional proteins.","confidence":"Medium","size":21,"edges":86,"triangles":238,"max_degree":18,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0045722","count":10},{"id":"GO:0030071","count":10},{"id":"GO:0043418","count":10},{"id":"GO:0006183","count":10},{"id":"GO:0055114","count":10}]},{"hash":"1322114415017212743","title":"Neuronal development and actin remodeling","description":"This cluster is enriched for neural development terms (brain development, ephrin receptor signaling) and for actin cytoskeleton dynamics (ruffle and lamellipodium assembly, stress fiber assembly, Rac signaling). Together, these indicate a shared role in neuronal morphogenesis and cell movement driven by Rac-mediated actin remodeling. An outlier term on DNA replication regulation is present but does not define the core theme.","confidence":"High","size":21,"edges":75,"triangles":160,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045740","count":5},{"id":"GO:0097178","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0048013","count":4},{"id":"GO:0071260","count":4}]},{"hash":"1022008240655823153","title":"RNA processing and translation regulation","description":"These proteins cluster around RNA metabolism: translation initiation/reinitiation and preinitiation complex formation, spliceosome-mediated mRNA processing and editing, mRNA stabilization, and ncRNA/miRNA\u2013mediated gene silencing. The shared GO terms indicate a cohesive role in both RNA processing and control of translation, rather than a single catalytic activity, justifying a label that reflects both RNA processing and translational regulation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":8},{"id":"GO:0001731","count":8},{"id":"GO:0006378","count":7},{"id":"GO:0045292","count":7},{"id":"GO:0031047","count":6}]},{"hash":"2288758320868607842","title":"Wnt signaling and membrane trafficking in development","description":"Most represented terms center on positive regulation of canonical Wnt signaling and diverse developmental processes (nervous system, kidney, substantia nigra, hair follicles), complemented by endocytosis and endosome-to-lysosome transport as well as phospholipid homeostasis. This combination suggests a cohesive theme where Wnt-driven signaling is modulated by membrane trafficking and lipid dynamics during development. ","confidence":"High","size":21,"edges":23,"triangles":0,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0055091","count":7},{"id":"GO:0010628","count":7},{"id":"GO:0090263","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0043652","count":7}]},{"hash":"1134766197396878765","title":"Embryonic and Placental Development","description":"The top GO terms cluster around embryonic differentiation and morphogenesis, including placental/ trophoblast development, EMT processes in heart development, pancreatic endocrine lineage formation, cartilage morphogenesis, and left-right patterning. This points to a cohesive theme of early development and organogenesis with placental/embryonic lineage specification, despite a couple terms related to transcriptional regulation and ribosome export that are less central to this theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060806","count":15},{"id":"GO:0003323","count":15},{"id":"GO:0060536","count":15},{"id":"GO:0003198","count":15},{"id":"GO:0060707","count":15}]},{"hash":"701875872872797509","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":184,"triangles":933,"max_degree":20,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":10},{"id":"GO:0048026","count":10},{"id":"GO:0000464","count":9},{"id":"GO:1901407","count":8},{"id":"GO:0000472","count":8}]},{"hash":"1345019891913358405","title":"Cell cycle and ER-Golgi trafficking control","description":"This cluster centers on cell division processes (mitotic sister chromatid separation, synaptonemal complex assembly) and vesicle transport between the ER and Golgi (including retrograde transport), with related regulation by GTPases and TORC1 signaling. Transcription and mRNA transport appear as peripheral but related cellular processes, supporting a theme of proliferative cell function coupled to membrane trafficking.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0051028","count":5},{"id":"GO:0006888","count":5}]},{"hash":"1061086726655807499","title":"Developmental Transcription Regulation","description":"This cluster is enriched for GO terms related to transcription by RNA polymerase II, including negative regulation, indicating a role in controlling gene expression. Concurrently, there are multiple embryonic development terms (eye, heart, brain segmentation, lung morphogenesis, primitive streak formation, skeletal muscle development), suggesting these proteins function together to regulate developmental processes. The combination of transcriptional control and broad developmental roles supports a label focused on developmental transcription regulation.","confidence":"High","size":21,"edges":38,"triangles":2,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0006366","count":10},{"id":"GO:0048048","count":9},{"id":"GO:0060441","count":8},{"id":"GO:0043010","count":8}]},{"hash":"2301020273638890170","title":"Neuronal adhesion and synapse assembly","description":"This cluster is dominated by GO terms for cell\u2013cell adhesion (homophilic/heterophilic) and neuroligin clustering at postsynaptic membranes, plus positive regulation of synapse assembly and nervous system development, pointing to proteins that drive neural connectivity and synaptic organization through adhesion molecules. Some terms touch non-neural processes, but the central theme remains neural adhesion and synapse formation.","confidence":"High","size":21,"edges":112,"triangles":164,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":8},{"id":"GO:0007157","count":8},{"id":"GO:0051965","count":7},{"id":"GO:0043931","count":7},{"id":"GO:0007399","count":7}]},{"hash":"583760397431319442","title":"Developmental signaling and differentiation","description":"The top GO terms cluster around developmental signaling pathways (Hippo and Wnt) and differentiation processes (keratinocytes, heart, placenta-derived cells), with related regulatory events like phosphorylation and apoptosis. This pattern points to a broad role in developmental signaling and lineage specification across tissues, rather than a single tissue-specific function.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035329","count":14},{"id":"GO:0030216","count":14},{"id":"GO:0060044","count":14},{"id":"GO:0090263","count":14},{"id":"GO:0006915","count":14}]},{"hash":"671644946002257273","title":"Membrane transporters for diverse substrates","description":"The GO terms are dominated by transmembrane transport across a variety of substrates (proline, galactose, nitrite, nitrate, vitamins, xenobiotics, etc.), indicating a cluster of transporter proteins moving diverse solutes across membranes. A single metabolic term (fucose metabolic process) appears ancillary, likely tied to transporter-associated metabolism rather than redefining the cluster\u2019s core function. Therefore, labeling these proteins as membrane transporters for diverse substrates best captures the common theme.","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015824","count":3},{"id":"GO:0035461","count":3},{"id":"GO:0006004","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0035725","count":3}]},{"hash":"2234878337178956748","title":"Wnt Secretion and ER-Golgi Trafficking in Development","description":"The top terms center on regulation of Wnt protein secretion and components of the secretory pathway (ER-to-Golgi transport, COPI vesicles, ER exit, and ER retention), plus developmental patterning terms (somite axis specification, dorsal/ventral axis, placenta development). This suggests a cluster of proteins that coordinate secretory trafficking crucial for Wnt signaling during development, with some related reproductive/developmental processes. ","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0061357","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0048205","count":3},{"id":"GO:0032525","count":3},{"id":"GO:0006621","count":3}]},{"hash":"790434826076220874","title":"Synapse development and spine morphogenesis","description":"The cluster is dominated by GO terms tied to neuronal synapse formation and maturation, including dendritic spine morphogenesis, synapse organization, and long-term synaptic potentiation, along with corpus callosum development and Rho-signaling regulation that underpins cytoskeletal changes in spine growth. This combination points to a cohesive theme of neuronal connectivity and synaptic plasticity, with ancillary ECM and receptor signaling components contributing to synapse assembly. ","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060997","count":9},{"id":"GO:0016525","count":9},{"id":"GO:0050830","count":9},{"id":"GO:0060291","count":8},{"id":"GO:0050808","count":8}]},{"hash":"1132892225012967028","title":"Vesicle trafficking and endomembrane transport","description":"GO terms cluster around vesicle transport within the endomembrane system (ER\u2013Golgi, Golgi\u2013vacuole, endocytosis, retrograde routes, and vesicle budding/exocytosis), with some signals related to neural vesicle processes and acrosome-related exocytosis. The dominant theme is intracellular vesicle trafficking and membrane trafficking pathways.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0006897","count":4},{"id":"GO:0032258","count":4},{"id":"GO:0007340","count":4},{"id":"GO:0006896","count":3}]},{"hash":"1089711510221354677","title":"Neurodevelopment and Immune-Vascular Signaling","description":"The cluster features GO terms tied to development (multicellular organism development, cell differentiation), neural-specific processes (substantia nigra development, long-term synaptic potentiation), and vascular/immune signaling (angiogenesis, adaptive immune response, leukotriene biosynthetic process, renin-angiotensin regulation), suggesting proteins involved in coordinated neurodevelopment with vascular and immune system cross-talk.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0002250","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0021762","count":4}]},{"hash":"1245248744079434523","title":"Chromatin regulation and actin signaling","description":"This cluster centers on chromatin-related processes (DNA-templated transcription, histone acetylation) alongside cytoskeletal and signaling dynamics (Arp2/3 actin nucleation, GTPase activity regulation, and mRNA transport). The combination suggests a theme of coordinating gene expression with cytoskeletal remodeling and signaling, with some developmental and immune context terms present as broader functions. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0043966","count":3},{"id":"GO:0061087","count":3},{"id":"GO:2000601","count":3},{"id":"GO:0050731","count":3}]},{"hash":"1296506957688689858","title":"Rho GTPase Signaling and Endosomal Trafficking","description":"The top GO terms cluster around regulation of Rho protein signal transduction and GTPase activity, plus downstream ERK signaling, endosome organization and vesicle dynamics (including synaptic vesicle budding). IGF receptor signaling and sodium transport regulation further suggest a general role in membrane-associated signaling and trafficking. Overall, this set points to a module coordinating small GTPase\u2013mediated signaling with endosomal/vesicular processes rather than a single pathway.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0010796","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0060313","count":4},{"id":"GO:0043314","count":4}]},{"hash":"2179318163872795137","title":"Macrophage/Mast cell signaling and migration","description":"This cluster emphasizes signaling pathways and processes tied to immune cells, especially macrophages and mast cells. Terms include M-CSF\u2013driven responses, KIT signaling, mast cell activation regulation, diapedesis, and ERK/STAT signaling, all linked to immune cell activation and movement, with supporting roles from actin cytoskeleton remodeling and vesicle transport underpinning migration and secretion.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0033007","count":2},{"id":"GO:0050904","count":2}]},{"hash":"1896131011530640339","title":"Immune signaling and inflammatory stress responses","description":"GO terms center on immune signaling and inflammatory responses (Th1-type immunity, interferon production, NF-kB/JNK regulation) and stress-related processes (xenobiotic response, angiogenesis, ubiquitination). This suggests a cluster of proteins involved in immune signaling and cellular stress pathways, rather than a single, cohesive metabolic function.","confidence":"Medium","size":21,"edges":29,"triangles":0,"max_degree":17,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:0042088","count":4},{"id":"GO:0051966","count":4},{"id":"GO:0046330","count":3},{"id":"GO:0045766","count":3}]},{"hash":"977162267605363703","title":"RNA Pol II Transcription Regulation in Development","description":"The top terms are dominated by positive and negative regulation of transcription by RNA polymerase II, indicating a core theme of transcriptional control. Associated developmental terms (multicellular growth, midbrain development, trophoblast differentiation) suggest this regulation is linked to developmental processes, with other terms like digestion and coagulation reflecting broader physiological contexts. Overall, transcription regulation in developmental settings best explains this cluster.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0045944","count":7},{"id":"GO:0035264","count":6},{"id":"GO:0060707","count":6},{"id":"GO:0030901","count":6}]},{"hash":"1814454736680908363","title":"GPCR-Mediated Signaling and Peptide Responses","description":"The top GO terms strongly point to GPCR-driven signaling and downstream physiological responses: repeated emphasis on positive regulation of GPCR signaling, receptor transactivation linked to GPCR pathways, and a notable association with peptide-response processes. Additional terms (gastric acid secretion, visual perception, inflammatory response, astrocyte chemotaxis) reflect tissue- and process-wide consequences commonly governed by GPCR signaling, supporting a cohesive theme around GPCR-mediated communication across tissues.","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":17},{"id":"GO:0007596","count":16},{"id":"GO:0007601","count":16},{"id":"GO:0010513","count":16},{"id":"GO:2000458","count":16}]},{"hash":"225024710867720697","title":"GPCR-cAMP signaling in cardiovascular and sensory responses","description":"This cluster is dominated by GO terms for GPCR signaling and activation of adenylate cyclase, pointing to cAMP-mediated pathways that influence blood pressure and cardiovascular regulation. The presence of related terms like Rho signaling, and sensory-related terms (pain, vision) alongside metabolic/thermogenic or temperature-response terms suggests a broader signaling module that impacts vascular and sensory biology. While some terms are more general cellular processes (e.g., electron transport), the core theme centers on GPCR-driven signaling and its cardiovascular/sensory associations.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":16},{"id":"GO:0022900","count":16},{"id":"GO:0010579","count":16},{"id":"GO:0007190","count":12},{"id":"GO:0035025","count":11}]},{"hash":"1405649649839682653","title":"Neuronal signaling and sensory perception","description":"This set is dominated by signaling-related GO terms, including dopamine receptor signaling, neuropeptide signaling, prostaglandin response, and regulation of PI biosynthesis, plus sensory perception terms (pain and vision) and astrocyte chemotaxis. Together these indicate a cluster centered on neuronal signaling and sensory processing; the other terms are less central.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008283","count":14},{"id":"GO:0071380","count":14},{"id":"GO:0007191","count":14},{"id":"GO:0007596","count":14},{"id":"GO:0007218","count":14}]},{"hash":"751523605176548707","title":"Embryonic development and organ morphogenesis","description":"The top GO terms point to developmental processes across multiple tissues: cartilage morphogenesis, left-right pattern formation, endocardial cushion EMT, placenta/embryo development, pancreatic endocrine development, CNS development, and endocrine system development. This suggests a cohesive theme of embryonic organogenesis and tissue differentiation rather than a single molecular function. Confidence: Medium","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060536","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0003323","count":3}]},{"hash":"2296183077953834975","title":"Translation initiation and mRNA splicing","description":"The cluster is dominated by GO terms around translation initiation and reinitiation (formation of preinitiation complex, reinitiation, IRES-dependent initiation, viral reinitiation, regulation of initiation) and by mRNA splicing via spliceosome, suggesting a cohesive set of proteins involved in protein synthesis initiation and RNA processing. A few other terms (skeletal development, histone acetylation, gastrulation) appear less prominently and may reflect broader annotations, but the core signal points to translation machinery and RNA processing functions.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0001731","count":6},{"id":"GO:0002188","count":6},{"id":"GO:0000398","count":5},{"id":"GO:0075522","count":4},{"id":"GO:0006378","count":4}]},{"hash":"58982760986371649","title":"Neural development and apoptotic signaling","description":"GO terms strongly point to nervous system development (spinal cord and forebrain development, neural tube closure) and neuronal apoptosis, with an additional hint of TGF-beta\u2013related responses. A few terms are less directly connected (e.g., T cell receptor signaling), but the dominant theme is neural development and regulation of cell survival, supporting a cohesive neural-development/ apoptosis-focused cluster.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0021510","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0007584","count":3}]},{"hash":"937564482684217245","title":"Wnt Signaling Regulation and Cell Cycle Control","description":"The top GO terms highlight both positive and negative regulation of canonical Wnt signaling, together with regulation of G1/S cell cycle transition and EMT processes, pointing to proteins that modulate signaling pathways to influence cell fate and proliferation. Additional terms like GTPase activity regulation and translation appear, but the strongest cohesive theme is modulation of Wnt signaling and its downstream effects on cell cycle and adhesion. Confidence: Medium","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050907","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0031532","count":2}]},{"hash":"1966260078447334032","title":"Ribosome biogenesis and translation","description":"The top GO terms are dominated by translation (GO:0006412) and ribosome assembly (GO:0042255), with cleavage in ITS2 (GO:0000448) indicating rRNA processing, all pointing to ribosome formation and protein synthesis. Additional RNA processing terms (siRNA processing, miRNA regulation) align with RNA biology linked to ribosome function, while a few antiviral/antibiotic response terms reflect broader stress or host RNA metabolism connections. Overall, the cluster centers on ribosome production and translation machinery.","confidence":"High","size":20,"edges":175,"triangles":975,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":13},{"id":"GO:0046677","count":7},{"id":"GO:0042255","count":3},{"id":"GO:0000448","count":3},{"id":"GO:0046726","count":2}]},{"hash":"460255553070310610","title":"Mitochondrial protein import and Complex I assembly","description":"This cluster centers on mitochondrial function, with GO terms for protein import into the mitochondrial matrix, assembly of the respiratory chain complex I, proton transmembrane transport, and related stress responses, suggesting roles in mitochondrial protein handling and respiration. The translation term may reflect mitochondrial or cytosolic translation; a few terms appear noisy (e.g., CNS development). Overall, the theme is mitochondrial maintenance and energy production.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:1902600","count":2},{"id":"GO:0007417","count":2},{"id":"GO:0030150","count":2},{"id":"GO:0032981","count":2}]},{"hash":"1243908744975721892","title":"Epithelial polarity and tissue morphogenesis","description":"The prominent GO terms point to establishment of epithelial/endothelial barriers and cell polarity, together with organ and bone development and actin cytoskeleton organization, defining a coherent theme of tissue morphogenesis and structural organization; a few terms related to synaptic assembly and immune signaling appear as less central but not contradictory.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0090162","count":15},{"id":"GO:0030890","count":15},{"id":"GO:0090557","count":15},{"id":"GO:0060348","count":15},{"id":"GO:1903764","count":14}]},{"hash":"1767171677404222480","title":"RNA Processing and Transcription Regulation","description":"This cluster is driven by RNA metabolism and gene-expression control terms: rRNA maturation, spliceosome-mediated splicing, pre-miRNA processing, and transcription regulation (DNA-templated transcription, termination/antitermination). The co-occurrence of RNA processing and transcriptional control terms suggests a cohesive theme around processing of RNA and regulation of transcription, with translation appearing as a more general housekeeping process. ","confidence":"Medium","size":20,"edges":107,"triangles":299,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0030490","count":5},{"id":"GO:0045292","count":5},{"id":"GO:0031054","count":4},{"id":"GO:0006351","count":4}]},{"hash":"1464977044553140332","title":"Ribosome Biogenesis and Translation","description":"The dominant GO terms are all tied to protein synthesis and ribosome biology (translation, mitochondrial translation, ribosome biogenesis, ribosome disassembly, and translational fidelity), indicating a cluster focused on the ribosome machinery and the translation process across cytosolic and mitochondrial contexts. Despite a few mixed terms, the core theme is clear: components and processes involved in assembling and operating ribosomes and carrying out translation.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":15},{"id":"GO:0032543","count":2},{"id":"GO:0090305","count":2},{"id":"GO:0006259","count":2},{"id":"GO:0046677","count":2}]},{"hash":"641532779872262196","title":"Ubiquitin-Proteasome Regulation in Neural Development","description":"Top GO terms emphasize ubiquitin-dependent protein degradation (ubiquitin tagging, SCF-dependent proteasomal degradation, polyubiquitination), suggesting a proteostasis-centric cluster. Several terms relate to neural development and synapse formation (synapse assembly, initiation of neural tube closure) and cytoskeletal dynamics (microtubule polymerization), implying proteolysis-linked regulation of neuronal development and connectivity. A few terms on circadian rhythm and stress responses are present but do not outweigh the dominant theme. High","confidence":"","size":20,"edges":4,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:1903378","count":10},{"id":"GO:0042752","count":9},{"id":"GO:0071406","count":8},{"id":"GO:0031146","count":8}]},{"hash":"1249365169382504308","title":"Developmental growth signaling and cell cycle","description":"The top GO terms cluster around DNA replication, centrosome cycle, and regulation of growth via Wnt and Hippo pathways, plus developmental processes like embryonic cranial skeleton morphogenesis and keratinocyte differentiation. This suggests a group of proteins coordinating cell proliferation with differentiation during development through conserved signaling networks.","confidence":"Medium","size":20,"edges":92,"triangles":173,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0010571","count":10},{"id":"GO:0006260","count":10},{"id":"GO:0048701","count":10},{"id":"GO:0007098","count":10},{"id":"GO:0035329","count":9}]},{"hash":"946649084680229268","title":"Cerebellar Neuron Development and Bergmann Glia Differentiation","description":"The cluster\u2019s top GO terms are centered on cerebellar development, including neuron development, cerebellar cortex formation, and Bergmann glial cell differentiation, indicating a cohesive role in cerebellar neurodevelopment and glial maturation. Other signals (e.g., insulin signaling, T cell signaling) appear secondary and do not override the cerebellar-focus theme.","confidence":"High","size":20,"edges":125,"triangles":370,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048666","count":13},{"id":"GO:0032435","count":13},{"id":"GO:0060020","count":10},{"id":"GO:0021697","count":10},{"id":"GO:2001275","count":10}]},{"hash":"1141006929865038187","title":"Transcription-Driven Multi-Lineage Differentiation","description":"Top GO terms include transcription by RNA polymerase II and diverse differentiation processes (macrophage differentiation, erythrocyte differentiation, brown fat cell differentiation, brain segmentation, rhombomere 5 development), plus vascular wound healing. This pattern suggests a cluster of proteins involved in broad developmental programs across immune, neural, hematopoietic, and adipose lineages, largely governed by transcriptional regulation. The presence of wound healing hints at tissue remodeling roles during differentiation. Confidence: Medium","confidence":"","size":20,"edges":182,"triangles":1006,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":10},{"id":"GO:0035470","count":7},{"id":"GO:0030225","count":7},{"id":"GO:0006990","count":6},{"id":"GO:1990440","count":6}]},{"hash":"2224062102421954481","title":"Developmental transcriptional regulation and differentiation","description":"This cluster is driven by transcription by RNA polymerase II with strong representation of differentiation and development themes across tissues (myoblast, astrocyte, pancreas development) and morphogenesis (heart valve EMT, body shaping), plus related processes like integrin-mediated adhesion and apoptosis regulation. These together suggest a cohesive group of proteins involved in developmental gene regulation and lineage differentiation rather than a single pathway.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":19},{"id":"GO:2000820","count":16},{"id":"GO:0045663","count":15},{"id":"GO:0003199","count":15},{"id":"GO:0042981","count":15}]},{"hash":"737674242796465043","title":"Rho/Rac GTPase\u2013driven cell migration and lamellipodium assembly","description":"The top GO terms converge on actin cytoskeleton remodeling and small GTPase signaling, especially filopodium/lamellipodium formation, and pathways like Rho/Rac that govern cell movement and adhesion. Although there are a few developmental terms (heart development, IL-4 production), the dominant theme is cytoskeletal dynamics enabling cell migration, justifying a cohesive label focused on GTPase-driven motility.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0046847","count":12},{"id":"GO:1900026","count":12},{"id":"GO:0007507","count":12},{"id":"GO:0016477","count":12},{"id":"GO:0035023","count":12}]},{"hash":"236464992074550199","title":"Unknown","description":"The Top Terms span a wide range of unrelated processes\u2014mitochondrial and peroxisomal protein import, protein unfolding, phosphorylation, metabolism, transcription elongation, DNA damage tolerance, RNA quality control, bacterial competence, and inclusion body dynamics\u2014without a single clear common function tying the proteins together. This lack of a cohesive theme makes a specific, representative label inappropriate.","confidence":"","size":20,"edges":5,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0016310","count":7},{"id":"GO:0006541","count":6},{"id":"GO:0045041","count":5},{"id":"GO:0070987","count":5},{"id":"GO:0090261","count":5}]},{"hash":"543850311126906251","title":"Mitochondrial translation and cristae biogenesis","description":"This cluster is dominated by GO terms tied to mitochondria, including positive regulation of mitochondrial translation, translation and translational elongation, protein insertion into the mitochondrial membrane, and cristae formation. These patterns point to functions in mitochondrial gene expression and inner-membrane biogenesis, making the mitochondrial-centered theme the most representative. Some non-mitochondrial terms (e.g., transcription, IL-4 response) appear but are secondary to the core mitochondrial functions.","confidence":"High","size":20,"edges":186,"triangles":1069,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0070131","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0042407","count":3},{"id":"GO:0071353","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1093288226684334754","title":"Neuronal signaling and mitochondrial regulation","description":"The cluster shows neural functions (fear response, learning, neuron-neuron synaptic transmission) alongside mitochondrial-related processes (protein import into mitochondrial matrix, calcium import into mitochondrion, regulation of autophagy of mitochondrion) and ER-Golgi vesicle transport, suggesting proteins involved in neural signaling coupled with mitochondrial maintenance and vesicular trafficking.","confidence":"Medium","size":20,"edges":30,"triangles":2,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0001662","count":4},{"id":"GO:0007612","count":3},{"id":"GO:2000378","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0006820","count":2}]},{"hash":"2213314507594132268","title":"Adhesion and ECM remodeling in development","description":"This cluster centers on strong signals for cell-cell and cell-matrix adhesion, plus several development-related morphogenesis processes (coronary artery morphogenesis, rhombomere boundary formation, palatal shelf morphogenesis) and hyaluronan biosynthesis, indicating a theme of adhesion-driven extracellular matrix remodeling during vertebrate development. Some immune/neuronal terms are present but appear supplementary to the core adhesion/ECM development signal.","confidence":"Medium","size":20,"edges":5,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007157","count":17},{"id":"GO:0007160","count":17},{"id":"GO:0001867","count":16},{"id":"GO:0031104","count":15},{"id":"GO:0060982","count":15}]},{"hash":"287212179223068463","title":"GTPase Signaling and Cytoskeletal Remodeling","description":"The cluster is dominated by GO terms for small GTPase\u2013mediated signaling, regulation of GTPase activity, and cytoskeletal processes (filopodium assembly, cell spreading) along with synaptic plasticity (long-term potentiation). Immune and heart-development terms appear as contextual functions of signaling pathways but the core theme is GTPase-driven signaling that governs cytoskeletal remodeling in neural and immune contexts.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0032633","count":6},{"id":"GO:0032287","count":6},{"id":"GO:0050731","count":6}]},{"hash":"2062091658474933438","title":"GTPase-ERK signaling regulators","description":"These proteins are enriched for regulation of GTPase activity and the ERK/MAPK signaling cascade, indicating a main function as modulators of mitogen-activated signaling. The additional terms (pain, visual perception, thermogenesis, astrocyte chemotaxis, gastric acid secretion) suggest broader roles in sensory and metabolic regulation that can be linked to signaling contexts, but the strongest signal is MAPK/GTPase regulation, which justifies the label.","confidence":"Medium","size":20,"edges":21,"triangles":0,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":18},{"id":"GO:0070374","count":18},{"id":"GO:0019233","count":18},{"id":"GO:0002024","count":18},{"id":"GO:0071502","count":18}]},{"hash":"364709518676638645","title":"Immune signaling and transcriptional regulation","description":"This cluster is enriched for immune and signaling-related GO terms (NOD2 signaling, NF-kappaB regulation, chemokine production) and for transcriptional control processes (mRNA processing, transcription from RNA Pol II). Calcium import across the membrane also fits into signaling interactions that influence gene expression. The presence of a cell cycle term suggests some involvement in proliferation-linked regulation, but the dominant themes are signaling and transcriptional regulation in response to stimuli. Overall, the label captures the core function of the cluster.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0032088","count":4},{"id":"GO:0006397","count":4},{"id":"GO:2001275","count":3},{"id":"GO:0070431","count":3}]},{"hash":"569066888497862752","title":"Multicellular development and angiogenesis with proliferation","description":"The cluster shows strong representation of multicellular organism development, angiogenesis, and cell division/cycle terms, indicating a developmental and proliferative theme with vascular growth. Telomere maintenance via telomerase supports continued cell proliferation. Some terms (adaptive immune response, sperm\u2013zona binding) are less directly tied to development, suggesting broader functional diversity. Overall, the label captures the core developmental/proliferative signal, with a few outliers.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0001525","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0009408","count":4},{"id":"GO:0032212","count":4}]},{"hash":"1570462400736038212","title":"Photoreceptor GPCR Signaling","description":"The proteins cluster around GO terms for regulation of membrane potential, visual perception, opsin-mediated signaling, adenylate cyclase activation, calcium release, and phosphorylation, indicating a coherent theme of GPCR-driven signaling in photoreceptors and related neural signaling. While a term like heart development appears, the dominant pattern is retinal signal transduction and GPCR/Ca2+ dynamics.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042391","count":18},{"id":"GO:0007601","count":18},{"id":"GO:0007190","count":18},{"id":"GO:0008284","count":18},{"id":"GO:0043547","count":18}]},{"hash":"1687793292301022948","title":"Dopaminergic GPCR Signaling in Neural-Vascular Systems","description":"The top GO terms cluster around G protein-coupled receptor signaling, especially pathways linked to dopamine and neural signaling (e.g., dopaminergic synaptic transmission, GPCR signaling, phosphatidylinositol biosynthesis, Rho signaling), with supporting cues from visual perception and blood pressure regulation, suggesting a broader neural-vascular signaling theme. Some terms (gastric acid secretion, coagulation) are peripheral but do not dominate the cluster, so the core theme remains neural GPCR signaling with vascular regulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":16},{"id":"GO:0022900","count":16},{"id":"GO:0010579","count":16},{"id":"GO:0035025","count":16},{"id":"GO:0001963","count":15}]},{"hash":"1724200321069206573","title":"GTPase signaling and endomembrane trafficking","description":"The cluster centers on Rap and Rab GTPase signaling, endosomal and Golgi membrane traffic, and related cytoskeletal and adhesion processes. The presence of ubiquitination, actin polymerization regulation, adherens junction organization, and growth-related signaling (JUN phosphorylation, CDK activity regulation) supports a cohesive module linking signal transduction with membrane trafficking and cytoskeletal dynamics in multicellular contexts. This combination suggests a functional theme around GTPase-driven signaling coordinating intracellular transport and cell structure during development or growth. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0032486","count":4},{"id":"GO:0048227","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0034332","count":4},{"id":"GO:0035264","count":4}]},{"hash":"874931018814124658","title":"Axon guidance and neuronal development","description":"This cluster is dominated by GO terms related to nervous system development and signaling pathways like Roundabout (ROBO), pointing to axon guidance and neuronal differentiation. Supporting terms such as filopodium assembly and substrate adhesion-dependent spreading suggest active cytoskeletal remodeling and cell migration, which align with neuronal pathfinding and growth cone dynamics. Vesicular trafficking (Golgi to plasma membrane) and nuclear envelope organization further reflect secretory and organelle dynamics common in developing neurons. Some terms (lipoprotein particle assembly, hepatocyte apoptosis) are broader or context-dependent, but do not override the core neuronal development theme.","confidence":"Medium","size":20,"edges":41,"triangles":10,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":7},{"id":"GO:0006893","count":7},{"id":"GO:0097284","count":7},{"id":"GO:0034379","count":6},{"id":"GO:0006998","count":6}]},{"hash":"55688902183394940","title":"Developmental signaling and cytoskeletal dynamics","description":"Based on the top GO terms, the proteins span developmental processes (multicellular organism development, substantia nigra development, ossification) and cytoskeletal/signaling regulation (actin cytoskeleton reorganization, microtubule depolymerization control, GTPase activity, cytokine regulation, and ion-channel clustering). The common thread appears to be roles in development accompanied by cytoskeletal and signaling control, rather than a single, narrow function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0000070","count":2},{"id":"GO:0021762","count":2},{"id":"GO:1900042","count":2},{"id":"GO:0007026","count":2}]},{"hash":"1798967089823994225","title":"Neural signaling and kidney morphogenesis","description":"The top GO terms cluster around neural signaling (pain detection, synaptic plasticity) and renal development/ion transport (potassium/sodium transport, ureteric bud branching), suggesting proteins involved in neuronal signaling with kidney morphogenesis and ion handling, plus regulatory layers like ubiquitination and Rho signaling. Some terms are unrelated outliers (pregnancy, host-mediated viral activation), but the dominant theme ties neural activity to kidney development pathways.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050966","count":2},{"id":"GO:0010163","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0070294","count":2},{"id":"GO:0044829","count":2}]},{"hash":"961431337226472197","title":"Unknown","description":"The set shows a broad mix of biological themes\u2014from neural development and sensory perception to immune defense, reproductive physiology, digestion, and general transcriptional regulation. With no dominant shared process or pathway tying the proteins together, there isn\u2019t a coherent functional theme to name a specific label beyond Unknown.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0030901","count":8},{"id":"GO:0050830","count":6},{"id":"GO:0014068","count":6},{"id":"GO:0007601","count":5}]},{"hash":"1485823025675369147","title":"GPCR-driven signaling and transcriptional regulation","description":"The top GO terms point to intracellular signal transduction with specific receptor-mediated pathways (including adenylate cyclase-activating adrenergic signaling), responses to cocaine and xenobiotics, and both DNA-templated transcription and its regulation. There is a cohesive theme of receptor-driven signaling cascades that trigger transcriptional changes, with elements of blue light signaling and hypoxia sensing, suggesting a broader signaling-to-transcription regulatory program. This justifies a label centered on GPCR-mediated signaling and transcriptional control, though the breadth of terms introduces some variance across contexts.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042220","count":6},{"id":"GO:0035556","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0035690","count":5},{"id":"GO:0016049","count":5}]},{"hash":"1999908864036291294","title":"Sensory Perception and GPCR Signaling","description":"The cluster is dominated by GO terms for pain perception, visual perception, and temperature stimulus response, along with GPCR signaling via the cGMP pathway and membrane potential regulation. These together point to a core theme of neuronal sensory signaling and signal transduction. Some terms like blood coagulation, gastrin-induced secretion, and astrocyte chemotaxis appear less directly connected, suggesting either multifunctional proteins or annotation overlap, but the strongest shared signal is sensory perception and GPCR-mediated signaling.","confidence":"Medium","size":20,"edges":86,"triangles":91,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":17},{"id":"GO:0002024","count":17},{"id":"GO:0071502","count":17},{"id":"GO:0007601","count":16},{"id":"GO:0007199","count":16}]},{"hash":"737693493955862214","title":"Retina Development and Visual Signaling","description":"Most prominent terms relate to vision and retina (retina development in camera-type eye, visual learning, sensory perception of pain). Other terms point to general signaling and metabolism (GPCR signaling, Rho/GTPase regulation, electron transport), but the visual/retinal theme dominates, justifying a vision-focused label.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":9},{"id":"GO:0040015","count":9},{"id":"GO:0035025","count":9},{"id":"GO:0022900","count":9},{"id":"GO:0045777","count":9}]},{"hash":"2070853520541492769","title":"Embryonic morphogenesis and cell adhesion","description":"The terms cluster around development and morphogenesis: multicellular organism development, embryonic cranial skeleton morphogenesis, and blood vessel maturation, complemented by actin cytoskeleton organization and cadherin-mediated cell-cell adhesion, as well as the EGFR signaling pathway. Together these indicate cytoskeletal remodeling and cell movement during embryogenesis and tissue structuring. A few terms like phagocytosis appear but are less central to the core theme. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0030036","count":3},{"id":"GO:1900122","count":3},{"id":"GO:0007173","count":3},{"id":"GO:0048701","count":3}]},{"hash":"2026132569033218335","title":"Neurodevelopment and Cardiac Organogenesis","description":"This cluster shows strong signals for nervous system development and synapse assembly, as well as heart development and broad multicellular organism development, with notable cell adhesion terms, suggesting a vertebrate developmental program spanning neural and cardiac morphogenesis rather than a single pathway.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":12},{"id":"GO:0007399","count":12},{"id":"GO:0007156","count":11},{"id":"GO:0007157","count":10},{"id":"GO:0043931","count":10}]},{"hash":"1660397679592573353","title":"Unknown","description":"The top GO terms include retina development and visual perception, suggesting eye-related roles, but many other terms imply unrelated processes (blood coagulation, gastric acid secretion, inflammatory response, astrocyte chemotaxis, GPCR signaling, heart morphogenesis). Because there isn't a single cohesive biological function tying all 20 proteins together, I cannot assign a confident, specific label.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060041","count":16},{"id":"GO:0007596","count":15},{"id":"GO:0007601","count":15},{"id":"GO:0010513","count":15},{"id":"GO:2000458","count":15}]},{"hash":"986185512379514833","title":"Cell cycle, apoptosis, and phospholipid biosynthesis","description":"The top GO terms center on cell cycle and cell division, plus extrinsic apoptotic signaling, and also lipid biosynthesis pathways (choline/ethanolamine metabolism and the CDP-choline pathway). This points to a cluster of proteins involved in cell fate decisions and membrane lipid production, justifying a label that combines these themes.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0008625","count":2},{"id":"GO:0019695","count":2},{"id":"GO:0006646","count":2}]},{"hash":"1032640111043967646","title":"Cytoskeleton-Driven Development Across Tissues","description":"The top GO terms point to cytoskeletal processes (microtubule polarity, axonal transport) and tissue development programs (skin/keratinocytes, lens, astrocytes, axonogenesis). This suggests a cluster of proteins whose functions center on cytoskeleton organization and its role in shaping development and cellular architecture across multiple tissues rather than a single tissue- or process-specific pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061436","count":3},{"id":"GO:0048936","count":3},{"id":"GO:0051546","count":3},{"id":"GO:0070307","count":3},{"id":"GO:0014002","count":3}]},{"hash":"1427719273393105165","title":"Craniofacial skeletal development and axon guidance","description":"The terms cluster around cranial bone formation and morphogenesis (bone mineralization, ossification, embryonic cranial skeleton morphogenesis) and neural patterning in the head (trigeminal nerve organization, branchiomotor neuron axon guidance, semaphorin-plexin signaling). This points to a coherent theme of coordinated craniofacial skeletal development with neural wiring, despite a few broader development terms appearing as background noise.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0007275","count":8},{"id":"GO:0030282","count":5},{"id":"GO:0014068","count":4},{"id":"GO:0048485","count":4},{"id":"GO:0003323","count":4}]},{"hash":"1460148446517468351","title":"Ubiquitin and Sumoylation Regulation of Gene Expression","description":"The cluster is enriched for GO terms on deubiquitination, protein sumoylation, and ubiquitin-dependent ERAD, which together point to post-translational modification-driven regulation of protein fate. Additionally, transcription regulation by RNA polymerase II and related gene-expression terms suggest these proteins influence gene expression downstream of these modification pathways. Some terms touch autophagy, cell division, and signaling, but the strongest signal is the ubiquitin/SUMO regulatory axis.","confidence":"High","size":19,"edges":169,"triangles":936,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":9},{"id":"GO:0016925","count":8},{"id":"GO:0030433","count":8},{"id":"GO:0006357","count":7},{"id":"GO:1901097","count":7}]},{"hash":"2095951867874790721","title":"RNA splicing and translation regulation","description":"The top GO terms show strong representation of spliceosome-mediated mRNA splicing and its regulation, plus terms related to translation initiation and reinitiation (including IRES-driven initiation and preinitiation complex formation). This suggests a cluster of RNA-processing factors that also coordinate or influence translation control, representing a regulatory module linking splicing with translation.","confidence":"High","size":19,"edges":150,"triangles":699,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":8},{"id":"GO:0048025","count":6},{"id":"GO:0000245","count":6},{"id":"GO:0075522","count":5},{"id":"GO:0000381","count":5}]},{"hash":"344737260624739727","title":"Ribosome and Translation Machinery","description":"The top GO terms are dominated by translation-related processes (translation, initiation, termination, elongation, and fidelity regulation) and ribosome disassembly, indicating a cluster of proteins involved in protein synthesis and ribosome dynamics. Secondary terms related to antibiotic response and viral replication likely reflect stress or host-virus interaction contexts affecting translation, but the core signal is a translation/ribosome-focused module.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":19},{"id":"GO:0046677","count":10},{"id":"GO:0032790","count":9},{"id":"GO:0006415","count":9},{"id":"GO:0045901","count":9}]},{"hash":"1496638601765887120","title":"Ubiquitin-Mediated Protein Degradation","description":"Most top terms are centered on ubiquitination and ubiquitin-dependent protein catabolic processes (including ubiquitination and K48-linked ubiquitination), indicating the proteins cluster around targeted protein turnover via the ubiquitin-proteasome system. A few other terms (circadian regulation, apoptotic control, etc.) appear less directly connected but may reflect broader regulatory roles of ubiquitin-related proteins. Overall, the dominant theme is ubiquitin-mediated protein homeostasis.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0016567","count":6},{"id":"GO:0051260","count":5},{"id":"GO:0070936","count":5},{"id":"GO:0042752","count":5}]},{"hash":"1350226450082908993","title":"Neural development and axonogenesis","description":"The cluster is enriched for neuronal differentiation and axon-related processes (axonogenesis, motor neuron differentiation, interneuron specification, Purkinje cell differentiation) with supportive actomyosin structure organization, suggesting coordinated neural development and neurite outgrowth. ","confidence":"High","size":19,"edges":146,"triangles":629,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0031032","count":12},{"id":"GO:0048936","count":12},{"id":"GO:0032458","count":12},{"id":"GO:0021526","count":12},{"id":"GO:0021521","count":12}]},{"hash":"671753060379984486","title":"Diverse Metabolism and Transport","description":"GO terms point to various metabolic activities (valine and serine biosynthesis, dopamine and stilbene catabolism) and redox processes, alongside a zinc ion transmembrane transport function and some regulatory/hormonal responses (testosterone). The diversity suggests a cluster of proteins involved in general metabolism, small-molecule turnover, and membrane transport rather than a single, tightly bound pathway.","confidence":"Medium","size":19,"edges":87,"triangles":228,"max_degree":17,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0017000","count":5},{"id":"GO:0006574","count":5},{"id":"GO:0042420","count":5},{"id":"GO:0097755","count":4}]},{"hash":"2286897406821696670","title":"Ribosome biogenesis and rRNA maturation","description":"Dominant terms cluster around translation and ribosome assembly: multiple entries for translation, ribosome biogenesis, and rRNA maturation/pseudouridine synthesis (including SSU- and LSU-rRNA maturation). This points to a functional group of proteins involved in ribosome production and RNA modification, rather than signaling or fertilization processes.","confidence":"High","size":19,"edges":141,"triangles":603,"max_degree":18,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":15},{"id":"GO:0031564","count":5},{"id":"GO:0000462","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0046330","count":4}]},{"hash":"2078329263051249115","title":"Rho signaling in spine morphogenesis","description":"The cluster centers on Rho-mediated signal transduction and cytoskeletal remodeling, with strong representation of dendritic spine morphogenesis and protein localization to synapse. Terms such as receptor clustering and positive regulation of canonical Wnt signaling further support roles in synaptic organization and neuronal development. Some terms (angiogenesis, defense response to Gram-positive bacteria) appear peripheral to this core theme, likely reflecting broader signaling crosstalk.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007266","count":17},{"id":"GO:0045766","count":16},{"id":"GO:0043113","count":16},{"id":"GO:0014068","count":16},{"id":"GO:0050830","count":16}]},{"hash":"1071630937815333009","title":"Glycolysis and TCA Core Metabolism","description":"Top GO terms indicate strong enrichment for glycolytic and tricarboxylic acid cycle processes, plus related cofactor biosynthesis (thiamine biosynthesis, protein lipoylation, and 2-oxoglutarate metabolism), suggesting a cluster of enzymes central to energy production and carbon flux. An outlier term related to olfactory development likely reflects annotation noise rather than true function. High","confidence":"","size":19,"edges":168,"triangles":920,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":10},{"id":"GO:0006096","count":7},{"id":"GO:0055114","count":6},{"id":"GO:0009228","count":6},{"id":"GO:0006782","count":5}]},{"hash":"1123411356704966316","title":"Neural crest development and migration","description":"The top GO terms point to neural crest\u2013related processes, notably melanocyte differentiation and neural crest cell migration in the sympathetic nervous system, along with cytoskeletal remodeling and membrane repair that support cell movement and development. This suggests a cohesive program governing neural crest\u2013derived differentiation and directed migration. ","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001778","count":3},{"id":"GO:0007026","count":3},{"id":"GO:0007182","count":3},{"id":"GO:0030318","count":3},{"id":"GO:0030035","count":3}]},{"hash":"305497219752461727","title":"Glutamatergic Synaptic Transmission and Plasticity","description":"The top GO terms are dominated by synaptic functions: neurotransmitter secretion, synapse organization, long-term potentiation, and specifically glutamatergic transmission, all pointing to neuronal synaptic signaling and plasticity. While there are a few ECM and lipid biosynthesis terms that can influence synapses, the central theme across terms is synaptic communication and plastic changes. Confidence: High","confidence":"","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007269","count":11},{"id":"GO:0030199","count":10},{"id":"GO:0090153","count":10},{"id":"GO:0043065","count":10},{"id":"GO:0060291","count":10}]},{"hash":"735247243532592055","title":"Nuclear mRNA splicing and transcription regulation","description":"The cluster is dominated by spliceosome- and mRNA processing\u2013related terms (mRNA splicing via spliceosome, spliceosomal conformational changes, nonsense-mediated decay, mRNA export from the nucleus) and by regulation of transcription by RNA polymerase II (transcription start site selection, negative regulation of transcription by RNAP II). This combination points to a cohesive nuclear RNA processing and transcription-control module. Some outlier terms (exploration behavior, selenite response) appear unrelated but do not change the core interpretation.","confidence":"High","size":19,"edges":74,"triangles":112,"max_degree":16,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":8},{"id":"GO:0000122","count":7},{"id":"GO:0000184","count":7},{"id":"GO:0000393","count":7},{"id":"GO:0060303","count":7}]},{"hash":"1208322471499660986","title":"Neural development and synaptic signaling","description":"The top GO terms point strongly to nervous system development and function: visual perception, long-term synaptic potentiation, excitatory postsynaptic potentials, axonogenesis, and Schwann cell development. These together suggest roles in neural connectivity, synaptic plasticity, and glial-supportive development. A few terms like heart development or mitotic cell cycle may reflect broader developmental roles or pleiotropy, but the dominant signal is neural development and synaptic signaling.","confidence":"High","size":19,"edges":24,"triangles":20,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":13},{"id":"GO:0043065","count":13},{"id":"GO:0060291","count":13},{"id":"GO:0060079","count":13},{"id":"GO:0014044","count":13}]},{"hash":"423372196934493938","title":"Ubiquitin-Dependent Protein Degradation and Immune Signaling","description":"Most frequent terms point to ubiquitin-mediated protein turnover (K48/K63 polyubiquitination, ubiquitin-dependent catabolic process) and immune signaling (innate immunity, B cell receptor, TNF pathway). The presence of antiviral host defense and circadian rhythm regulation terms, commonly regulated by ubiquitin pathways, reinforces a single theme around ubiquitin-controlled degradation linked to immune responses.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:1902187","count":7},{"id":"GO:0070936","count":7},{"id":"GO:0070534","count":7},{"id":"GO:1903265","count":6}]},{"hash":"1968795660189971580","title":"Ubiquitin-Mediated TNF and NF-kappaB Signaling","description":"This cluster centers on ubiquitin-dependent signaling related to innate immunity, with strong representation of ubiquitination processes (K63-linked ubiquitination, autoubiquitination) and pathways such as TNF-mediated signaling and NF-kappaB regulation (I-kappaB phosphorylation), plus defense against virus and JNK cascade modulation. Together these terms depict a cohesive theme of ubiquitin-modulated innate immune signaling rather than general metabolism. Edge absence suggests annotation rather than interactions.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0045087","count":10},{"id":"GO:0051607","count":9},{"id":"GO:0051092","count":9},{"id":"GO:1903721","count":8}]},{"hash":"287906460991727588","title":"Neurodevelopmental transcription and morphogenesis","description":"The dominant terms are DNA-templated transcription and various developmental processes, with strong emphasis on neural development (dendrite morphogenesis, neural tube closure) and related morphogenesis (skeletal development). Ion transport (potassium) aligns with neuronal signaling, while cadmium response and immune defense appear peripheral to the main neurodevelopmental theme.","confidence":"High","size":19,"edges":53,"triangles":56,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":17},{"id":"GO:0007275","count":17},{"id":"GO:0043552","count":15},{"id":"GO:0019233","count":15},{"id":"GO:0006813","count":15}]},{"hash":"866674972629217549","title":"Ubiquitin-Dependent Antiviral Immune Signaling","description":"The cluster is dominated by ubiquitination-related GO terms (ubiquitin-dependent protein catabolic process, protein ubiquitination, autoubiquitination, polyubiquitination, and K63-linked ubiquitination) alongside innate immune and antiviral defense terms (innate immune response, defense response to virus) and regulation of the JNK cascade. This points to a cohesive theme of ubiquitin-mediated regulation of immune signaling and antiviral responses, with vitamin D response appearing as a secondary association.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0051865","count":7},{"id":"GO:0016567","count":7},{"id":"GO:0030433","count":6},{"id":"GO:0033280","count":6}]},{"hash":"1515077703218623103","title":"Immune response regulation and phagocytosis","description":"This cluster is enriched for GO terms tied to both innate and adaptive immunity (complement activation, innate/adaptive immune responses, negative regulation of T cell proliferation), phagocytosis and monocyte trafficking (phagocytosis, monocyte extravasation), and bacterial sensing (detection of lipoteichoic acid), suggesting coordinated immune activation, regulation, and phagocytic activity.","confidence":"High","size":19,"edges":11,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":7},{"id":"GO:0046007","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0002250","count":6},{"id":"GO:0007157","count":6}]},{"hash":"2231184821961512458","title":"Visual system development and retinal neuron axon guidance","description":"These proteins are dominated by neural development and visual system wiring terms: central nervous system projection neuron axonogenesis, retinal ganglion cell axon guidance, fasciculation of sensory neuron axon, and visual perception. While a couple of terms are less related (e.g., heart development and metabolic regulation), the strongest signal ties to the formation and pathfinding of visual neurons, especially retinal pathways. Confidence: High","confidence":"","size":19,"edges":133,"triangles":469,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021952","count":19},{"id":"GO:0007601","count":19},{"id":"GO:0045819","count":19},{"id":"GO:1901196","count":19},{"id":"GO:1990803","count":19}]},{"hash":"1695033096850101038","title":"Neurotransmission and synapse development","description":"The cluster is strongly enriched for neural signaling terms: neurotransmitter secretion, dopamine secretion, synapse assembly, and neurogenesis, pointing to a core theme of neuronal communication and synaptic formation. While other terms (insulin secretion, Rho signaling, ribophagy, apoptosis, and development) are present, they appear peripheral to the dominant neural function, justifying a label focused on neurotransmission and synapse development.","confidence":"High","size":19,"edges":159,"triangles":777,"max_degree":18,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0032024","count":6},{"id":"GO:0034517","count":5},{"id":"GO:0008284","count":5},{"id":"GO:0006915","count":5}]},{"hash":"1123229953101229835","title":"PI3K/ERK signaling and synapse assembly regulation","description":"Most prominent terms are positive regulation of the PI3K/AKT signaling and ERK/MAPK cascade, along with positive regulation of synapse assembly, indicating a cluster of proteins that modulate key signaling pathways and neural synapse formation. Additional terms (cellular response to lipopolysaccharide, mechanical stimulus, angiogenesis) suggest broader signaling context, but the core theme is regulation of signal transduction related to synapse development.","confidence":"High","size":19,"edges":135,"triangles":493,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051897","count":6},{"id":"GO:0071222","count":6},{"id":"GO:0042517","count":5},{"id":"GO:0014068","count":5},{"id":"GO:0071260","count":5}]},{"hash":"35854826697005076","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":23,"triangles":8,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006469","count":12},{"id":"GO:0071222","count":6},{"id":"GO:0050729","count":6},{"id":"GO:0019800","count":6},{"id":"GO:0007409","count":6}]},{"hash":"1586074901451084854","title":"Neural development and neurogenesis","description":"The cluster is strongly enriched for nervous system development, neurogenesis, and neuron axonogenesis terms, with supporting signaling-related terms (STAT tyrosine phosphorylation, adenosine receptor signaling) and angiogenesis, pointing to a cohesive theme of neural development and maturation. While a few terms (e.g., vagina development) are peripheral, the dominant signals clearly reflect neural development processes.","confidence":"High","size":19,"edges":141,"triangles":569,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":7},{"id":"GO:0001525","count":7},{"id":"GO:0008284","count":6},{"id":"GO:0006915","count":6},{"id":"GO:0060068","count":6}]},{"hash":"1634141268700483868","title":"Dopaminergic Neuron Signaling and Differentiation","description":"Core terms point to dopamine-related regulation in neurons\u2014dopaminergic neuron differentiation and regulation of dopamine secretion\u2014alongside a linked serotonin uptake regulation signal, suggesting a cluster centered on dopaminergic/serotonergic neurotransmission and neuronal development. Supporting terms about xenobiotic response, iron ion response, and proteostasis reflect cellular context and signaling regulation rather than metabolic pathways.","confidence":"Medium","size":19,"edges":8,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043154","count":4},{"id":"GO:0042493","count":4},{"id":"GO:0031648","count":3},{"id":"GO:0051612","count":3},{"id":"GO:1904715","count":3}]},{"hash":"877978829519292801","title":"Retina Development and Visual Perception","description":"Dominant GO terms are retina development in camera-type eye and visual perception, indicating the cluster is centered on eye/retina-related functions. While other terms touch on signaling and inflammatory processes, they do not override the strong retina- and vision-related signal, supporting this label.","confidence":"High","size":19,"edges":165,"triangles":870,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008284","count":18},{"id":"GO:0043547","count":18},{"id":"GO:0060041","count":18},{"id":"GO:0008283","count":18},{"id":"GO:0007596","count":17}]},{"hash":"1702283093634078510","title":"Nuclear receptor\u2013driven lipid metabolism and development","description":"The cluster contains several lipid-related terms (cholesterol homeostasis, LDL particle clearance, bile acid signaling) and a nuclear receptor\u2013mediated signaling pathway, pointing to nuclear receptor\u2013regulated lipid metabolism. Additionally, the presence of reproductive and skeletal development terms (embryo implantation, male gonad and vagina development, growth plate cartilage development) suggests developmental roles that could be hormonally controlled via nuclear receptors. Some terms like lipopolysaccharide response and CNS axonogenesis are less directly tied but may reflect broader functional contexts or annotation overlap. ","confidence":"Medium","size":19,"edges":43,"triangles":8,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071222","count":6},{"id":"GO:0042632","count":5},{"id":"GO:0007566","count":5},{"id":"GO:0008584","count":5},{"id":"GO:0060068","count":5}]},{"hash":"674349694921427190","title":"Fatty acid metabolism and lipid biosynthesis","description":"This cluster's top GO terms are dominated by fatty acid metabolism (long-, medium-, very long-chain) and lipoteichoic acid biosynthesis, suggesting a unifying theme around lipid biosynthesis. Some plant-specific terms (seed germination, seed coat development, phenylpropanoid metabolism) appear as noise, but the strongest signal centers on lipid processing, making the label appropriate though not perfectly cohesive.","confidence":"Medium","size":19,"edges":109,"triangles":413,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070395","count":8},{"id":"GO:0019290","count":7},{"id":"GO:0001676","count":7},{"id":"GO:0090410","count":7},{"id":"GO:0010030","count":7}]},{"hash":"1593254447930164697","title":"Unknown","description":"The top terms are a mix of chromatin formation, angiogenesis, plant leaf development, and various biosynthetic and metabolic processes (including bacterial mycothiol and arginine/glucosamine pathways), with several obsolete terms. There is no clear, single functional theme tying these proteins together, suggesting a heterogeneous cluster rather than a cohesive biological group.","confidence":"","size":19,"edges":9,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":7},{"id":"GO:0001525","count":6},{"id":"GO:0017198","count":6},{"id":"GO:0018003","count":6},{"id":"GO:0048478","count":5}]},{"hash":"1788410157484479093","title":"Chromatin remodeling and transcriptional regulation in development","description":"This cluster centers on chromatin remodeling and transcription control, as shown by top terms for negative regulation of transcription by RNA polymerase II, DNA-templated transcription, and chromatin remodeling. The accompanying developmental morphogenesis terms (endocrine pancreas development, digestive tract morphogenesis, atrial septum morphogenesis) and processes like endothelial chemotaxis and IL-4 response suggest a broader theme of gene regulation shaping organogenesis and tissue formation, with Wnt signaling modulation reinforcing developmental signaling contexts.","confidence":"High","size":19,"edges":71,"triangles":98,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0043044","count":13},{"id":"GO:2001111","count":12},{"id":"GO:0031018","count":10},{"id":"GO:0035767","count":10}]},{"hash":"883539733148753438","title":"Nuclear RNA processing and ribosome assembly","description":"Many top GO terms cluster around nuclear RNA metabolism and ribosome biogenesis, including spliceosome conformational changes, transcription start site regulation, mRNA export from the nucleus, and ribosome assembly. A few terms like exploration behavior and associative learning are less directly related and may reflect broader annotations, but the dominant signals point to RNA processing and ribosome biogenesis in the nucleus.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000393","count":19},{"id":"GO:0060303","count":19},{"id":"GO:0001178","count":19},{"id":"GO:0016973","count":19},{"id":"GO:1900050","count":19}]},{"hash":"458985917953886077","title":"Membrane transporters for lipids, vitamins, and xenobiotics","description":"The top GO terms point to diverse transmembrane transport functions (vitamin, xenobiotic, phospholipid, cobalt ion, and anion transport) and peroxisomal fatty acid processing, suggesting a cohesive set of membrane transporter proteins handling lipids and related substrates across organelle membranes; the antibiotic response term also aligns with xenobiotic transport. This supports a unified label centered on membrane transport roles rather than a single substrate.","confidence":"High","size":19,"edges":15,"triangles":0,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035461","count":12},{"id":"GO:0006855","count":12},{"id":"GO:0046677","count":9},{"id":"GO:0045332","count":8},{"id":"GO:0099133","count":8}]},{"hash":"889721849159716511","title":"NLRP3 inflammasome-driven inflammation and pyroptosis","description":"Top terms strongly point to inflammasome-driven inflammation: innate immune response, NLRP3 inflammasome complex assembly, IL-1\u03b2 production, and pyroptotic inflammatory signaling. Ubiquitination and actin filament network formation likely relate to immune cell activation and trafficking. Although apoptotic terms appear, the dominant theme is inflammasome-mediated inflammatory response.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090307","count":9},{"id":"GO:0045087","count":8},{"id":"GO:0051639","count":7},{"id":"GO:0016567","count":7},{"id":"GO:1990001","count":7}]},{"hash":"2108483303207375256","title":"Immune development and Rho GTPase signaling","description":"The top GO terms are strongly immune-focused (hemopoiesis, NK T cell differentiation, B cell affinity maturation, IL-4 production) alongside regulators of Rho and Rac GTPase signaling, which govern immune cell signaling and migration. While IGF signaling appears, it is less central to the cluster\u2019s core theme. This combination suggests a coherent focus on immune cell development and associated signaling pathways.","confidence":"High","size":19,"edges":40,"triangles":37,"max_degree":18,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":14},{"id":"GO:2001275","count":13},{"id":"GO:0048009","count":13},{"id":"GO:0032633","count":13},{"id":"GO:0030097","count":13}]},{"hash":"1194930314898176849","title":"Unknown","description":"The GO terms span very different processes (transcytosis, apoptotic signaling, ribosomal export, transcription regulation, fibrinolysis, development, and immune defense) with no clear single functional theme tying them together, so a concise, representative label isn't apparent.","confidence":"","size":19,"edges":25,"triangles":11,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0045056","count":3},{"id":"GO:1902043","count":3},{"id":"GO:0000055","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0042730","count":2}]},{"hash":"1878329260197502727","title":"Ubiquitin-dependent regulation of signaling and cell cycle","description":"The top GO terms are dominated by ubiquitination and ubiquitin-dependent protein catabolic processes, suggesting a core role in tagging proteins for regulation or degradation. The presence of directives on apoptosis, spindle assembly, and telomere maintenance points to cell-cycle control and genome stability, while additional terms (Wnt signaling, vitamin D response, synaptic plasticity regulation) reflect broader ubiquitin-mediated signaling roles across pathways. Overall, ubiquitin-related regulation ties the cluster together.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":9},{"id":"GO:0042787","count":8},{"id":"GO:0033280","count":7},{"id":"GO:0043066","count":6},{"id":"GO:1904908","count":6}]},{"hash":"60769263350038245","title":"Coagulation, complement activation, and ECM remodeling","description":"The top GO terms cluster around blood coagulation and both classical and lectin complement activation, with collagen catabolic process and digestion indicating extracellular proteolysis and tissue remodeling. Seminal clot liquefaction and negative regulation of chemokine production add regulatory nuances, while defense response to fungus points to innate immune involvement. Together, they suggest a group of proteins involved in coagulation, ECM remodeling, and immune signaling.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0007596","count":7},{"id":"GO:0006958","count":7},{"id":"GO:0001867","count":7},{"id":"GO:0030574","count":7}]},{"hash":"1133076476167529553","title":"Retina development and visual perception","description":"The cluster\u2019s top GO terms cluster around the visual system, including retina vasculature development and visual perception, with supporting signals like VEGF and Notch pathways and related cell-adhesion/junction processes that often accompany tissue development and organization in the eye. This suggests a coherent theme centered on how the retina and its signaling environment develop and function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031623","count":8},{"id":"GO:0030913","count":7},{"id":"GO:2001046","count":7},{"id":"GO:0090528","count":7},{"id":"GO:0061298","count":6}]},{"hash":"417813807658370431","title":"Mitochondrial Translation and Axonal Transport","description":"The top GO terms strongly point to mitochondrial biology: regulation of mitochondrial translation and assembly of respiratory chain complex III, plus explicit mentions of axonal transport of mitochondria (both anterograde and retrograde). While a couple terms touch on development and hormone responses, the core signal is mitochondria-focused, with emphasis on protein synthesis and movement within neurons. This suggests a cluster centered on mitochondrial function in neurons and development.","confidence":"Medium","size":19,"edges":170,"triangles":952,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0070131","count":4},{"id":"GO:0034551","count":3},{"id":"GO:0007275","count":2},{"id":"GO:0071456","count":1},{"id":"GO:0019896","count":1}]},{"hash":"1190520348732125860","title":"GTPase-regulated actin remodeling and vesicle trafficking","description":"The cluster highlights small GTPase\u2013mediated signaling, Arp2/3-driven actin nucleation, and endomembrane transport (notably late endosome to Golgi), suggesting a shared theme of coordinating cytoskeletal dynamics with vesicle trafficking. Other terms like mRNA transport and hormone responses are related signaling aspects but do not override the core link between GTPase signaling, actin remodeling, and trafficking.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0034499","count":2},{"id":"GO:0043200","count":2},{"id":"GO:0009753","count":2}]},{"hash":"697576847663793583","title":"Mitotic/meiotic cell cycle and intracellular trafficking","description":"These proteins link cell division and chromosome dynamics (mitotic cell cycle, cell division, synaptonemal complex assembly, microsporogenesis) with intracellular transport processes (endosome-to-lysosome transport, early-to-late endosome transport) and nuclear transport (nuclear pore complex assembly), suggesting coordinated roles in cellular division and trafficking. Regulatory ncRNA-mediated gene silencing adds a regulatory layer but does not override the core theme.","confidence":"Medium","size":19,"edges":12,"triangles":2,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0061038","count":3},{"id":"GO:0008333","count":3},{"id":"GO:0045022","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1666494986388740888","title":"Inflammation-driven angiogenesis and ECM remodeling","description":"This label fits the cluster because the top terms cluster around inflammatory signaling (inflammatory response, response to lipopolysaccharide, complement activation), endothelial/angiogenic processes (negative regulation of endothelial cell proliferation in sprouting angiogenesis), and extracellular matrix interactions (cell-matrix adhesion, hyaluronan biosynthesis, cell adhesion). These together suggest a functional theme of inflammation promoting vascular remodeling and ECM dynamics.","confidence":"High","size":19,"edges":81,"triangles":143,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007275","count":16},{"id":"GO:0006954","count":14},{"id":"GO:0032496","count":13},{"id":"GO:1903588","count":13},{"id":"GO:0071260","count":13}]},{"hash":"531190802021542056","title":"Mitochondrial ion and metabolite transport","description":"These proteins cluster around transport across the mitochondrial membrane and related metabolic shuttles, including transport of magnesium, manganese, phosphate ions, deoxynucleotides, and citrate, plus the malate-aspartate shuttle. Several terms link to mitochondrial localization and metabolic signaling (e.g., insulin response, amino acid starvation), supporting a cohesive theme of mitochondrial transport coupled to metabolism. The lone pregnancy term seems incidental noise rather than a core theme. ","confidence":"High","size":19,"edges":44,"triangles":7,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007565","count":10},{"id":"GO:0030302","count":9},{"id":"GO:1990616","count":9},{"id":"GO:0090152","count":9},{"id":"GO:0032869","count":9}]},{"hash":"992660550487622739","title":"Actin cytoskeleton remodeling and cell motility","description":"The top GO terms cluster around actin filament assembly, lamellipodium/filopodium formation, actin branching, ruffle assembly, and adhesion-dependent spreading, plus maintenance of cell polarity and small GTPase signaling. Together they describe dynamic actin remodeling that drives cell shape changes and movement, including immune-cell related motility contexts. This makes the label representative and specific to this cluster.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051017","count":16},{"id":"GO:0030032","count":16},{"id":"GO:0071963","count":15},{"id":"GO:0050852","count":15},{"id":"GO:0007264","count":15}]},{"hash":"18462632760568407","title":"Membrane-associated actin remodeling in immune signaling","description":"The top GO terms center on actin filament organization and plasma membrane processes (actin remodeling, membrane tubulation) along with immune-related signaling (innate immune response, T cell receptor signaling) and regulatory activities (GTPase activity, membrane proteolysis). This points to a coherent theme of cytoskeleton-driven membrane remodeling supporting immune signaling at the cell surface, even though the interaction network shows no edges. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007015","count":2},{"id":"GO:0007016","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0060378","count":2}]},{"hash":"1882945528698441405","title":"Regulation of transcription and cellular signaling","description":"This cluster contains proteins involved in controlling gene expression (regulation of DNA-templated transcription, negative regulation of NF-kappaB signaling) as well as various signaling and trafficking processes (endocytosis, Rho signaling, SNARE complex assembly regulation, cholesterol transport, cell cycle, apoptosis, and angiogenesis-related migration). The common thread is broad regulatory control over multiple interconnected cellular pathways rather than a single pathway, justifying a label focused on transcription and signaling regulation.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0043124","count":2},{"id":"GO:0006897","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0035544","count":2}]},{"hash":"903194734772972737","title":"Amino acid transport and monoaminergic signaling","description":"The cluster is enriched for transport of several amino acids (proline, glycine, leucine) and for neurotransmission-related processes (glycinergic synaptic transmission, serotonin secretion regulation) as well as dopamine catabolic activity, suggesting a theme where amino acid uptake interfaces with monoaminergic signaling and neurotransmitter turnover. Some development terms (adenohypophysis and thalamus development) may reflect neural-context associations rather than core functions. Overall, the proteins likely participate in amino acid transport linked to monoaminergic signaling pathways.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015824","count":3},{"id":"GO:0036233","count":3},{"id":"GO:1905847","count":3},{"id":"GO:1903346","count":3},{"id":"GO:0060012","count":3}]},{"hash":"1354840342579814472","title":"Signaling regulators and stress responses","description":"The top GO terms cluster around regulation of signaling pathways (e.g., GTPase activity, negative regulation of receptor signaling) and cellular stress/survival responses (heat, toxic substance response), with an additional note on cell-cycle-related cohesion. This suggests a core theme of regulators that modulate signaling and stress responses, with ancillary cell-cycle control.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0007064","count":3},{"id":"GO:0009636","count":2},{"id":"GO:0007568","count":2}]},{"hash":"211129661447401695","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050731","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0060065","count":2}]},{"hash":"1670364017969036716","title":"Innate Immunity and MAPK/Ras Signaling","description":"The GO terms show a clear emphasis on innate immune processes (innate immune response, defense against bacterium, macrophage differentiation) combined with signaling pathways such as ERK/MAPK, Ras, and PI3K. This suggests the proteins collectively participate in innate immune responses and their regulation via MAPK/Ras signaling cascades, with LPS signaling modulation supporting a bacterial recognition context. A few terms like axon guidance or epithelial-mesenchymal signaling appear ancillary, but the core theme is innate immunity intertwined with MAPK/Ras pathway regulation.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":3},{"id":"GO:0042742","count":3},{"id":"GO:0031665","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0060684","count":2}]},{"hash":"1650742702606404181","title":"Calcium-Driven Inflammation and Secretory Signaling","description":"The cluster combines terms tied to calcium signaling (release of sequestered calcium, phosphatidylinositol biosynthesis) with innate/inflammatory responses (response to lipopolysaccharide, acute inflammatory response) and secretory processes (gastric acid secretion). The overlap suggests a theme around calcium-mediated signaling that links inflammation, coagulation, and secretion, though a few terms (visual perception, astrocyte chemotaxis) are less directly connected. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":12},{"id":"GO:0030321","count":12},{"id":"GO:0051281","count":12},{"id":"GO:0032496","count":12},{"id":"GO:0007601","count":11}]},{"hash":"2297719852549566876","title":"Developmental signaling and chromatin regulation","description":"The cluster\u2019s top terms emphasize developmental processes (bone development, neural tube closure) alongside transcription and chromatin modification (DNA-templated transcription, histone acetylation), with insulin signaling and B cell proliferation suggesting broader signaling roles. This points to a theme of developmentally linked signaling combined with regulation of gene expression via chromatin dynamics.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":3},{"id":"GO:0030890","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0043981","count":2}]},{"hash":"1056956640705513214","title":"Unknown","description":"The top GO terms show a mix of Golgi/vesicle transport and several unrelated processes (meiosis, sensory perception, NF-kappaB signaling, bone development). There is no single dominant function linking the proteins, so a cohesive label cannot be assigned.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035621","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0006891","count":2},{"id":"GO:0045141","count":1},{"id":"GO:0007129","count":1}]},{"hash":"1279033998161164314","title":"Gastrointestinal mucosal immunity and barrier maintenance","description":"The top terms cluster around defense against bacteria, innate immunity, and complement activation at the gut epithelium, coupled with GI epithelial maintenance and cell adhesion. This points to a cohesive GI mucosal immune defense and barrier function, with involvement of monocyte trafficking and T-cell regulation indicative of coordinated innate and adaptive responses at the intestinal mucosa, including host-symbiont interactions.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":11},{"id":"GO:0042742","count":11},{"id":"GO:0045087","count":11},{"id":"GO:0006958","count":11},{"id":"GO:0046718","count":10}]},{"hash":"1212376120591257369","title":"Rho GTPase\u2013regulated cell migration","description":"The terms cluster around Rho/Ras GTPase signaling, actin dynamics (filopodium assembly), and cell migration/adhesion, indicating cytoskeleton remodeling driven by GTPase activity. Some development terms (bone/heart) may reflect morphogenesis requiring cell movement, but the unifying theme is GTPase-regulated motility.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0035023","count":4},{"id":"GO:0046580","count":4},{"id":"GO:0060348","count":4},{"id":"GO:0009395","count":4}]},{"hash":"1767729400957949030","title":"Ubiquitin-Dependent Proteolysis & Signaling","description":"The cluster is dominated by GO terms for ubiquitin-mediated protein degradation (including autoubiquitination and K6/K63 linkages), ERAD, histone catabolism, and regulatory roles in inflammatory signaling pathways (TNF, NF-kappaB, and JNK). This points to a cohesive function in tagging substrates for degradation and modulating key signaling cascades, rather than a single substrate or process. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0051865","count":9},{"id":"GO:0085020","count":9},{"id":"GO:0036205","count":8},{"id":"GO:0030433","count":8}]},{"hash":"650047198952858336","title":"Mitotic Cell Cycle and Division Machinery","description":"The top GO terms are strongly dominated by mitosis, cell cycle, and division-related processes (exit from mitosis, cell cycle, mitotic cell cycle, cell division, division septum assembly), with supporting themes of polarity maintenance and protein interaction. Some terms about ribosomal export and cytoplasmic translation may reflect general cellular processing or assembly rather than core clustering; the Smoothened signaling term is less central. Overall, the cluster appears to group proteins involved in mitotic progression and cytokinesis, plus polarity coordination. ","confidence":"High","size":18,"edges":114,"triangles":380,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030011","count":11},{"id":"GO:0051291","count":11},{"id":"GO:0010458","count":11},{"id":"GO:0007049","count":11},{"id":"GO:0000278","count":11}]},{"hash":"1499318728107353224","title":"Post-transcriptional RNA regulation: splicing and translation","description":"These proteins cluster around post-transcriptional control of gene expression, notably spliceosome-mediated splicing regulation (both positive/negative and alternative), mRNA stabilization, and initiation/reinitiation of translation, including miRNA-mediated silencing and IRES-dependent translation. The GO terms collectively point to RNA processing and translational control rather than transcription, indicating a coherent RNA-regulation module.","confidence":"High","size":18,"edges":9,"triangles":0,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0048026","count":8},{"id":"GO:0002188","count":7},{"id":"GO:0035278","count":6}]},{"hash":"1185299519707756908","title":"Ribosome Biogenesis and Translational Fidelity","description":"The cluster is dominated by translation-related terms: translation itself, ribosome biogenesis, ribosomal subunit assembly, and maintenance/positive regulation of translational fidelity, indicating proteins involved in ribosome production and accurate protein synthesis. Some outliers (antibiotic response, retina development) are less representative. Thus, this name reflects the core function of the cluster.","confidence":"High","size":18,"edges":102,"triangles":318,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":12},{"id":"GO:0000027","count":4},{"id":"GO:0006407","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0045903","count":2}]},{"hash":"2059820422437223725","title":"Dopaminergic signaling and behavioral response","description":"This cluster centers on neural signaling and behavior, highlighted by dopaminergic synaptic transmission, cocaine response, ERK signaling, and sensory/visual processing terms, suggesting a cohesive theme of neural signaling and drug-related behavior; a few terms like heart development and macrophage chemotaxis are less directly connected, so confidence is Medium.","confidence":"Medium","size":18,"edges":130,"triangles":495,"max_degree":17,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":13},{"id":"GO:0043547","count":13},{"id":"GO:0007601","count":12},{"id":"GO:0019233","count":12},{"id":"GO:0008542","count":12}]},{"hash":"1715798555550544094","title":"Rac/Cdc42-Driven Actin Remodeling and Cell Polarity","description":"This cluster centers on Rac and Cdc42 signaling, actin polymerization, lamellipodium/pseudopodium formation, and maintenance of cell polarity in response to mechanical cues, pointing to actin-driven motility and polarity regulation as the shared function.","confidence":"High","size":18,"edges":64,"triangles":86,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032889","count":15},{"id":"GO:0071260","count":15},{"id":"GO:0010592","count":15},{"id":"GO:0032488","count":15},{"id":"GO:0016601","count":15}]},{"hash":"1462334535253563923","title":"Ribosome biogenesis and RNA processing","description":"The cluster is dominated by GO terms tied to ribosomal subunit biogenesis, rRNA maturation (both SSU/LSU), and spliceosomal RNA processing, indicating a core function in ribosome assembly and RNA maturation. A few terms related to SOS response and DNA unwinding exist but the strongest signal centers on ribosome-related processes.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0042273","count":5},{"id":"GO:0000378","count":5},{"id":"GO:0000398","count":5},{"id":"GO:0000463","count":5},{"id":"GO:0000390","count":5}]},{"hash":"1645822367405158647","title":"Calcium Signaling in Muscle and Neural Development","description":"This cluster is dominated by GO terms tied to calcium-dependent regulation of muscle contraction (cardiac and skeletal) and calcium ion transport/detection, pointing to a core calcium signaling/muscle function theme. A subset of terms also touches on neural and endocrine development (substantia nigra development, adenohypophysis morphogenesis), suggesting broader developmental roles but with calcium-muscled signaling as the strongest unifying thread.","confidence":"High","size":18,"edges":85,"triangles":227,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010881","count":8},{"id":"GO:0098735","count":8},{"id":"GO:0021762","count":8},{"id":"GO:0048741","count":8},{"id":"GO:0070588","count":8}]},{"hash":"1065668391316252843","title":"DNA Repair and Cellular Stress Response","description":"The cluster is enriched for base-excision repair, DNA recombination, and negative regulation of DSB repair via SSA, indicating DNA repair functions. Additional terms for xenobiotic and ethanol response, inflammatory signaling, and light stimulus point to broader cellular stress responses that accompany DNA damage and genome maintenance. A glycogen biosynthesis term may reflect metabolic shifts during stress. Overall, these proteins seem tied to sensing and responding to cellular stress with DNA repair activity.","confidence":"Medium","size":18,"edges":124,"triangles":498,"max_degree":17,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0007568","count":6},{"id":"GO:0006284","count":6},{"id":"GO:0045471","count":5},{"id":"GO:0006310","count":4},{"id":"GO:0042493","count":4}]},{"hash":"638541611464322961","title":"Mitotic cell division and centrosome\u2013microtubule organization","description":"The cluster is dominated by GO terms tied to cell division and the mitotic cell cycle, plus microtubule anchoring at the centrosome and protein interactions within complexes, which together point to mitotic machinery and centrosome/microtubule organization. A few terms (glyoxylate catabolism, photoreceptor localization, and some obsolete terms) appear as outliers, but the central theme remains mitosis-related processes. ","confidence":"High","size":18,"edges":142,"triangles":659,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0009436","count":4},{"id":"GO:1903546","count":4},{"id":"GO:0034454","count":4}]},{"hash":"147811683950217930","title":"Developmental patterning and organ morphogenesis","description":"This cluster groups proteins involved in embryonic development across neural, craniofacial, and organ morphogenesis (brain segmentation, rhombomere formation, retinal axon guidance, lung morphogenesis, pancreas development, and others) and includes patterning (anterior/posterior) and transcription regulation, pointing to a shared theme of developmental patterning and organ formation.","confidence":"Medium","size":18,"edges":129,"triangles":503,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0006366","count":9},{"id":"GO:0021571","count":8},{"id":"GO:0035284","count":8},{"id":"GO:0060441","count":8}]},{"hash":"1446096639514884025","title":"Complement and Coagulation Activation","description":"The top GO terms are dominated by complement activation (both classical and lectin pathways) and blood coagulation, with related processes like endothelial barrier establishment and collagen catabolism, suggesting the proteins cluster around immune-coagulation and vascular remodeling functions. Some entries like midbrain development and digestion appear less central to the main theme, but the primary signal supports a complement-coagulation focus.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":8},{"id":"GO:0001867","count":8},{"id":"GO:0000122","count":7},{"id":"GO:0007596","count":6},{"id":"GO:1903142","count":6}]},{"hash":"1026572506161632052","title":"Retina morphogenesis and immune/stress signaling","description":"This cluster shows a mix of vision-related GO terms (visual perception, embryonic retina morphogenesis) and immune/stress responses (TNF/IL-1 signaling, oxidative stress, viral response). The convergence suggests proteins involved in retina development that also participate in ocular stress and inflammatory signaling, justifying a label that highlights both eye morphogenesis and immune/stress pathways.","confidence":"Medium","size":18,"edges":37,"triangles":27,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":7},{"id":"GO:0071356","count":7},{"id":"GO:0071347","count":7},{"id":"GO:0006469","count":7},{"id":"GO:0070301","count":7}]},{"hash":"1530772883799538944","title":"Neural development and secretory trafficking","description":"Top GO terms cluster around neural development (brain, nervous system, dendritic spine development) and secretory pathway trafficking (ER-to-Golgi and Golgi-to-plasma membrane). The inclusion of Hedgehog signaling (Smoothened) and immune signaling modulation aligns with developmental and neuron-centric regulatory processes, reinforcing a theme of neural development intertwined with vesicular transport. Confidence: High","confidence":"","size":18,"edges":84,"triangles":135,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0043001","count":4},{"id":"GO:0006888","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0001822","count":3},{"id":"GO:0007399","count":3}]},{"hash":"867056818803990763","title":"Developmental signaling and axon guidance","description":"The terms cluster around developmental processes and signaling cues, including nervous system development, axon guidance, Roundabout (Slit-Robo) signaling, and ERK cascade regulation. These point to a shared theme of developmental signaling and guidance across tissues, with additional broad immune and germ cell development terms reflecting a wider role for signaling pathways in development. Therefore, a label capturing developmental signaling with guidance is appropriate, though the cross-tissue scope limits perfect specificity.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007286","count":18},{"id":"GO:0002551","count":18},{"id":"GO:0035385","count":18},{"id":"GO:0007411","count":18},{"id":"GO:0050852","count":18}]},{"hash":"553511740788270188","title":"Mitosis and cytoskeleton remodeling","description":"This cluster's top terms cluster around mitotic processes (mitotic spindle assembly, mitotic cell cycle) and actin-based cytoskeleton dynamics (actin filament depolymerization, actin cortical patch localization). This points to proteins involved in reorganizing the cytoskeleton during cell division, with neural development terms likely reflecting shared cytoskeletal roles in neuronal growth and connectivity; other terms (DNA repair, stress responses) may reflect broader cellular roles, but the dominant theme is mitosis coupled with actin remodeling.","confidence":"Medium","size":18,"edges":17,"triangles":0,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":4},{"id":"GO:0051666","count":4},{"id":"GO:0030042","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0001501","count":3}]},{"hash":"2185202764998732936","title":"ER-Golgi vesicle trafficking and endosomal localization","description":"Dominant GO terms point to vesicle transport between the endoplasmic reticulum and Golgi, Golgi vesicle budding, and endosome-to-Golgi/ Golgi-to-ER trafficking, indicating a cluster centered on the secretory pathway and protein localization. Endosomal localization terms reinforce this theme, with some developmental terms present that are less central. Overall, the cluster appears to reflect vesicle trafficking and cargo localization within the secretory/endosomal system.","confidence":"High","size":18,"edges":36,"triangles":0,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":10},{"id":"GO:0006890","count":8},{"id":"GO:0090307","count":6},{"id":"GO:1903078","count":6},{"id":"GO:0007420","count":6}]},{"hash":"1024120218195783567","title":"Unknown","description":"The top GO terms span DNA repair, Golgi retention, proteasome assembly, neuron migration, epithelial polarity, COPII cargo loading, triglyceride metabolism, and SREBP signaling. This wide spread across nuclear, trafficking, polarity, and metabolic processes suggests no single cohesive function defining the cluster, so a unified, meaningful label cannot be assigned with confidence.","confidence":"","size":18,"edges":17,"triangles":0,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0045053","count":2},{"id":"GO:0070682","count":2},{"id":"GO:0001764","count":2},{"id":"GO:0032516","count":2}]},{"hash":"194659853031480458","title":"Unknown","description":"These proteins map to a mix of processes: extrinsic apoptotic signaling, cytokine production (GM-CSF, IL-6, IL-18), responses to growth factors and mechanical stimuli, glucose transport, insulin signaling, and PI3K-AKT signaling, plus acrosome assembly. There is no single dominant biological process linking all members, and the lack of edges/triangles suggests a non-cohesive or annotation-driven grouping rather than a shared function.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097192","count":4},{"id":"GO:0032725","count":3},{"id":"GO:2000778","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0001675","count":3}]},{"hash":"745051511157903839","title":"Organ and neural development across tissues","description":"The top GO terms show development across multiple tissues (brain, liver, retina, cochlea, hippocampus, spermatid) and related regulatory signaling (Wnt pathway), indicating a broad role in tissue and neural development rather than a single specific process.","confidence":"High","size":18,"edges":19,"triangles":5,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":6},{"id":"GO:0043524","count":6},{"id":"GO:0001889","count":6},{"id":"GO:0090103","count":6},{"id":"GO:0031424","count":5}]},{"hash":"1308797315855996442","title":"Mitochondrial and Cytosolic Translation Machinery","description":"The top GO terms are dominated by translation processes, including cytoplasmic translation and mitochondrial translation (with initiation/termination), indicating a shared protein synthesis machinery across compartments. A few other terms (transcription and mRNA decay) are present but less indicative, so the central theme remains protein synthesis in both cytosol and mitochondria.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0070124","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0090503","count":2},{"id":"GO:0030420","count":2}]},{"hash":"728564020052302362","title":"Developmental Transcriptional Regulation","description":"The top GO terms are dominated by regulation of transcription by RNA polymerase II (both negative and positive) and by diverse developmental/differentiation processes (pancreatic cell development, myeloid dendritic cell differentiation, digestive system development, placental differentiation). This combination suggests the proteins in this cluster broadly coordinate transcriptional control during development and immune-related differentiation, rather than a single, specific pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0003323","count":5},{"id":"GO:0043011","count":4},{"id":"GO:0044130","count":4},{"id":"GO:0055123","count":4}]},{"hash":"520832835631210767","title":"Multisystem Organ Development","description":"This cluster\u2019s top GO terms span development across many tissues and organs (midbrain, pituitary, pancreas, gonads, cartilage, digestive tract, nerves, and visual system). The common thread is broad developmental regulation rather than a single molecular function or pathway, which supports labeling as a general multisystem developmental cluster rather than a specific process. The lack of connectivity (Edges 0) further suggests these proteins contribute to diverse aspects of organogenesis rather than a single coherent pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0030901","count":9},{"id":"GO:0021983","count":7},{"id":"GO:0007601","count":7},{"id":"GO:0031018","count":7}]},{"hash":"2146484873545501380","title":"Developmental transcriptional regulation in neural and sensory tissues","description":"The cluster is enriched for transcription-related GO terms (negative regulation of transcription by RNA polymerase II and DNA-templated transcription) alongside diverse embryonic development processes affecting brain regions (habenula, brain segmentation), sensory organs (eye morphogenesis, inner ear), and patterning (left/right). This combination suggests genes coordinating transcriptional control during development of neural and sensory tissues.","confidence":"Medium","size":18,"edges":15,"triangles":0,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0006351","count":7},{"id":"GO:0021986","count":6},{"id":"GO:0048048","count":5},{"id":"GO:0060972","count":5}]},{"hash":"1410030652978347230","title":"Developmental signaling and cytoskeletal dynamics","description":"This cluster includes multicellular development and organogenesis terms (heart, neuron, B cell differentiation) alongside cytoskeletal and endocytic processes (Arp2/3-mediated actin nucleation, caveolin-mediated endocytosis) and regulatory/transcriptional signals (DNA-templated transcription, nitric oxide response, apoptosis), suggesting a group of proteins coordinating development with signaling and cytoskeletal remodeling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006915","count":3},{"id":"GO:2000601","count":2},{"id":"GO:0072584","count":2},{"id":"GO:0002333","count":2}]},{"hash":"624677190680042434","title":"DNA damage-induced apoptosis and innate immune signaling","description":"The top GO terms show strong signals for p53-mediated intrinsic apoptotic signaling in response to DNA damage and general apoptotic processes, with additional signals for innate immune responses (response to dsRNA, lipopolysaccharide) and processes tied to protein turnover and cell cycle regulation (mitotic spindle assembly, SCF-dependent ubiquitin-proteasome degradation). Together, they point to a cluster of proteins coordinating stress responses that connect apoptosis, cell-cycle control, and innate immune signaling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042771","count":8},{"id":"GO:0006915","count":7},{"id":"GO:0090307","count":6},{"id":"GO:0031146","count":6},{"id":"GO:0070208","count":5}]},{"hash":"1408629654743237435","title":"Neuropeptide-GPCR Signaling Across Systems","description":"Top GO terms are centered on neuropeptide signaling and GPCR signaling, with strong signals for response to peptide and regulation of GPCR pathways. These terms span neural, inflammatory, visual, gastric, and cardiovascular processes, suggesting a shared theme of peptide-mediated signaling acting through GPCRs across tissues.","confidence":"Medium","size":18,"edges":76,"triangles":117,"max_degree":17,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007218","count":14},{"id":"GO:0007596","count":13},{"id":"GO:0007601","count":13},{"id":"GO:0010513","count":13},{"id":"GO:2000458","count":13}]},{"hash":"1402014757786026612","title":"Adenylate Cyclase-Activating GPCR Signaling","description":"The cluster is dominated by GO terms tied to G protein-coupled receptor signaling that activate adenylate cyclase and raise cAMP (GO:0010579, GO:0007190), plus related outputs like blood pressure regulation, vision, coagulation, gastric acid secretion, and inflammatory responses\u2014consistent with a cohesive GPCR-cAMP signaling module affecting diverse physiological processes. The presence of electron transport chain terms may reflect energy demands associated with signaling activity, but the core theme remains GPCR-mediated cAMP signaling with downstream physiological effects.","confidence":"High","size":18,"edges":23,"triangles":8,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":18},{"id":"GO:0007190","count":18},{"id":"GO:0022900","count":18},{"id":"GO:0010579","count":18},{"id":"GO:0007596","count":17}]},{"hash":"939915003489233054","title":"Unknown","description":"The terms span DNA repair and transcription, tissue-specific differentiation (glial and cardiac development), apoptosis, interferon response, GPCR signaling regulation, cadmium response, and chemotaxis, with no single cohesive function linking all proteins. Therefore a confident, specific label cannot be assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0060020","count":3},{"id":"GO:0055015","count":3},{"id":"GO:0097284","count":3}]},{"hash":"661993673488567427","title":"Transcription Regulation and Signaling","description":"The set is enriched for GO terms tied to RNA polymerase II\u2013dependent transcription (transcription elongation, DNA-templated transcription) and broader signaling activities (GTPase activity regulation, protein kinase activation, phosphatidylinositol signaling). Some terms touch on cell division and ciliary localization, indicating additional functional categories in the same protein group. Overall, the common thread appears to be nuclear gene expression control coupled with intracellular signaling rather than a single tightly defined pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000281","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0032968","count":2},{"id":"GO:0009615","count":2},{"id":"GO:1902064","count":1}]},{"hash":"186313000037954989","title":"Cell Cycle and Golgi Transport","description":"This cluster is dominated by GO terms for cell division and the cell cycle (mitotic cell cycle, DNA replication regulation) along with Golgi/ER trafficking (Golgi organization, retrograde transport, intracellular protein transport). The co-occurrence implies proteins function together in coordinating mitosis with Golgi-ER traffic, rather than a pure neural development program. Therefore label reflects the main theme.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0006890","count":3},{"id":"GO:0007030","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1778666460421922183","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071036","count":2},{"id":"GO:0097222","count":2},{"id":"GO:0001680","count":2},{"id":"GO:0035044","count":2},{"id":"GO:0010586","count":2}]},{"hash":"1424896219862629435","title":"Mitochondrial CoQ biosynthesis and ETC assembly","description":"This cluster is dominated by GO terms tied to mitochondrial energy metabolism: ubiquinone (CoQ) biosynthesis, respiration chain complex II assembly, and electron transport from NADH to ubiquinone. A few terms relate to dopamine metabolism or ethanol response, but the strongest signals point to mitochondrial biosynthesis and assembly of the electron transport chain, indicating a coherent role in cellular energy production.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006744","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0034553","count":2},{"id":"GO:0006120","count":2},{"id":"GO:0019622","count":1}]},{"hash":"804341868908968880","title":"Cell adhesion and development with neural-immune signaling","description":"This cluster centers on cell-cell adhesion (both homophilic and heterophilic), neural development and synapse assembly, and immune-related signaling (T cell costimulation, STAT phosphorylation). The mix of adhesion, nervous system development, synapse-related terms, and immune signaling suggests proteins coordinating cell contacts during tissue development with neural and immune communication, plus related proteolysis and phagocytosis activities.","confidence":"Medium","size":18,"edges":74,"triangles":99,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":10},{"id":"GO:0007157","count":10},{"id":"GO:0043931","count":9},{"id":"GO:0006508","count":8},{"id":"GO:0006910","count":8}]},{"hash":"190936811140077941","title":"Embryonic development and organogenesis","description":"This cluster centers on embryonic differentiation, placental trophoblast development, endocrine system development, and morphogenesis, indicating a shared role in early development and tissue formation. It also includes EMT and left-right patterning terms, which support a broad developmental theme across tissues; the RNA splicing and transcription-regulation terms may reflect general gene-expression control during development.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060707","count":7},{"id":"GO:0060806","count":6},{"id":"GO:0003323","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0000398","count":6}]},{"hash":"1369844123162507904","title":"Retinal Development and Visual Signaling","description":"This cluster is tied to eye biology, highlighted by retina vasculature development and visual perception, with supporting signaling pathways such as Notch and integrin signaling and receptor-mediated signaling that are common in retinal/endothelial cells, plus trafficking processes like endosome-to-melanosome transport relevant to the retinal pigment epithelium. Together, these terms point to retinal development and light-evoked function, rather than a general non-ocular process.","confidence":"Medium","size":18,"edges":22,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0061298","count":2},{"id":"GO:1900746","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0045747","count":2},{"id":"GO:0046813","count":2}]},{"hash":"1229259910597455347","title":"Temperature- and sensory-perception signaling","description":"The top GO terms point to pain perception, visual perception, and responses to temperature, plus membrane potential regulation and thermogenesis, all of which hint at sensory processing and neuronal excitability tied to temperature changes. Some terms (gastrin secretion, astrocyte chemotaxis) are less cohesive but do not override the dominant theme of sensory/temperature responsiveness.  ","confidence":"Medium","size":18,"edges":9,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":16},{"id":"GO:0002024","count":16},{"id":"GO:0071502","count":16},{"id":"GO:0042391","count":15},{"id":"GO:0018298","count":15}]},{"hash":"1466822479480560312","title":"Spliceosome-driven mRNA processing and translation control","description":"The top GO terms converge on RNA splicing and post-transcriptional regulation, including mRNA splicing via the spliceosome, regulation of alternative splicing via the spliceosome, and general RNA splicing. In addition, terms related to translation initiation and reinitiation, IRES-dependent translation, and miRNA-/ncRNA-mediated gene silencing point to coordinated control of translation and RNA silencing. Together, these terms suggest a cluster of proteins involved in RNA processing and downstream translational regulation.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0000381","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3}]},{"hash":"910693369057481533","title":"Retina phototransduction and development","description":"Major terms point to the retina/vision axis: phototransduction and retina development indicate a focus on visual signaling in the eye. The presence of electron transport chain terms aligns with the high metabolic needs of photoreceptors, and GPCR signaling matches opsin-based signaling. While some terms (pain, immune, temperature) are less specific, the strongest cluster theme is retina-related signaling and energy metabolism.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035025","count":7},{"id":"GO:0022900","count":7},{"id":"GO:0045777","count":7},{"id":"GO:0010579","count":7},{"id":"GO:0019233","count":7}]},{"hash":"1825821196192041246","title":"RNA processing and immune regulation","description":"The cluster shows enrichment for mRNA processing, deadenylation-dependent decay, splicing, transcriptional regulation, and ubiquitination, plus innate and adaptive immune responses, suggesting proteins involved in RNA metabolism that modulate immune signaling or gene expression during immune responses. There are a few outliers (e.g., plant histogenesis term), but the dominant themes link RNA processing with immune regulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0000288","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0000122","count":2}]},{"hash":"1311618388539839844","title":"Unknown","description":"The top GO terms include blood coagulation, visual perception, GPCR signaling, astrocyte chemotaxis, gastric acid secretion, and inflammatory response, among others, with no clear single theme tying all proteins; therefore no specific functional label can be assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":13},{"id":"GO:0007601","count":13},{"id":"GO:0010513","count":13},{"id":"GO:2000458","count":13},{"id":"GO:0001698","count":13}]},{"hash":"9648149921608185","title":"LPS-induced inflammation and coagulation","description":"This cluster is dominated by GO terms for innate immune response to lipopolysaccharide, blood coagulation, vascular permeability regulation, and acute inflammatory signaling, pointing to a cohesive theme of endotoxin-triggered inflammation and endothelial/coagulation processes. Some terms like visual perception and bone remodeling seem peripheral, but the core signal supports an inflammatory-vascular function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032496","count":11},{"id":"GO:0007596","count":11},{"id":"GO:0007601","count":10},{"id":"GO:0010513","count":10},{"id":"GO:2000458","count":10}]},{"hash":"1034661720628543084","title":"Unknown","description":"Top GO terms are diverse, spanning T cell activation, heart valve development, cell adhesion, signaling, neural development, and behavior, with no clear shared function linking the proteins. This lack of cohesive theme suggests the cluster is not functionally coherent, so an Unknown label is appropriate.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031295","count":3},{"id":"GO:0042102","count":3},{"id":"GO:0003180","count":2},{"id":"GO:1900025","count":2},{"id":"GO:0070244","count":2}]},{"hash":"456479662275567483","title":"Calcium signaling and GPCR pathways","description":"The top GO terms cluster around GPCR signaling and calcium dynamics (release of sequestered calcium into cytosol; positive regulation of GPCR signaling; peptide response; visual perception via opsins, which are GPCRs, and calcium-related processes). Additional terms touch on inflammatory responses, gastric acid secretion, coagulation, and cardiac morphogenesis\u2014processes frequently regulated by GPCR pathways and intracellular calcium. Taken together, the proteins likely function in GPCR-mediated calcium signaling with related physiological responses.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051209","count":14},{"id":"GO:0007596","count":13},{"id":"GO:0007601","count":13},{"id":"GO:0010513","count":13},{"id":"GO:2000458","count":13}]},{"hash":"1248934605196009296","title":"Immune cell adhesion and synapse signaling","description":"This cluster is dominated by GO terms involving cell junction localization, heterophilic cell-cell adhesion, and regulation of immune responses (T cell proliferation, macrophage activation, IL-2/IL-10 production), plus processes tied to immune surveillance (detection of tumor cells) and immune synapse assembly. Together, these terms suggest a cohesive theme around proteins that mediate cell contact and signaling at the immune synapse, coordinating activation and inhibition across immune cells. Some terms (e.g., spermatid development) are less directly related and may reflect broader expression, but the core theme remains immune cell interaction and signaling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902414","count":3},{"id":"GO:0046007","count":2},{"id":"GO:2001181","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0043031","count":2}]},{"hash":"1929127792204064147","title":"Nervous system development","description":"The cluster is dominated by neural-development terms (nervous system development, brain development, cerebellum development, spinal cord development, retina development), suggesting a cohesive role in neural formation across brain, spinal cord, and retina; other terms are supportive but secondary.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0021549","count":2},{"id":"GO:0007420","count":2}]},{"hash":"1121027506468997863","title":"Rho/Rac GTPase signaling and cytoskeleton remodeling","description":"The top GO terms cluster around regulation of GTPase activity, especially Rho and Rac signaling, with associated cytoskeletal processes like stress fiber assembly and endothelial tube lumen extension. Brain development and synapse assembly terms suggest involvement in neural morphogenesis as well, all pointing to cytoskeletal dynamics driven by GTPase signaling in neural and vascular contexts. There is one outlier term (obsolete sulfate transport) that does not fit, indicating some noise. Overall, the cluster seems to capture proteins coordinating GTPase-regulated cytoskeleton remodeling and morphogenesis.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0035024","count":2},{"id":"GO:0097498","count":2},{"id":"GO:0008272","count":2},{"id":"GO:0035021","count":2}]},{"hash":"1947143419786823575","title":"Muscle differentiation and cytoskeletal signaling","description":"This cluster centers on terms related to muscle development and contraction (striated muscle differentiation, regulation of cardiac muscle contraction via calcium release, response to muscle stretch) and growth signaling (IGF receptor pathway), complemented by cytoskeletal and adhesion processes (filopodium and brush border assembly, integrin-mediated adhesion regulation, astral microtubule organization). Although some terms are broader or cytoskeletal in nature, the strongest, recurring theme is muscle differentiation/contractile signaling combined with cytoskeletal remodeling. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0051146","count":2},{"id":"GO:0010881","count":2},{"id":"GO:0035994","count":2}]},{"hash":"311383773998619040","title":"Neural development and synaptic regulation","description":"This cluster is dominated by neural-related terms: spinal cord development, myelination in peripheral nervous system, and regulation of long-term synaptic potentiation, as well as DNA-templated transcription, suggesting neurons and neural circuits development and signaling. Additional terms like adrenal gland development and nutrient response are less directly neural but can be linked to developmental and signaling contexts. Overall, the set points to nervous system development and synaptic function more than to a single non-neural process.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0045671","count":3},{"id":"GO:0030325","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0022011","count":3}]},{"hash":"1814076455187151530","title":"Unknown","description":"The GO terms span diverse biological areas (ion transport regulation, metabolism, interferon responses, bone development, neuromuscular function, and neural signaling) with no single dominant process and no network connectivity, making it unclear what unifying function defines this cluster.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034765","count":3},{"id":"GO:0044381","count":2},{"id":"GO:0035455","count":2},{"id":"GO:0060349","count":2},{"id":"GO:0050884","count":2}]},{"hash":"1372927166215222915","title":"Mechanosensory development and ECM remodeling","description":"This cluster centers on proteins involved in sensing and responding to mechanical stimuli and guiding developmental processes. Top GO terms emphasize mechanosensation and regulation of transcription during development, along with collagen fibril organization and embryonic cranial skeleton morphogenesis, suggesting roles in mechanotransduction, nervous system development (including oligodendrocyte differentiation), and extracellular matrix remodeling. While a few terms (sodium transport, fertilization) are less directly aligned, the dominant theme ties mechanical signal transduction to developmental remodeling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0048709","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0001666","count":3}]},{"hash":"2014931404614766034","title":"Synaptic signaling and plasticity","description":"Prominent GO terms point to neuronal communication and synaptic function: neurotransmitter secretion, synapse assembly, and long-term synaptic potentiation. The presence of Rho signaling regulation supports cytoskeletal remodeling at synapses, aligning with plasticity processes. Some terms appear obsolete or reflect broader gene regulation/development, but the dominant pattern is synaptic signaling and plasticity in neurons.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007269","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0051571","count":4},{"id":"GO:0043046","count":4},{"id":"GO:0060291","count":3}]},{"hash":"695286300883530228","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":103,"triangles":335,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":16},{"id":"GO:0007601","count":15},{"id":"GO:0000278","count":15},{"id":"GO:0050709","count":14},{"id":"GO:0051036","count":14}]},{"hash":"1625760152941429499","title":"Developmental and Cytoskeletal Regulation","description":"Cluster shows several developmental terms (osteoblast differentiation, skeletal system development, multicellular organism growth) indicating a bone development theme. It also includes strong hints of cytoskeletal dynamics and signaling (negative regulation of Arp2/3 actin nucleation, positive regulation of GTPase activity, pinocytosis), suggesting coordinated control of cell shape and trafficking. Some terms like splicing and aging are less connected, but overall the set points toward cellular dynamics linked to development.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0034316","count":6},{"id":"GO:0000398","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0007568","count":5},{"id":"GO:0050830","count":5}]},{"hash":"1694899300278076722","title":"Vitamin and amino acid biosynthesis with transcription","description":"The set centers on biosynthetic pathways for vitamins (cobalamin, biotin, heme/protoporphyrin IX biosynthesis) and amino acid/central carbon metabolism (glutamine, alanine, oxaloacetate), plus DNA-templated transcription, suggesting a cohesive theme around biosynthesis and its transcriptional regulation. Insulin response and lymphocyte proliferation appear peripheral to the core metabolic theme but reflect broader regulatory context. ","confidence":"Medium","size":17,"edges":104,"triangles":322,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0032869","count":8},{"id":"GO:0006541","count":6},{"id":"GO:0009236","count":6},{"id":"GO:0006783","count":5}]},{"hash":"822516526600316027","title":"Unknown","description":"The Top Terms span very different processes: unsaturated fatty acid biosynthesis, ergosterol and sphingolipid metabolism, mitochondrial complex assembly, nitrogen metabolism, and even vertebrate-specific CNS and skin differentiation. There is no single cohesive function tying these terms together, making a confident, representative label difficult. ","confidence":"","size":17,"edges":16,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006636","count":3},{"id":"GO:0032286","count":3},{"id":"GO:0001949","count":3},{"id":"GO:0006675","count":3},{"id":"GO:0006809","count":3}]},{"hash":"2249327758983625129","title":"Embryonic organogenesis and transcription regulation","description":"The cluster combines transcription-related GO terms (transcription by RNA Pol II and its negative regulation) with diverse organ morphogenesis terms (pancreas, digestive tract, lung, pituitary, neural crest migration, neuron differentiation), suggesting a coordinated role in regulating transcription during embryonic development and organ morphogenesis.","confidence":"High","size":17,"edges":125,"triangles":534,"max_degree":16,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0006366","count":11},{"id":"GO:0031018","count":10},{"id":"GO:0048557","count":8},{"id":"GO:0090190","count":8}]},{"hash":"74715219247983934","title":"Transcriptional regulation and chromatin dynamics","description":"The top GO terms point to gene expression control and chromatin states (transcription regulation in G2/M, NF-kappaB signaling, miRNA processing, and heterochromatin formation/isotype switching). This suggests a shared function in regulating transcription and epigenetic status, with some additional terms reflecting cellular trafficking of regulatory factors. ","confidence":"Medium","size":17,"edges":26,"triangles":17,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0090419","count":5},{"id":"GO:0035196","count":5},{"id":"GO:0033624","count":5},{"id":"GO:0007249","count":5},{"id":"GO:0072383","count":5}]},{"hash":"375056220669375128","title":"Neural development and axon guidance signaling","description":"Based on the top GO terms, the cluster is dominated by brain and nervous system development, regulation of synaptic vesicle exocytosis, axon extension, and key axon-guidance pathways (ROBO and Hedgehog/Smoothened). While some terms like T cell receptor signaling and other signaling annotations appear, the prevailing theme ties to neuronal differentiation, neural circuit formation, and synaptic regulation, justifying a label focused on neural development and axon guidance.","confidence":"High","size":17,"edges":106,"triangles":315,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":7},{"id":"GO:2000300","count":7},{"id":"GO:0031384","count":7},{"id":"GO:0010796","count":7},{"id":"GO:0007399","count":7}]},{"hash":"899360036319618458","title":"Growth signaling and proliferation","description":"This cluster centers on GO terms linked to signaling and growth regulation, including positive regulation of GTPase activity, cellular response to transforming growth factor beta stimulus, and positive regulation of serine/threonine kinase activity, along with multicellular organism growth and positive regulation of cell population proliferation. While a few terms touch on other processes (defense response, mRNA transport, protein oligomerization), the dominant theme is signaling pathways that drive growth and proliferation in a multicellular context.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":9},{"id":"GO:0071560","count":8},{"id":"GO:0035264","count":8},{"id":"GO:0070208","count":7},{"id":"GO:0050731","count":7}]},{"hash":"1849205103063526129","title":"Neural and sensory organ development","description":"The top GO terms point to development of neural and sensory structures (midbrain development, hypothalamus cell differentiation, inner ear development, and visual perception), suggesting the cluster is enriched for neural/sensory developmental roles. A few other terms (endocrine pancreas development, collagen catabolic process, and complement pathways) may reflect broader developmental remodeling or multi-functional proteins, but they do not dominate the signal. Overall, the cluster seems best described by neural and sensory organ development.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0007596","count":5},{"id":"GO:0030901","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0021979","count":5}]},{"hash":"47625753730330806","title":"Mitotic cycle and cytoskeletal remodeling","description":"The top GO terms cluster around mitosis (mitotic spindle assembly, mitotic cell cycle) and cytoskeletal dynamics (actin filament depolymerization, regulation of GTPase activity, kinase activity), with developmental terms also present (skin development, multicellular organism development). This suggests a group of proteins involved in cell division and structural remodeling rather than a single pathway. Because there are no interaction edges to confirm specific relationships, the label remains a high-level, general match to the dominant themes.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051260","count":9},{"id":"GO:0043588","count":7},{"id":"GO:0090307","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0051028","count":6}]},{"hash":"2103691672507313456","title":"ERK-driven angiogenesis and endothelial morphogenesis","description":"This cluster is centered on ERK signaling (ERK1/ERK2 cascade) with strong links to angiogenesis and endothelial tube morphogenesis, supported by terms like positive regulation of angiogenesis and regulation of endothelial tube morphogenesis, as well as related developmental processes (lung development, embryonic digestive tract development). The presence of inflammatory and estrogen-responsive signals (interleukin-1 response, neutrophil chemotaxis, estradiol response) suggests contextual modulation, but the core theme remains ERK-mediated vascular development.","confidence":"High","size":17,"edges":39,"triangles":31,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0045766","count":4},{"id":"GO:0071347","count":4},{"id":"GO:0090023","count":4},{"id":"GO:0071392","count":4}]},{"hash":"705476243780207445","title":"Stress-Responsive Transcription and Development","description":"This cluster centers on transcriptional regulation (DNA-templated transcription) and multiple stress-related responses (to arsenite, cadmium, heat, LPS) plus several development-related terms (lens, skeletal muscle, retinal axon guidance). The combination suggests proteins involved in regulating gene expression under stress with roles in development and neural/muscle tissues, though the signal is somewhat heterogeneous. Confidence: Medium","confidence":"","size":17,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:1903936","count":5},{"id":"GO:0061408","count":5},{"id":"GO:1904528","count":5},{"id":"GO:0032496","count":5}]},{"hash":"1993715621922618066","title":"Neurodevelopment and organogenesis","description":"This cluster shows strong neural lineage specification terms (spinal cord motor neuron fate, cortical GABAergic interneuron differentiation, subpallium fate) with oligodendrocyte differentiation, alongside other organ development terms (endocrine pancreas, bronchiole, heart valve). The common theme is developmental fate specification and differentiation across tissues, supported by transcriptional (RNA Pol II) and apoptotic regulation processes. Therefore, labeling as Neurodevelopment and organogenesis is appropriate.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031018","count":17},{"id":"GO:0021520","count":17},{"id":"GO:0021892","count":17},{"id":"GO:0060163","count":17},{"id":"GO:0021530","count":17}]},{"hash":"1787548174893990699","title":"Lymphocyte Receptor Signaling","description":"The cluster includes strong enrichment for B cell differentiation, B cell receptor signaling, T cell receptor signaling, and interleukin-4 production, pointing to adaptive immune receptor\u2013mediated communication and lymphocyte activation; other terms like ephrin signaling and retinoic acid response likely relate to immune cell trafficking and differentiation, while transcytosis and nitric oxide response provide broader context.","confidence":"High","size":17,"edges":42,"triangles":23,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0002333","count":17},{"id":"GO:0045056","count":17},{"id":"GO:0071732","count":17},{"id":"GO:0048013","count":17},{"id":"GO:0050853","count":17}]},{"hash":"978312436255271020","title":"Neural Development and Vesicle Trafficking","description":"The cluster shows a clear emphasis on neural development terms (forebrain development, brain development, nervous system development) and neuron apoptotic processes, pointing to a neural-biological theme. The inclusion of ER-to-Golgi vesicle transport suggests a trafficking role, which is important for neuronal growth and synapse formation. Other terms like TORC1 signaling regulation and copper ion homeostasis may reflect broader cellular support functions that accompany neural development, while the defense response annotation likely represents broader annotation overlap. Overall, the dominant theme is neural development with supporting trafficking functions.","confidence":"Medium","size":17,"edges":21,"triangles":5,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0051402","count":4},{"id":"GO:0030900","count":4}]},{"hash":"1374948983510736741","title":"Immune receptor signaling with actin remodeling","description":"The cluster is dominated by GO terms for T cell receptor signaling and B cell receptor signaling, plus actin filament polymerization and GTPase activity regulation, which together indicate immune signaling that is closely tied to cytoskeletal remodeling. Development-related terms are present but secondary, so the core theme is adaptive immune signaling coupled to actin dynamics.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":9},{"id":"GO:0043547","count":8},{"id":"GO:0050852","count":8},{"id":"GO:0050853","count":8},{"id":"GO:0030041","count":7}]},{"hash":"1774928263479748701","title":"Glycosylation and glycosphingolipid biosynthesis","description":"Top terms indicate N-linked glycosylation, protein sialylation, oligosaccharide and sialic acid metabolism, and glycosphingolipid biosynthesis (ganglioside and glycosylceramide). Despite a couple of developmental terms appearing, the dominant signal is glycan modification and glycosphingolipid biosynthesis, suggesting a coherent functional cluster around glycosylation pathways and lipid glycan assembly.","confidence":"Medium","size":17,"edges":16,"triangles":0,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0018279","count":3},{"id":"GO:0060173","count":2},{"id":"GO:1990743","count":2},{"id":"GO:0009846","count":2},{"id":"GO:0009311","count":2}]},{"hash":"2246236533235567394","title":"Neurodevelopmental transcriptional regulators","description":"The cluster centers on transcriptional control (DNA-templated transcription; regulation of RNA polymerase II) and brain development (brain development; midbrain morphogenesis), pointing to regulators that orchestrate neurodevelopment. Additional terms related to immune signaling (lipopolysaccharide response; defense response to virus; inflammatory cytokine regulation) suggest these transcriptional regulators may also connect to immune pathways, possibly in developmental or stress contexts. Overall, the core theme is transcriptional regulation shaping neural development, with secondary immune-associated signals.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0007420","count":2},{"id":"GO:1904693","count":2},{"id":"GO:0035264","count":2}]},{"hash":"1117957997389123321","title":"Embryonic Development and Organogenesis","description":"Top terms indicate broad embryonic development across multiple organs and tissues, including brain patterning (midbrain development, telencephalon regionalization), heart morphogenesis (outflow tract morphogenesis), endocrine gland development (pituitary, pancreas), gonad formation, limb/skeletal morphogenesis, and gastrulation (primitive streak formation). The presence of a general transcriptional regulation term suggests coordinated gene control during these developmental processes, supporting a cohesive label rather than a single pathway.","confidence":"Medium","size":17,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0030901","count":10},{"id":"GO:0003148","count":9},{"id":"GO:0021983","count":9},{"id":"GO:0008584","count":9}]},{"hash":"1607354927084941349","title":"Neural Development and Sensory Perception","description":"Dominant GO terms point to brain development, visual perception, and locomotory behavior, with supportive signals for oligodendrocyte progenitor proliferation. This suggests a core theme of nervous system development and sensory processing. The presence of terms like response to virus, xenobiotic stimulus, and extrinsic apoptotic signaling indicates broader cellular roles in stress and immune response, but these are less central to the cluster's primary signal.","confidence":"Medium","size":17,"edges":24,"triangles":2,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0008344","count":3},{"id":"GO:0009615","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0097192","count":3}]},{"hash":"1250561591588851710","title":"Unknown","description":"The GO terms are highly diverse (transcriptional regulation, midbrain development, coagulation, digestion, immune responses, etc.) and there is no single, coherent function linking the proteins. The network shows no edges, suggesting these proteins do not form a meaningful functional module. Therefore, no interpretable theme can be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0030901","count":10},{"id":"GO:0007596","count":7},{"id":"GO:0007586","count":7},{"id":"GO:0070684","count":7}]},{"hash":"1047188950899765287","title":"Vertebrate embryonic organogenesis","description":"These proteins cluster around development and morphogenesis across multiple organs (brain regions like habenula and retina, heart outflow tract, placenta, gonads, limbs, etc.), indicating a shared role in embryonic organ formation rather than a single tissue-specific function.","confidence":"Medium","size":17,"edges":110,"triangles":380,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021986","count":8},{"id":"GO:2000288","count":8},{"id":"GO:0060041","count":8},{"id":"GO:0003148","count":7},{"id":"GO:0001890","count":7}]},{"hash":"2283451084111506053","title":"Glycolysis and Glycogen Breakdown","description":"The top GO terms are centered on glycolysis, fructose-6-phosphate metabolism, and glycogen catabolic processes, indicating these proteins primarily participate in carbohydrate breakdown feeding glycolytic flux.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":5},{"id":"GO:0006002","count":4},{"id":"GO:0093001","count":4},{"id":"GO:0005980","count":4},{"id":"GO:0061621","count":4}]},{"hash":"113151162883928798","title":"Endosomal Trafficking and Vesicle Transport","description":"The cluster concentrates on vesicle trafficking, especially endosomal pathways, including endosome to lysosome transport, early-to-late endosome steps, and plasma membrane to endosome traffic, plus ER-to-Golgi vesicle transport and positive regulation of GTPase activity. Protein ubiquitination also aligns with trafficking regulation. A few terms (mitochondrial fission, epithelial polarity, lipoprotein assembly) appear peripheral, but the dominant theme is intracellular vesicle transport centered on endosomes. ","confidence":"High","size":17,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:1902953","count":4},{"id":"GO:0045022","count":4},{"id":"GO:0048227","count":4},{"id":"GO:0008333","count":4}]},{"hash":"1653021751043490871","title":"ER\u2013Golgi vesicle trafficking proteins","description":"The top GO terms center on ER-to-Golgi vesicle transport (COPII budding, retrograde Golgi\u2013ER transport) and intracellular protein transport, indicating a cohesive vesicle trafficking module. The additional cell division and growth terms may reflect roles of some proteins in mitosis or proliferation, but the core signal is ER\u2013Golgi trafficking machinery.","confidence":"Medium","size":17,"edges":16,"triangles":0,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":7},{"id":"GO:0051301","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0090316","count":5},{"id":"GO:0090307","count":5}]},{"hash":"1540397591605541665","title":"Phototransduction and Visual GPCR Signaling","description":"This cluster centers on GPCR-mediated signaling tied to vision, with phototransduction and visual perception as core terms, and supports the idea of dopamine- and adrenergic-receptor signaling triggering downstream cAMP and PLC pathways. While other terms like saliva secretion or heart development appear, the dominant theme is GPCR-driven visual signaling in retinal processes.","confidence":"High","size":17,"edges":118,"triangles":447,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0046541","count":9},{"id":"GO:0010513","count":8},{"id":"GO:0007603","count":8}]},{"hash":"1612328854579991901","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0030041","count":2},{"id":"GO:0032148","count":2},{"id":"GO:0001525","count":2}]},{"hash":"761322293679985682","title":"Sugar Catabolism Cluster","description":"Based on the GO terms, this group is dominated by carbohydrate catabolic processes and sugar metabolism, including D-gluconate, D-glucuronate, xylose, arabinose, rhamnose, fucose, glycerol, and xylulose catabolism. Several entries point to funneling diverse sugars into central metabolism (e.g., xylulose-5-phosphate). Quorum sensing appears in the top terms but is a less coherent theme; overall the cluster represents sugar utilization pathways.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":10},{"id":"GO:0019521","count":8},{"id":"GO:0009372","count":8},{"id":"GO:0019640","count":8},{"id":"GO:0019569","count":8}]},{"hash":"467408723371144533","title":"Embryonic development and tissue morphogenesis","description":"Most GO terms point to embryonic development and morphogenesis (placenta/epithelium/cardiac cushion formation, cartilage morphogenesis, left-right patterning, endocrine system development, trophoblast differentiation). Neuronal stem cell maintenance and transcriptional regulation fit within a broader developmental program, supporting a theme of developmental differentiation and tissue morphogenesis rather than a single molecular function.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097150","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0060536","count":3}]},{"hash":"1943704600911825476","title":"Sensory GPCR Signaling and Thermogenesis","description":"This cluster centers on sensory perception terms (pain, visual) and temperature-related responses, together with GPCR signaling pathways (adenylate cyclase activation and cGMP-coupled signaling). The presence of electron transport chain and membrane potential terms ties these signaling events to cellular energy status, which aligns with thermogenesis. Thus the label captures both multimodal sensory signaling and its link to energy metabolism. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":15},{"id":"GO:0002024","count":14},{"id":"GO:0071502","count":14},{"id":"GO:0007601","count":13},{"id":"GO:0045777","count":12}]},{"hash":"1375350667978130702","title":"Innate and Adaptive Immune Activation","description":"Top GO terms cluster around complement activation, phagocytosis, monocyte extravasation, lipoteichoic acid detection, TNF production, and T cell differentiation/activation, pointing to coordinated innate and adaptive immune responses and inflammatory signaling. The atrial cardiac muscle cell membrane depolarization term is likely incidental. ","confidence":"High","size":17,"edges":103,"triangles":296,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":9},{"id":"GO:0007157","count":8},{"id":"GO:0060371","count":6},{"id":"GO:1904469","count":6},{"id":"GO:0006911","count":6}]},{"hash":"1436270203168402347","title":"Pain-Related Neuroimmune Signaling","description":"Pain perception, neuropeptide signaling, and inflammatory/vascular terms cluster together, suggesting a module where nociception is linked with immune and vascular responses (e.g., inflammation, vasoconstriction, coagulation). Some terms like saliva secretion and diet-induced thermogenesis are broader autonomic/metabolic responses, but the dominant theme centers on pain-related neuroimmune signaling.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":10},{"id":"GO:0042391","count":9},{"id":"GO:0046541","count":9},{"id":"GO:0032496","count":9},{"id":"GO:0006954","count":9}]},{"hash":"950047601893472226","title":"Peptide signaling and GPCR regulation","description":"The top terms cluster around peptide-driven signaling and GPCR pathways: positive regulation of GPCR signaling, response to peptide, regulation of serotonin secretion, and gastrin-induced gastric acid secretion\u2014all point to endocrine/peptide signaling with GPCR involvement. While a few terms (blood coagulation, visual perception) are less obviously linked, they may reflect broader annotations or multi-functional proteins within the set. Overall, the shared theme is regulation and signaling mediated by peptide signals and GPCRs.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":14},{"id":"GO:0007601","count":14},{"id":"GO:0010513","count":14},{"id":"GO:2000458","count":14},{"id":"GO:0001698","count":14}]},{"hash":"1654512934742330574","title":"Enteric nervous system development and gut motility signaling","description":"Dominant GO terms point to enteric nervous system development, regulation of membrane potential, and peristalsis, suggesting the proteins are involved in gut neural development and motility. The presence of regulation of sensory perception of pain and ERK cascade activity supports neuronal signaling. Some terms like blood coagulation and visual perception appear less directly related and may reflect broad annotations for these proteins, but the core theme appears to be gut-nerve signaling and motility.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048484","count":13},{"id":"GO:0042391","count":13},{"id":"GO:0030432","count":13},{"id":"GO:0048245","count":13},{"id":"GO:0051930","count":13}]},{"hash":"966526432334038492","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0051301","count":3},{"id":"GO:1903461","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0006351","count":3}]},{"hash":"1477693789403938307","title":"Developmental Growth and Morphogenesis","description":"The top GO terms point to developmental processes across tissues\u2014axonal fasciculation, nerve branching regulation, angiogenesis, and root meristem growth\u2014suggesting a theme of growth and morphogenesis. Some unrelated terms (DNA replication, chromatin formation, xenobiotic response) appear, but the dominant signal is developmental shaping, so the label reflects the cluster\u2019s core function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007413","count":2},{"id":"GO:2000172","count":2},{"id":"GO:0045765","count":2},{"id":"GO:0006279","count":2},{"id":"GO:0007307","count":2}]},{"hash":"1953389918110211095","title":"Innate immune signaling and chemokine production","description":"The top GO terms cluster around innate immune sensing (NOD2 signaling), regulation of NF-kappaB activity, and chemokine production (CCL5), suggesting the proteins collectively modulate inflammatory signaling. While a few terms touch calcium signaling, heat-stress transcriptional responses, and angiogenesis, these appear peripheral to the core theme, making innate immune signaling and inflammatory mediator production the most representative label.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":4},{"id":"GO:2001275","count":3},{"id":"GO:0070431","count":3},{"id":"GO:0071651","count":3},{"id":"GO:0010845","count":3}]},{"hash":"470793868929173410","title":"Unknown","description":"The top GO terms span multiple tissues (eye vasculature, uterus, prostate, hepatocytes) and broad cellular processes (cell adhesion, differentiation) alongside diverse catabolic/biosynthetic reactions, with no clear, single function tying the proteins together.","confidence":"","size":16,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0061298","count":10},{"id":"GO:0019383","count":10},{"id":"GO:0060736","count":10},{"id":"GO:0010164","count":10},{"id":"GO:0010241","count":10}]},{"hash":"1831885449336560621","title":"ER-Golgi Secretory Pathway Trafficking","description":"This cluster centers on vesicle transport along the secretory pathway, especially ER-to-Golgi and Golgi-to-transport vesicles, plus regulation of exocytosis and associated small GTPase signaling. The presence of VLDL assembly in the ER and ER\u2013Golgi transport terms supports a cohesive secretory pathway theme, with some related endosome/lysosome transport and cytoskeletal coordination terms extending the trafficking network.","confidence":"High","size":16,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0034379","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0045956","count":3},{"id":"GO:1902824","count":3}]},{"hash":"2133891875370917948","title":"Ubiquitin-Dependent Signaling and Apoptosis Regulation","description":"This cluster centers on ubiquitin-mediated protein turnover and its influence on signaling pathways like JNK and TNF, including regulation of NF-\u03baB via I-kappaB phosphorylation and apoptosis. The top GO terms point to ubiquitin-dependent proteolysis, JNK regulation, TNF signaling, and protein autoubiquitination, suggesting a shared role in controlling cell survival and inflammatory signaling, with some links to chromatin turnover (histone catabolic process) and viral material transport regulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0046328","count":6},{"id":"GO:1903762","count":6},{"id":"GO:0042981","count":6},{"id":"GO:1903721","count":6}]},{"hash":"1417705634738102241","title":"Circadian Regulation via Ubiquitin-Proteasome System","description":"This cluster is dominated by ubiquitin-dependent proteolysis terms (ubiquitin-mediated protein catabolic process, SCF-dependent proteasomal ubiquitin-dependent degradation, protein polyubiquitination) and a regulation of circadian rhythm, pointing to a group of proteins involved in targeted protein turnover linked to circadian control. Additional terms related to metal-stress responses and DNA damage signaling fit within broader proteostasis and stress-response networks, reinforcing this theme.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0042752","count":7},{"id":"GO:0031146","count":5},{"id":"GO:0000209","count":5},{"id":"GO:0071406","count":4}]},{"hash":"678376490088560969","title":"Arp2/3-driven actin polymerization and cell migration","description":"This cluster is dominated by actin-related processes: filament polymerization, Arp2/3-mediated nucleation, cortical patch assembly, actomyosin contractile ring activity, and phagocytosis, plus mesenchyme migration. These terms together point to actin cytoskeleton remodeling and cell motility as the core function; a couple of outlier terms (retina homeostasis, histone acetylation) do not change the main theme.","confidence":"High","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030041","count":11},{"id":"GO:0006909","count":11},{"id":"GO:0001895","count":11},{"id":"GO:0043981","count":11},{"id":"GO:0051666","count":11}]},{"hash":"1673935751053600500","title":"Ribosome biogenesis and translation","description":"This cluster is strongly enriched for ribosome-related processes: translation, ribosomal subunit biogenesis, ribosome biogenesis, SSU-rRNA maturation, and rRNA methylation, indicating a core theme around ribosome assembly and protein synthesis. The additional terms related to cell cycle checkpoints, G1/S transition, and immune-related processes are present but appear less central to the primary function of the cluster. ","confidence":"High","size":16,"edges":92,"triangles":364,"max_degree":14,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":15},{"id":"GO:0042274","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0000462","count":4},{"id":"GO:0007093","count":3}]},{"hash":"1603275841686140277","title":"JNK signaling and immune-apoptotic regulation","description":"The terms cluster around regulation of the JNK cascade and apoptosis (including engulfment of apoptotic cells and apoptotic processes), with additional hints of ubiquitination and regulation of signaling (GTPase activity). Immune-related terms (adaptive immune response and NK cell cytotoxicity regulation) and developmental terms (heart and uterus development, anterior/posterior pattern specification) suggest a broader role in signaling that coordinates cell fate, immune modulation, and development. This supports a label focused on JNK signaling as a central thread linking apoptosis and immune regulation in a developmental context.","confidence":"Medium","size":16,"edges":18,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":3},{"id":"GO:0002250","count":3},{"id":"GO:0060065","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0009952","count":3}]},{"hash":"229636716297955176","title":"Plant secondary metabolism and defense responses","description":"The terms point to plant secondary metabolite production (anthocyanin biosynthesis; antibiotic biosynthetic process) and defense-related responses (response to xenobiotic stimulus, cell wall organization). While a few terms are obsolete or broad, the dominant signal links secondary metabolism with cell wall remodeling and energy metabolism (TCA cycle), suggesting a plant defense/metabolite biosynthesis cluster. ","confidence":"Medium","size":16,"edges":93,"triangles":255,"max_degree":15,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0009718","count":5},{"id":"GO:0042493","count":4},{"id":"GO:0019518","count":4},{"id":"GO:0071555","count":4}]},{"hash":"1494135364877114137","title":"Pollen exine formation and anther dehiscence","description":"These terms strongly point to pollen development, especially anther dehiscence and pollen exine formation, aided by nucleotide-sugar metabolism and glycosylation essential for pollen wall proteins. While some generic terms appear, the pollen-focused GO terms are predominant, justifying the label.","confidence":"High","size":16,"edges":79,"triangles":222,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0009901","count":11},{"id":"GO:0046706","count":11},{"id":"GO:0010584","count":11},{"id":"GO:0046032","count":11},{"id":"GO:0071405","count":11}]},{"hash":"2024880485823310855","title":"Sulfation-linked xenobiotic and hormone metabolism","description":"This cluster shows a clear emphasis on chemical modification and detoxification processes, including xenobiotic metabolism, bile acid and estrogen catabolism, flavonoid metabolism, and protein sulfation/sulfate assimilation. A few terms touch development, but the dominant pattern points to biotransformation and sulfation pathways rather than a single, cohesive developmental program.","confidence":"Medium","size":16,"edges":36,"triangles":27,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":5},{"id":"GO:0006711","count":5},{"id":"GO:0030573","count":5},{"id":"GO:0006477","count":5},{"id":"GO:0006805","count":5}]},{"hash":"197360073237854401","title":"Ciliary transport and signaling","description":"The terms cluster around ciliary biology and vesicle trafficking\u2014intraciliary transport, cilium assembly, clathrin-dependent endocytosis, and intracellular transport\u2014with Hedgehog/Smoothened signaling tied to the cilium. While a few signaling terms (e.g., androgen receptor, macrophage activation) are broader, the dominant theme is ciliary trafficking and related signaling. ","confidence":"High","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006886","count":2},{"id":"GO:0016183","count":2},{"id":"GO:0072583","count":2},{"id":"GO:0042116","count":2},{"id":"GO:0042073","count":1}]},{"hash":"132428777088640297","title":"Ubiquitin-Dependent Protein Turnover and Signaling","description":"The cluster is dominated by GO terms for ubiquitination and ubiquitin-dependent protein catabolic processes, indicating involvement in protein turnover. Additional terms point to intracellular signal transduction and related pathways (e.g., NOD2 signaling and vitamin D response), suggesting these proteins participate in ubiquitin-regulated signaling networks rather than a single, isolated function.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0016567","count":5},{"id":"GO:0098907","count":4},{"id":"GO:1904357","count":4},{"id":"GO:0033280","count":4}]},{"hash":"1206883081272520865","title":"Ubiquitin-dependent immune signaling","description":"The cluster is dominated by GO terms for ubiquitination (ubiquitin-dependent protein catabolic process, protein polyubiquitination, K63-linked ubiquitination, autoubiquitination) and innate immune/inflammatory signaling (innate immune response, defense response to virus, canonical NF-kappaB signaling, TNF signaling). This points to a coherent theme where ubiquitin modifications regulate immune defense and inflammatory pathways, with histone ubiquitination as a possible chromatin-level connection. Therefore, the label \"Ubiquitin-dependent immune signaling\" is representative of the cluster.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0045087","count":7},{"id":"GO:0051607","count":7},{"id":"GO:0036205","count":6},{"id":"GO:0097039","count":6}]},{"hash":"459779075455906293","title":"Developmental Regulation and Nuclear Processes","description":"Developmental terms (gastrulation, skeletal system development, regulation of meiotic nuclear division) cluster with nuclear/chromatin regulatory activities (histone H3 acetylation, nuclear pore localization, ubiquitin ligase activity, cytokinesis regulation). This suggests a cohesive theme of development coordinated by chromatin modification and nuclear transport/regulation, with some additional regulatory terms that support cellular control during development. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0007584","count":7},{"id":"GO:0001501","count":6},{"id":"GO:0043966","count":6},{"id":"GO:0007369","count":6},{"id":"GO:1904668","count":6}]},{"hash":"1274966325315598968","title":"Neuronal development, axon guidance, and myelination","description":"These terms cluster around nervous system development, neurogenesis, and peripheral nervous system formation, with strong signals for myelination and synapse organization. The presence of Roundabout (ROBO) and Hedgehog (Smoothened) signaling links to axon guidance and neural patterning, reinforcing a neural development theme. A minority of terms touch cytokine signaling (IL-27/STAT), but the dominant pattern points to neuronal differentiation, connectivity, and myelinating processes.","confidence":"High","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0045663","count":11},{"id":"GO:0042517","count":11},{"id":"GO:0035385","count":11},{"id":"GO:0007399","count":11},{"id":"GO:0022008","count":11}]},{"hash":"2094862272731634561","title":"Visual-system neuron development and axon guidance","description":"The top GO terms cluster around neural development and axon guidance in the visual system, including central nervous system projection neuron axonogenesis, retinal ganglion cell axon guidance, fasciculation of sensory neuron axons, and visual perception, suggesting a coherent theme of neuronal wiring and visual system maturation despite a few unrelated terms. ","confidence":"High","size":16,"edges":47,"triangles":37,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021952","count":16},{"id":"GO:0007601","count":16},{"id":"GO:0045819","count":16},{"id":"GO:1901196","count":16},{"id":"GO:1990803","count":16}]},{"hash":"563105815014086237","title":"Actin cytoskeleton dynamics and cell adhesion","description":"The cluster centers on actin-based protrusions and adhesion-related processes (filopodium assembly, cell spreading) and includes regulators of Rho and Ras signaling, polarity and cytoskeletal organization, as well as mitotic spindle assembly and cell division, pointing to a cohesive theme of cytoskeletal remodeling during division and cell movement.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046847","count":3},{"id":"GO:0051301","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0046580","count":3}]},{"hash":"6327335363374643","title":"Immune signaling and neural development cues","description":"These GO terms cluster around immune activation and inflammation (wound healing regulation, MCP-1 production, dendritic cell differentiation, cell-cell adhesion) and neural development processes (myelination, regulation of synapse assembly, myoblast differentiation), with a note on host\u2013pathogen interactions (symbiont entry into host cell). The combination suggests a theme of immune-tissue remodeling alongside neural development signals, possibly reflecting neuroimmune communication. ","confidence":"Medium","size":16,"edges":33,"triangles":22,"max_degree":13,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1904597","count":9},{"id":"GO:0071639","count":9},{"id":"GO:2001200","count":9},{"id":"GO:1904604","count":9},{"id":"GO:0007157","count":8}]},{"hash":"1149585072765545105","title":"Multi-tissue cell fate specification","description":"Based on the top GO terms, this cluster centers on differentiation and cell fate specification across diverse tissues (neuronal lineages in spinal cord and cortex, oligodendrocyte development, skeletal muscle differentiation, bronchiole development, and endocrine pancreas development). The recurrent theme of lineage specification, supported by multiple tissue contexts, suggests a shared function in developmental differentiation, with RNA polymerase II transcription serving as a general backdrop. ","confidence":"High","size":16,"edges":117,"triangles":521,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":11},{"id":"GO:0031018","count":9},{"id":"GO:0021520","count":7},{"id":"GO:0021892","count":7},{"id":"GO:0060163","count":7}]},{"hash":"2214742459704688370","title":"Mitochondrial Metabolite and Ion Transport","description":"The GO terms point to transport of deoxynucleotides and various ions (Mn, Mg, phosphate), NAD and citrate across mitochondrial membranes, plus the malate-aspartate shuttle, all central to mitochondrial metabolism. The mitochondrial localization and metabolic-stress response terms (insulin signaling, amino acid starvation) further support a cohesive role in mitochondrial transport/metabolism rather than disparate functions.","confidence":"High","size":16,"edges":69,"triangles":136,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0030302","count":15},{"id":"GO:1990616","count":15},{"id":"GO:0090152","count":15},{"id":"GO:0032869","count":15},{"id":"GO:0006828","count":15}]},{"hash":"1860919032475154503","title":"Cell Cycle Regulation and Transcription Control","description":"The top GO terms cluster around regulation of DNA-templated transcription and various cell cycle processes (APC-dependent catabolic process, regulation of mitotic metaphase/anaphase transition, cell division, meiosis I), with ubiquitination (K11-linked) supporting APC/C-mediated proteolysis. Developmental signaling terms (TLR4/MyD88, EMT, SMAD) suggest broader regulatory context, but the core theme centers on transcription control coupled with cell cycle regulation.","confidence":"Medium","size":16,"edges":24,"triangles":8,"max_degree":12,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":6},{"id":"GO:0035660","count":6},{"id":"GO:0007527","count":6},{"id":"GO:0003198","count":2},{"id":"GO:0060389","count":2}]},{"hash":"1424638319274372702","title":"GPCR-driven sensory signaling and temperature response","description":"The cluster is dominated by GO terms for sensory perception (pain, vision), GPCR-mediated signaling (dopamine receptor pathway), and responses to temperature and prostaglandin stimuli, all pointing to a shared role in GPCR-driven sensory transduction and thermoregulatory signaling; membrane potential regulation and protein phosphorylation further support neural signal transduction.","confidence":"High","size":16,"edges":26,"triangles":8,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":12},{"id":"GO:0002024","count":11},{"id":"GO:0071502","count":11},{"id":"GO:0071380","count":9},{"id":"GO:0042391","count":9}]},{"hash":"134584290676741042","title":"Unknown","description":"The top GO terms span developmental signaling (Wnt pathway, midbrain development, multicellular growth), immune/defense (defense against Gram-positive bacteria, classical and lectin complement activation), and miscellaneous processes (digestion, collagen catabolic process, transcriptional regulation), with no clear, single-function theme tying the proteins together. The lack of edges/connectedness further suggests the cluster is heterogeneous rather than functionally cohesive.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0016055","count":8},{"id":"GO:0007596","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0030574","count":7},{"id":"GO:0030901","count":7}]},{"hash":"913466539887160121","title":"Unknown","description":"The top GO terms are very heterogeneous (development in cartilage, lung, and pancreatic cells; complement activation pathways; transcription regulation; apoptosis; and other processes), with no clear, common biological theme or shared pathway driving the cluster. There are no edges or connectivity to suggest a cohesive function, so a single, specific label cannot be confidently assigned.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051216","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0006958","count":3},{"id":"GO:0001867","count":3}]},{"hash":"451927281759641825","title":"Mitochondrial Transport and Metabolic Exchange","description":"Cluster centers on mitochondrial transport and metabolism, with multiple terms for transmembrane transport of ions and metabolites (deoxynucleotides, phosphate, citrate, Mg2+, Mn2+) and the malate-aspartate shuttle, plus mitochondrial localization/fission hints. This pattern points to a cohesive mitochondrial transport/metabolic function.","confidence":"High","size":16,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0070542","count":13},{"id":"GO:0030302","count":12},{"id":"GO:1990616","count":12},{"id":"GO:0090152","count":12},{"id":"GO:0032869","count":12}]},{"hash":"2088816376795740498","title":"Diverse Substrate Membrane Transporters","description":"This cluster is dominated by GO terms for transmembrane transport across a wide range of substrates (vitamins, xenobiotics, ions, sugars, and inorganic ions), suggesting the proteins function collectively as membrane transporters with diverse substrate specificity. The strong enrichment for broad transport terms supports labeling as a transporter-focused cluster rather than a functionally narrow group.","confidence":"High","size":16,"edges":11,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":15},{"id":"GO:0006855","count":15},{"id":"GO:0042908","count":12},{"id":"GO:0071805","count":12},{"id":"GO:0042891","count":11}]},{"hash":"49443427180373466","title":"Zinc Transport and Homeostasis","description":"The cluster is dominated by GO terms related to zinc ion import across the plasma membrane, intracellular zinc ion homeostasis, and detoxification, with supporting signals for zinc response and cadmium transport. While a few terms (redox/homeostasis, limb development) are less directly tied, the zinc-related processes clearly bind the set, suggesting a common function in zinc uptake and maintenance. ","confidence":"Medium","size":16,"edges":9,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0070574","count":2},{"id":"GO:0034224","count":2},{"id":"GO:0006882","count":2},{"id":"GO:0006831","count":2}]},{"hash":"1314229233269059196","title":"Dopaminergic Visual Perception Signaling","description":"The cluster shows strong enrichment for neural sensory and dopaminergic signaling terms, including visual perception, visual learning, dopaminergic synaptic transmission, and cocaine-related behavioral responses, with ERK pathway regulation adding a plasticity dimension. These together point to a cohesive theme of neuronal signaling and sensory processing, centered on visual and dopaminergic pathways, despite a few outlier terms.","confidence":"Medium","size":16,"edges":102,"triangles":364,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":12},{"id":"GO:0010759","count":12},{"id":"GO:0019233","count":12},{"id":"GO:0007507","count":12},{"id":"GO:0008542","count":12}]},{"hash":"2212109692152347349","title":"Amino acid biosynthesis and energy metabolism with iron response","description":"This cluster centers on pathways for amino acid biosynthesis (leucine, isoleucine, lysine), central carbon metabolism (TCA cycle), and energy/storage metabolism (glycogen biosynthesis, coenzyme B biosynthesis), complemented by nutrient stress and metal ion homeostasis signals (response to starvation; intracellular iron ion homeostasis; response to iron(II) ion). The combination suggests a metabolic module coordinating amino acid production, energy metabolism, carbohydrate storage, and iron/nutrient stress management. ","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009097","count":4},{"id":"GO:0009791","count":4},{"id":"GO:0019878","count":4},{"id":"GO:0009098","count":3},{"id":"GO:0006099","count":3}]},{"hash":"1227139937545204899","title":"GPCR Signaling and Energy Metabolism","description":"The dominant terms show GPCR-mediated adenylate cyclase activation and positive blood pressure regulation, alongside electron transport chain activity, suggesting a link between signal transduction and mitochondrial energy production. The presence of dopaminergic synaptic transmission, visual perception, astrocyte chemotaxis, and gastric acid secretion indicates broad physiological roles for signaling in neural, vascular, and other tissues, so the label captures a general theme of signaling tied to energy metabolism rather than a single, narrow pathway.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":12},{"id":"GO:0007190","count":12},{"id":"GO:0022900","count":12},{"id":"GO:0010579","count":12},{"id":"GO:0001963","count":8}]},{"hash":"74308482693215498","title":"Innate Immune Defense and Actin Remodeling","description":"This cluster centers on innate immune activity, with GO terms for innate immune response, defense against Gram-positive bacteria, dsRNA sensing, LPS, and virus defense, indicating core immune function. It also features strong signals for actin cytoskeleton remodeling (Arp2/3-mediated actin nucleation, actin filament severing) and dendritic spine morphogenesis, suggesting roles in dynamic cytoskeletal rearrangements during immune activation or broader cell morphology changes. The common thread is immune signaling linked to cytoskeletal dynamics, even without observed internal edges.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0045087","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0046426","count":3},{"id":"GO:0060997","count":3}]},{"hash":"1869476157586321894","title":"Rho-GTPase Signaling and Cytoskeletal Dynamics","description":"The cluster is enriched for GO terms centered on Rho GTPase signaling, GTPase activity, phosphatidylinositol signaling, and actin cytoskeleton organization, suggesting proteins that coordinate cytoskeletal remodeling and cell movement; other terms like keratinocyte proliferation and transcription may reflect broader regulatory roles in these cells.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060313","count":2},{"id":"GO:0043314","count":2},{"id":"GO:0031532","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0002692","count":2}]},{"hash":"1927446310762490619","title":"Neuronal Synapse Formation and Plasticity","description":"The cluster centers on neuronal synapse development and plasticity, with terms like regulation of Rho signaling, dendritic spine morphogenesis, and positive regulation of synapse assembly/plasticity, indicating actin remodeling and synapse formation. Additional terms such as sensory perception of sound, corpus callosum development, and visual learning point to brain connectivity and learning processes; a minor outlier term (lipopolysaccharide response) seems less central to this neuronal theme.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0051965","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0060997","count":3},{"id":"GO:0051835","count":3}]},{"hash":"2154248644959196198","title":"Chromatin remodeling and chromosome condensation during cell division","description":"The top GO terms point strongly to chromatin regulation and mitosis (rDNA heterochromatin formation, chromatin remodeling, histone acetylation, mitotic chromosome condensation, cell division). This suggests the cluster centers on chromatin architecture and chromosome condensation during cell division, with some unrelated vesicle transport terms likely representing secondary associations. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000183","count":3},{"id":"GO:0006888","count":2},{"id":"GO:0007076","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006890","count":2}]},{"hash":"928796321906346935","title":"Neuronal actin dynamics and development","description":"The terms strongly point to actin cytoskeleton remodeling (actin nucleation, actin filament network formation, formin-nucleated actin cable assembly) and neural processes (long-term synaptic depression, cerebral cortex development), suggesting a cluster of proteins involved in actin-driven neuronal development and synaptic plasticity. Some plant-related terms (ABA signaling, seed dormancy) appear but are likely noise relative to the dominant neuronal/cytoskeletal themes. Therefore the label focuses on actin dynamics in neural contexts.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060292","count":2},{"id":"GO:0021987","count":2},{"id":"GO:0009789","count":1},{"id":"GO:0009738","count":1},{"id":"GO:0010231","count":1}]},{"hash":"1312816851555989003","title":"Tissue Development and Coagulation","description":"Top GO terms show a mix of tissue development (biomineral tissue development, collagen catabolic process) and extracellular matrix/digestion processes (digestive system development, digestion), along with immune/coagulation pathways (complement activation with classical and lectin pathways, positive regulation of blood coagulation). This blend suggests a thematic link to tissue formation and remodeling in conjunction with immune and coagulation processes, while the transcription regulation terms may reflect regulatory proteins that control these functions. Given the diverse but interconnected terms, the label captures a broad, representative theme for the cluster rather than a single narrow function.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0007596","count":4},{"id":"GO:0055123","count":4},{"id":"GO:0031214","count":4},{"id":"GO:0030574","count":4}]},{"hash":"831767424731079457","title":"Sensory Perception and Inflammatory GPCR Signaling","description":"The top GO terms center on sensory modalities (pain, temperature, vision) and GPCR-mediated signaling, with related inflammatory and glial responses (astrocyte chemotaxis, acute inflammatory response). This suggests a cluster focused on sensory signal transduction linked to GPCR pathways and neuroimmune signaling, rather than a single metabolic or structural pathway. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":12},{"id":"GO:0002024","count":12},{"id":"GO:0071502","count":12},{"id":"GO:0010513","count":12},{"id":"GO:0010579","count":12}]},{"hash":"842441604361469708","title":"GPCR Signaling and Calcium/cAMP Pathways","description":"The GO terms show activation of adenylate cyclase, calcium release, membrane potential changes, morphine response, and cardiovascular/visual processes, all typical outputs of GPCR signaling. This, plus regulation of GTPase activity and cAMP signaling, points to a GPCR-mediated signaling cluster with downstream Ca2+ and cAMP pathways.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":12},{"id":"GO:0007190","count":12},{"id":"GO:0008284","count":12},{"id":"GO:0051281","count":12},{"id":"GO:0007507","count":12}]},{"hash":"1509657366240249222","title":"RNA processing and translation initiation","description":"The proteins show strong enrichment for post-transcriptional RNA processes (mRNA processing, splicing, stability regulation) and translation initiation, including translation reinitiation and preinitiation complex formation. This suggests a cohesive cluster focused on RNA handling and control of protein synthesis. Some terms (sporule membrane formation, extracellular matrix disassembly) appear but are less central, possibly reflecting multifunctionality or broader cellular roles. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0002188","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0006397","count":4}]},{"hash":"823473745953887598","title":"Unknown","description":"The GO terms include cardiovascular-related processes (blood pressure regulation, coagulation), sensory perception (pain, vision), and core signaling/metabolic processes (GPCR signaling, Rho, PI biosynthesis, electron transport, thermogenesis). There is no single, cohesive function tying all terms together, suggesting the cluster cannot be confidently assigned a specific biological theme.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":13},{"id":"GO:0022900","count":13},{"id":"GO:0010579","count":13},{"id":"GO:0035025","count":13},{"id":"GO:0019233","count":12}]},{"hash":"244179580155698742","title":"Strigolactone-Responsive Plant Development and Metabolism","description":"The top GO terms center on strigolactone signaling (cellular response to strigolactone) and related shoot development (secondary shoot formation), with additional metabolic processes such as lipid, stilbene, biotin, and methionine metabolism, plus redox. This suggests a plant protein cluster linked to strigolactone-mediated development and associated metabolism, rather than a single narrow function.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0009636","count":6},{"id":"GO:0019433","count":5},{"id":"GO:0009102","count":4},{"id":"GO:0097755","count":4},{"id":"GO:0009086","count":4}]},{"hash":"1918101789099684186","title":"Lipid and retinoid metabolism with autophagy regulation","description":"Top terms emphasize lipid pathways (diacylglycerolipid, ether lipid, NAPE), lipid transport, and retinol/vitamin A metabolism, along with adipose tissue development regulation and cellular responses to amino acid starvation and autophagy. This suggests a coherent theme around lipid/retinoid metabolism coupled with nutrient signaling.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034198","count":1},{"id":"GO:0010507","count":1},{"id":"GO:0006653","count":1},{"id":"GO:0070292","count":1},{"id":"GO:0032370","count":1}]},{"hash":"1903195009527031091","title":"Neuronal signaling and mitochondrial stress","description":"The Top Terms include dopamine receptor signaling, Wnt signaling (and secretion), lysosome/endosome trafficking, mitochondrial fragmentation in apoptosis, and response to rotenone, all pointing to neuronal signaling pathways coupled with mitochondrial/trafficking stress responses. The presence of voluntary movement ties in with neural control of motor function, supporting a cohesive theme of neuronal signaling and cellular stress responses rather than a single metabolic pathway.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":2},{"id":"GO:0031648","count":1},{"id":"GO:0043653","count":1},{"id":"GO:0060161","count":1},{"id":"GO:0090263","count":1}]},{"hash":"1126313110667305846","title":"Actin-driven cell migration and polarity","description":"The top GO terms cluster around actin cytoskeleton dynamics (actin filament bundle assembly, actin cortical patch assembly), cell migration, and establishment of epithelial cell polarity, plus membrane remodeling processes (plasma membrane tubulation, membrane invagination). These collectively point to actin-mediated movement and polarity establishment as the shared theme, despite a couple of outlier terms.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014911","count":4},{"id":"GO:0051017","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0090162","count":4},{"id":"GO:0010324","count":3}]},{"hash":"1788969470094671921","title":"Keratan sulfate proteoglycan synthesis","description":"This cluster is enriched for keratan sulfate proteoglycan biosynthetic and proteoglycan metabolic processes, pointing to production of extracellular matrix components. The accompanying developmental terms (embryonic development and cerebellar Purkinje cell differentiation/layer development) suggest a link between proteoglycan synthesis and development, particularly neural development. Peripheral terms like transcriptional regulation and apoptosis are less central to the core theme.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048147","count":3},{"id":"GO:0018146","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0021702","count":2}]},{"hash":"467657476228854213","title":"Heart Development and Notch Signaling","description":"The top GO terms are dominated by cardiovascular-related processes: venous endothelial differentiation, cardiac right atrium morphogenesis, and Notch signaling influencing heart field cardioblast proliferation. While a few terms touch on chromatin regulation, autophagy, and immune signaling, the strongest and most coherent theme across the cluster is heart development and Notch pathway involvement, suggesting these proteins function in early cardiovascular specification and morphogenesis.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060843","count":3},{"id":"GO:0071901","count":3},{"id":"GO:0003270","count":3},{"id":"GO:0003213","count":3},{"id":"GO:0035562","count":2}]},{"hash":"1559711740840478584","title":"GTPase-driven cell polarity and migration","description":"The cluster is centered on GO terms for establishing epithelial cell polarity and for small GTPase\u2013mediated signaling, including positive regulation of GTPase activity, which together point to Rho/Rac/Cdc42-type pathways controlling actin remodeling (actin filament bundle assembly, podosome assembly) and cell migration. Although IL-4 production and NK T cell differentiation appear in the mix, the dominant theme across the top terms is GTPase-driven regulation of polarity and cytoskeletal dynamics, underpinning coordinated cell movement. This makes a concise label around GTPase signaling, polarity, and motility most representative.","confidence":"Medium","size":15,"edges":22,"triangles":5,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0090162","count":12},{"id":"GO:0007264","count":12},{"id":"GO:0043547","count":12},{"id":"GO:0008286","count":12},{"id":"GO:0071803","count":12}]},{"hash":"1616413452364275654","title":"Actin-Driven Epithelial Migration and Polarity","description":"The top GO terms repeatedly point to actin filament bundle assembly, cell migration, and establishment of epithelial cell polarity, with additional hints of membrane remodeling and GTPase regulation of the cytoskeleton. Taken together, these suggest a cluster of proteins coordinating actin dynamics to drive polarized motility in epithelial contexts.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051017","count":7},{"id":"GO:0090162","count":7},{"id":"GO:0016477","count":7},{"id":"GO:0060378","count":5},{"id":"GO:0097320","count":5}]},{"hash":"1697275488704871695","title":"Fungal lipid biosynthesis and redox balance","description":"This cluster is characterized by lipid metabolism terms (unsaturated fatty acid biosynthesis, ergosterol biosynthetic process regulation, and mannosyl-inositol phosphorylceramide metabolism) typical of fungal membrane lipid pathways, alongside redox-related processes (cellular redox homeostasis, cellular oxidant detoxification, nitric oxide biosynthesis), suggesting a link between lipid biosynthesis and redox regulation. Some terms appear species-specific or unrelated (e.g., CNS myelin maintenance, sebaceous gland differentiation), but the dominant theme centers on fungal lipid metabolism and redox balance.","confidence":"Medium","size":15,"edges":94,"triangles":336,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":7},{"id":"GO:0006636","count":5},{"id":"GO:0032286","count":5},{"id":"GO:0001949","count":5},{"id":"GO:0006675","count":5}]},{"hash":"1220292054060481891","title":"Ubiquitin-Dependent Protein Turnover and Apoptosis Regulation","description":"The top GO terms cluster around ubiquitination and ubiquitin-dependent protein degradation (including histone ubiquitination) and regulation of apoptotic processes. While there are stray cardiac-related terms, the dominant theme is ubiquitin-mediated protein turnover and apoptosis control, suggesting a cohesive functional group centered on protein degradation pathways modulated by ubiquitination.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0016567","count":7},{"id":"GO:0042981","count":6},{"id":"GO:0003151","count":6},{"id":"GO:0098910","count":6}]},{"hash":"1656315572783933996","title":"Ubiquitin-Dependent Protein Turnover and Cell Cycle Control","description":"The top GO terms are dominated by ubiquitin-related processes (ubiquitin-dependent protein catabolic process, protein ubiquitination, polyubiquitination) and regulatory roles such as negative regulation of apoptosis and transcription by RNA polymerase II, along with regulation of the cell cycle. This suggests a cohesive theme where ubiquitin-mediated protein turnover controls cell fate, proliferation, and gene expression. While other terms touch on broader regulatory areas like synaptic plasticity and immune responses, they do not override the central ubiquitin-centered function.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0043066","count":5},{"id":"GO:0016567","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0000209","count":4}]},{"hash":"1787285698549740851","title":"Macrophage NO production and inflammatory signaling","description":"This cluster is dominated by GO terms for nitric oxide biosynthesis and NO production in inflammatory response, along with terms about macrophage activation and immune signaling, suggesting proteins that participate in NO-mediated macrophage inflammation and related apoptosis signaling. Arginine and lysine transport terms align with substrate supply for NO production and general metabolic support, but the central theme remains immune/inflammatory NO signaling.","confidence":"High","size":15,"edges":16,"triangles":4,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006809","count":3},{"id":"GO:0032088","count":3},{"id":"GO:0008625","count":3},{"id":"GO:0097639","count":2},{"id":"GO:0042941","count":2}]},{"hash":"1584253909981142054","title":"Angiogenesis and ECM-immune remodeling","description":"The cluster bundles processes related to vascular remodeling (sprouting angiogenesis, integrin signaling) and extracellular matrix dynamics (collagen fibril organization, lipoprotein clearance) with innate immune activity (innate immune response, classical complement activation). The presence of blood-pressure regulation via atrial natriuretic peptide hints at cardiovascular context, tying together vascular remodeling, ECM interactions, and immune modulation in a cohesive vascular-ECM-immune module.","confidence":"Medium","size":15,"edges":12,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0002040","count":10},{"id":"GO:0003050","count":8},{"id":"GO:0045087","count":8},{"id":"GO:0006958","count":8},{"id":"GO:0016540","count":7}]},{"hash":"2051425783870756641","title":"Unknown","description":"The top GO terms are mixed: translation-related processes (tRNA metabolism, regulation of translational fidelity) alongside signaling (G protein-coupled acetylcholine receptor signaling) and diverse physiological processes (blood vessel maturation, retina homeostasis, spermatogenesis, blood coagulation). This lack of a single cohesive function makes a precise, representative label unreliable.","confidence":"","size":15,"edges":5,"triangles":0,"max_degree":4,"top_function":"tRNA metabolic process","top_go_terms":[{"id":"GO:0006399","count":3},{"id":"GO:1900832","count":3},{"id":"GO:0006450","count":3},{"id":"GO:1900829","count":3},{"id":"GO:0007213","count":3}]},{"hash":"1948770314367957200","title":"DNA replication, transcription, and repair cluster","description":"This cluster is most represented by GO terms related to nuclear DNA metabolism: DNA-templated transcription, DNA repair, DNA replication, and mitotic cell cycle. These point to a cohesive theme of maintaining and duplicating genetic information during cell division. While other terms (translation, various signaling and development terms) appear, the strongest, most frequent signals center on DNA replication/transcription/repair and cell-cycle processes, justifying the label. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006281","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0090263","count":2}]},{"hash":"893935585037247799","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":31,"triangles":23,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0043966","count":3},{"id":"GO:0090503","count":2},{"id":"GO:0006364","count":2},{"id":"GO:1902375","count":2},{"id":"GO:0031426","count":2}]},{"hash":"973365308165772711","title":"Cerebellar neuron and Bergmann glia development","description":"The top GO terms are dominated by cerebellum-related processes: Bergmann glial cell differentiation and cerebellar cortex formation, along with neuron development and dendritic spine morphogenesis. This pattern suggests a cluster of proteins involved in cerebellar neuron differentiation and glial maturation, with associated neuronal morphogenesis and axon/dendrite remodeling. Some terms like insulin or T cell signaling appear ancillary and do not define the core theme. Therefore the label reflects cerebellar neuron development and Bergmann glia differentiation.","confidence":"High","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060020","count":14},{"id":"GO:0021697","count":14},{"id":"GO:2001275","count":14},{"id":"GO:0050852","count":14},{"id":"GO:0008285","count":14}]},{"hash":"661806437032232352","title":"Glutamatergic synapse assembly and plasticity","description":"This cluster centers on glutamatergic neuronal signaling: postsynaptic density assembly, AMPA receptor clustering, and regulation of excitatory transmission and long-term plasticity. Several terms point to excitatory synapse organization and plastic changes (Olu, excitatory postsynaptic potential, synaptic transmission, long-term plasticity). A couple terms (like parathyroid gland development) seem unrelated and likely noise. Overall, the dominant theme is assembly and regulation of glutamatergic synapses and their plasticity, with behavioral terms reflecting neural circuit function. ","confidence":"High","size":15,"edges":13,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0097107","count":2},{"id":"GO:0071625","count":2},{"id":"GO:0060017","count":2},{"id":"GO:1900044","count":2},{"id":"GO:0051968","count":2}]},{"hash":"1756321211257140653","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":62,"triangles":78,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":7},{"id":"GO:0016310","count":6},{"id":"GO:0046328","count":5},{"id":"GO:1903764","count":5},{"id":"GO:0046711","count":5}]},{"hash":"1105645544822103500","title":"Transcriptional Regulation and Cell Cycle","description":"The top GO terms cluster around transcriptional control (RNA polymerase II preinitiation complex assembly and negative regulation of transcription by RNA Pol II, histone H3 acetylation) and cell cycle processes (G1/S transition, mitotic chromosome condensation). Additional terms touch on development and xenobiotic responses, but the shared theme appears to be regulation of gene expression linked to cell proliferation and chromatin state. This label captures the central pattern among the terms.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":2},{"id":"GO:0000082","count":2},{"id":"GO:0030879","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0048147","count":2}]},{"hash":"1379173418264839260","title":"Calcium-regulated muscle contraction and development","description":"The top GO terms cluster around calcium signaling and regulation of muscle contraction (cardiac and skeletal), plus muscle fiber development and regulation of filament sliding speed, with related metabolic (glycogen catabolic) and remodeling processes. A few terms like visual perception and kidney development appear as outliers, but the dominant theme points to calcium-dependent control of muscle function and development.","confidence":"High","size":15,"edges":18,"triangles":7,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":7},{"id":"GO:0010881","count":7},{"id":"GO:0098735","count":7},{"id":"GO:0048741","count":7},{"id":"GO:0005513","count":7}]},{"hash":"415262344281286245","title":"Developmental transcriptional regulators","description":"This cluster centers on transcriptional control during embryonic development, evidenced by GO terms for RNA Pol II transcription and its negative regulation, plus numerous organogenesis and neural development terms (primitive streak formation, peripheral nervous system neuron development, eye and lung morphogenesis, pituitary and muscle development, dopaminergic neuron differentiation). The pattern suggests these proteins function as regulators coordinating developmental gene expression across tissues.","confidence":"High","size":15,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0090009","count":5},{"id":"GO:0048935","count":5},{"id":"GO:0006366","count":5},{"id":"GO:0060441","count":4}]},{"hash":"915109712513134998","title":"Chromatin Organization and T Cell Tolerance","description":"The cluster's proteins are linked to histone methylation and nucleosome assembly/heterochromatin organization, indicating a chromatin-regulation theme. The presence of central and peripheral T cell tolerance induction terms suggests these chromatin-modifying factors may influence gene expression programs essential for T cell tolerance, integrating chromatin state with immune regulation.","confidence":"Medium","size":15,"edges":22,"triangles":8,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0098532","count":3},{"id":"GO:0080182","count":3},{"id":"GO:0006334","count":3},{"id":"GO:0016584","count":2},{"id":"GO:0071169","count":2}]},{"hash":"1352106563371272513","title":"Ribosome Biogenesis and RNA Processing","description":"This cluster is driven by GO terms for rRNA maturation (SSU, LSU, 5.8S) and ribosomal large subunit biogenesis, plus mRNA splicing via spliceosome, which together point to RNA metabolism and ribosome assembly. While there are additional terms such as ER-to-Golgi vesicle transport and cilium assembly, these are less central to the core theme and may reflect multifunctionality or annotation noise. Overall, the strongest signal is RNA processing and ribosome biogenesis, so this label captures the main function represented. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0000462","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0000209","count":3}]},{"hash":"1953629032470248990","title":"Rho\u2013Actin Cytoskeleton Regulation in Development","description":"Based on the top GO terms, the strongest signal is regulation of actin dynamics (barbed-end capping) and Rho signaling, pointing to cytoskeletal control. The presence of morphogenesis-related terms (branching in salivary gland morphogenesis, germarium-derived oocyte fate determination, mating plug formation) suggests a developmental context in which cytoskeletal remodeling is crucial. Additional terms about endothelial barrier establishment and inflammatory response reflect related signaling and barrier dynamics, but the core theme centers on Actin/Rho regulation during development.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051016","count":4},{"id":"GO:0051092","count":3},{"id":"GO:0090557","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0048661","count":2}]},{"hash":"1865227073444910017","title":"Retinal and CNS axon guidance","description":"This cluster is dominated by GO terms related to neuron projection development and axon guidance in the visual system, including CNS projection neuron axonogenesis, retinal ganglion cell axon guidance, and fasciculation of sensory neuron axons, with a supporting link to visual perception. While some terms point to broader cellular processes, the central theme is wiring of visual neurons and retinal/CNS axon pathfinding, suggesting the proteins work together in establishing visual circuitry.","confidence":"High","size":15,"edges":16,"triangles":3,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021952","count":15},{"id":"GO:0007601","count":15},{"id":"GO:0045819","count":15},{"id":"GO:1901196","count":15},{"id":"GO:1990803","count":15}]},{"hash":"1850655662904181554","title":"Neuroimmune development and nociception","description":"This cluster combines neural development terms (axonogenesis, corpus callosum development, positive regulation of synapse assembly) with innate immune terms (innate immune response, response to exogenous dsRNA, defense against Gram-positive bacteria) and cytoskeletal remodeling (actin filament severing), plus a pain-behavior term. Together, they suggest a neuroimmune program that coordinates brain development and nociceptive responses.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0016525","count":8},{"id":"GO:0043330","count":6},{"id":"GO:0071222","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0051014","count":6}]},{"hash":"1507573922908587959","title":"Mitochondrial Metabolite and Ion Transport","description":"The cluster is dominated by GO terms for transport of various metabolites and ions across mitochondrial membranes (deoxynucleotides, NAD, citrate, phosphate) and for the transport of metal ions (magnesium, manganese), plus the malate-aspartate shuttle. This pattern, together with mitochondrial localization-related terms and metabolic signaling responses (insulin stimulus, amino acid starvation), points to proteins that function as mitochondrial transporters or shuttles that couple metabolite movement to cellular signaling and energy metabolism.","confidence":"High","size":15,"edges":14,"triangles":0,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030302","count":11},{"id":"GO:1990616","count":11},{"id":"GO:0090152","count":11},{"id":"GO:0032869","count":11},{"id":"GO:0006828","count":11}]},{"hash":"845567012215526984","title":"GPCR-cAMP Signaling and Energy Metabolism","description":"The cluster is dominated by GO terms for GPCR-mediated signaling and adenylate cyclase activation (GO:0007190, GO:0010579), indicating cAMP-dependent signal transduction. It also features electron transport chain and thermogenesis terms, pointing to mitochondrial energy metabolism. Additional terms related to sensory perception (pain, vision), blood pressure regulation, macrophage chemotaxis, and morphine response suggest a broader signaling network integrating sensory, cardiovascular, immune, and metabolic responses. Overall, the proteins appear to co-cluster around GPCR-cAMP signaling with linked energy metabolism and sensory/physiological processes.","confidence":"Medium","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":11},{"id":"GO:0007190","count":11},{"id":"GO:0022900","count":11},{"id":"GO:0010579","count":11},{"id":"GO:0019233","count":11}]},{"hash":"278034653121059847","title":"Actin Dynamics and Epithelial Cell Junctions","description":"The top GO terms cluster around actin filament organization, lamellipodium and apical junction assembly, and epithelial cell\u2013cell adhesion, with Rho signaling supporting cytoskeletal remodeling. Although a couple of transport terms appear, the dominant theme is actin-driven junctions and epithelial adhesion, suggesting proteins in this cluster coordinate cytoskeleton dynamics with cell\u2013cell junction maintenance.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007015","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0043297","count":3},{"id":"GO:0090136","count":3},{"id":"GO:0051291","count":3}]},{"hash":"1604695625671183863","title":"B cell activation, phagocytosis, and antigen presentation","description":"This cluster is dominated by GO terms related to B cell signaling and activation, antigen processing and presentation (including MHC I), and phagocytosis/recognition, with supportive terms for innate immunity and complement activation. There are also regulatory notes on NK and T cell cytotoxicity, which fits a cohesive theme of adaptive immune activation intertwined with phagocytic and antigen-presenting functions. Overall, the proteins appear to participate in antigen-driven immune responses centered on B cells and phagocytic processes.","confidence":"High","size":15,"edges":22,"triangles":9,"max_degree":13,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050853","count":8},{"id":"GO:0006911","count":7},{"id":"GO:0090138","count":7},{"id":"GO:0002859","count":7},{"id":"GO:0043318","count":7}]},{"hash":"882651844288604187","title":"Developmental morphogenesis and synaptic organization","description":"This cluster combines development-related terms (hard palate development, parathyroid gland development, animal organ morphogenesis, distal tip cell migration) with neural/synaptic components (postsynaptic density assembly, actin filament organization, vocalization behavior). The shared thread appears to be developmental processes that rely on cytoskeletal remodeling and neural connectivity, though the terms span both morphogenesis and synaptic organization, indicating a somewhat broad cluster.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1903764","count":5},{"id":"GO:0010923","count":5},{"id":"GO:0097107","count":5},{"id":"GO:0007015","count":5},{"id":"GO:0009887","count":5}]},{"hash":"139274852139926894","title":"Embryonic development and tissue morphogenesis","description":"GO terms point to embryonic development and organogenesis across tissues (placental development, pancreatic cell development, cartilage morphogenesis, EMT in endocardial cushion formation, trophoblast giant cell differentiation, endocrine system development, and left-right patterning), with added transcriptional regulation processes. This suggests the cluster represents general embryogenesis and tissue morphogenesis rather than a single, specific pathway.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060806","count":11},{"id":"GO:0003323","count":11},{"id":"GO:0060536","count":11},{"id":"GO:0003198","count":11},{"id":"GO:0060707","count":11}]},{"hash":"1798126501589774558","title":"Coagulation and fibrinolysis with inflammatory response","description":"The top GO terms cluster around coagulation and fibrinolysis (positive regulation of blood coagulation, Factor XII activation, positive regulation of fibrinolysis, plasminogen activation) and an immune/inflammatory signal (response to lipopolysaccharide). Developmental terms are present but less central given their lower representation, so the dominant theme appears to be coagulation and inflammatory regulation across the proteins.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0030901","count":4},{"id":"GO:0060021","count":4},{"id":"GO:0007313","count":4},{"id":"GO:0032496","count":4}]},{"hash":"216509729301978538","title":"Hair cycle and keratinization","description":"Dominant GO terms are hair cycle and keratinization (12 each), indicating proteins involved in hair follicle keratin production and cycling. Minor terms (spliceosome conformational change, lithium ion response) are less informative for the cluster\u2019s core function.","confidence":"High","size":15,"edges":98,"triangles":376,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0042633","count":12},{"id":"GO:0031424","count":12},{"id":"GO:0000388","count":2},{"id":"GO:0010226","count":2}]},{"hash":"802303927891586106","title":"GPCR Signaling and Energy Metabolism","description":"This cluster is centered on GPCR-mediated signaling and adenylate cyclase activation, with supporting links to energy production (electron transport chain) and metabolic/thermoregulatory responses (thermogenesis, temperature response). The presence of blood pressure regulation, coagulation, and sensory perception terms suggests roles in cardiovascular and sensory physiology tied to signaling and energy state.","confidence":"Medium","size":15,"edges":4,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":10},{"id":"GO:0007190","count":10},{"id":"GO:0022900","count":10},{"id":"GO:0010579","count":10},{"id":"GO:0019233","count":10}]},{"hash":"1537938789931088137","title":"Lipid catabolism and phagocytic endocytosis","description":"The cluster centers on triglyceride catabolic processes and phospholipid breakdown (phosphatidylcholine and phosphatidylethanolamine catabolism) alongside endocytosis-related activity and phagocytosis, with innate immune response signals. This suggests a theme where lipid remodeling supports receptor-mediated uptake and phagocytic functions, possibly in immune contexts. Regulatory signaling (negative regulation of PKA) may modulate these processes.","confidence":"Medium","size":15,"edges":34,"triangles":14,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0048260","count":5},{"id":"GO:0046338","count":5},{"id":"GO:0034638","count":5},{"id":"GO:2000480","count":5},{"id":"GO:0006642","count":5}]},{"hash":"1752933937784861507","title":"Chromatin Remodeling and Transcription Regulation","description":"The top GO terms center on transcription initiation and chromatin remodeling (transcription initiation-coupled chromatin remodeling; RNA polymerase II promoter regulation) and histone modifications, suggesting the cluster reflects genes involved in controlling gene expression through chromatin state. Some related terms (RNA methylation, sterol biosynthesis) point to broader regulatory layers but the strongest common theme is transcriptional control via chromatin modifications. Confidence is based on the coherence of these transcription/chromatin terms, though the presence of unrelated identifiers lowers certainty somewhat.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035948","count":3},{"id":"GO:0045815","count":3},{"id":"GO:0042220","count":2},{"id":"GO:0016126","count":2},{"id":"GO:0090398","count":2}]},{"hash":"2232841585481654632","title":"Unknown","description":"The top GO terms cover a broad, unrelated mix of processes (blood coagulation; visual perception; GPCR signaling regulation; astrocyte chemotaxis; gastric acid secretion; inflammatory response; peptide response; serotonin secretion; cardiac muscle morphogenesis). There isn't a clear common function or pathway uniting these terms, suggesting a heterogeneous set of proteins rather than a single coherent cluster function.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":15},{"id":"GO:0007601","count":15},{"id":"GO:0010513","count":15},{"id":"GO:2000458","count":15},{"id":"GO:0001698","count":15}]},{"hash":"846685975760657808","title":"Unknown","description":"The cluster's top GO terms include blood coagulation, visual perception, GPCR signaling, inflammatory response, peptide response, and gastric acid secretion, among others. They span very different biological contexts with no clear shared pathway or function, suggesting a heterogeneous set of annotations rather than a single cohesive theme. Therefore, Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":14},{"id":"GO:0007601","count":14},{"id":"GO:0010513","count":14},{"id":"GO:2000458","count":14},{"id":"GO:0001698","count":14}]},{"hash":"527117130078607530","title":"Cardiovascular signaling and energy metabolism","description":"This cluster shows a strong representation of GPCR-cAMP signaling (adenylate cyclase activation, GPCR pathways) and Rho-dependent signaling, together with energy production processes (electron transport chain) and cardiovascular-related terms (blood pressure regulation, blood coagulation) as well as membrane potential regulation. While there are some terms related to pain and temperature sensing, the dominant theme points to signaling control and metabolic activity in cardiovascular or excitable tissues, suggesting a compact label around signaling and energy metabolism in a cardiovascular context.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":11},{"id":"GO:0002024","count":11},{"id":"GO:0071502","count":11},{"id":"GO:0035025","count":10},{"id":"GO:0022900","count":10}]},{"hash":"1709095361344793030","title":"Membrane Transport of Metabolites and Ions","description":"The cluster is dominated by GO terms for transmembrane transport of small molecules (pantothenate, glucose, biotin, myo-inositol) and sodium ion export, plus acetylcholine biosynthesis, pointing to a shared role in membrane transport and related metabolic or signaling processes; a few unrelated terms (e.g., mitochondrial respirasome assembly) are present but seem ancillary.","confidence":"Medium","size":15,"edges":15,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0097050","count":2},{"id":"GO:2001015","count":2},{"id":"GO:0045879","count":2},{"id":"GO:0015887","count":2},{"id":"GO:1904659","count":2}]},{"hash":"2161174717156440258","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000463","count":4},{"id":"GO:0042254","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0000398","count":3}]},{"hash":"767391475160581488","title":"TLR-driven antiviral innate immune signaling","description":"These proteins show strong enrichment for Toll-like receptor signaling (TLR2, TLR5), response to dsRNA, LPS, and production of inflammatory cytokines and interferons (type III interferon, IL-18). This points to a cohesive role in sensing viral/bacterial components and orchestrating innate immune cytokine responses; some terms (e.g., CAMKK-AMPK) reflect broader signaling cross-talk but do not override the core innate-immune pattern.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034346","count":2},{"id":"GO:0043330","count":2},{"id":"GO:1905289","count":2},{"id":"GO:0071222","count":2},{"id":"GO:1903215","count":2}]},{"hash":"241755550345194600","title":"Cardiac ECM remodeling and BMP signaling","description":"GO terms indicate heart development (atrial septum morphogenesis, heart development), BMP signaling (BMP stimulus, BMP signaling) and extracellular matrix processes (collagen biosynthesis, collagen fibril organization) with integrin-mediated signaling and cell-matrix adhesion. This points to a cohesive module of extracellular matrix remodeling and BMP-driven signaling in cardiac (and skeletal) development.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060413","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0071356","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0071773","count":2}]},{"hash":"1539267859286405423","title":"Endothelial Angiogenic Signaling","description":"The GO terms show pathways governing endothelial angiogenesis and tube formation (sprouting angiogenesis, endothelial lumen extension), supported by signals like Rap, PKC, and Rac that regulate endothelial cell migration and signaling. Although some terms are more general, the angiogenesis-specific terms strongly tie the cluster to endothelial angiogenic signaling.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032486","count":3},{"id":"GO:0033138","count":3},{"id":"GO:0048009","count":2},{"id":"GO:0070528","count":2},{"id":"GO:0035021","count":2}]},{"hash":"366746584384292276","title":"Actin Cytoskeleton Remodeling","description":"Proteins in this cluster are dominated by actin-related processes: polymerization, lamellipodium and ruffle assembly, barbed-end capping, and overall cytoskeleton organization, plus dendritic spine morphogenesis. These together point to dynamic actin remodeling as the core shared function, with other terms like apoptotic process and innate immune response likely representing broader regulatory contexts rather than the defining theme.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0033146","count":3},{"id":"GO:0030041","count":3},{"id":"GO:0060997","count":3},{"id":"GO:1900029","count":3}]},{"hash":"1025582051569459587","title":"Neuroimmune inflammation and coagulation signaling","description":"The top GO terms cluster around inflammatory and immune processes (negative regulation of TNF production, IL-8 production, acute inflammatory response), platelet activation and blood coagulation, and neural signaling (neuropeptide signaling, astrocyte chemotaxis). This suggests a theme of neuroimmune interactions linked to coagulation. Some terms (visual perception, gastrin-induced gastric acid secretion) appear as outliers or pleiotropic, but the core pattern centers on inflammation and coagulation with neural components.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032720","count":9},{"id":"GO:0007218","count":9},{"id":"GO:0030168","count":9},{"id":"GO:2000484","count":9},{"id":"GO:0007596","count":8}]},{"hash":"248168127660677680","title":"Unknown","description":"The Top Terms cover a wide range of unrelated biological areas (blood coagulation, visual perception, gastric acid secretion, astrocyte chemotaxis, GPCR signaling, heart morphogenesis, inflammation, and peptide response). There is no clear single function or theme linking these terms, making a cohesive cluster label unlikely. Hence Unknown with no confidence.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0033861","count":13},{"id":"GO:0007596","count":11},{"id":"GO:0007601","count":11},{"id":"GO:0010513","count":11},{"id":"GO:2000458","count":11}]},{"hash":"932299119861183537","title":"Microtubule dynamics and polarity","description":"This cluster\u2019s top GO terms cluster around microtubule-driven processes\u2014nuclear migration along microtubules, plus-end\u2013directed transport and depolymerization, and maintenance of microtubule cytoskeleton polarity\u2014as well as related cellular organization events (karyogamy, adherens junction maintenance, growth regulation). The unifying theme is microtubule-guided movement and polarity establishment within cells.","confidence":"High","size":14,"edges":63,"triangles":175,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0030473","count":12},{"id":"GO:0070462","count":12},{"id":"GO:0033624","count":12},{"id":"GO:0045218","count":12},{"id":"GO:0048364","count":12}]},{"hash":"1328635782589682706","title":"ECM proteolysis and remodeling","description":"This cluster is dominated by proteolytic processes affecting extracellular matrix components and peptide hormones: collagen catabolic process, basement membrane disassembly, bradykinin and neuropeptide catabolic processes, and general proteolysis. Decidualization signals ECM remodeling in uterine tissue, supporting a unifying theme of extracellular matrix turnover and protease regulation, with a potential but weaker link to immune proteases reflected by T cell cytotoxicity terms.","confidence":"Medium","size":14,"edges":77,"triangles":257,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0050790","count":13},{"id":"GO:0046697","count":13},{"id":"GO:0097067","count":13},{"id":"GO:0030574","count":13},{"id":"GO:0010813","count":13}]},{"hash":"1708013417750654442","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0009089","count":14},{"id":"GO:0008615","count":14},{"id":"GO:0035606","count":14},{"id":"GO:0006006","count":14},{"id":"GO:0006096","count":14}]},{"hash":"735973412092838066","title":"Leukocyte trafficking and vascular activation","description":"Based on the top GO terms, the cluster centers on leukocyte recruitment and vascular-immune signaling: leukocyte tethering or rolling, phagocytosis recognition, C-type lectin receptor signaling, and regulation of platelet activation and cell adhesion molecule production. A subset of terms concerns nephron/metanephric development, which may reflect developmental vascular interactions in kidney or be less specific; however the dominant theme is inflammatory leukocyte\u2013endothelial\u2013platelet communication.","confidence":"Medium","size":14,"edges":36,"triangles":25,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0072287","count":4},{"id":"GO:0072237","count":4},{"id":"GO:0002223","count":4},{"id":"GO:0036303","count":4},{"id":"GO:0090238","count":3}]},{"hash":"1369051440131499282","title":"Vertebrate tissue development and differentiation","description":"Top GO terms indicate development of specific tissues (cerebellar granule cells, retina, skeletal muscle) and multicellular organism development, along with DNA-templated transcription. The presence of protein oligomerization terms suggests a generic molecular mechanism often involved in developmental regulation. Overall, the cluster seems to reflect developmental and differentiation processes across vertebrate tissues.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051260","count":6},{"id":"GO:0021707","count":5},{"id":"GO:0043403","count":5},{"id":"GO:0010745","count":5},{"id":"GO:0070208","count":5}]},{"hash":"1089018214804449596","title":"Differentiation with cell cycle, polarity, and cytoskeleton","description":"This cluster is enriched for cell division and mitosis exit, along with diverse differentiation processes like spermatogenesis and neuron projection development. It also includes maintenance of cell polarity, septin- and cytoskeleton-related organization, sperm mitochondrion organization, and regulation of exocytosis. Taken together, the terms point to differentiation of specialized cells coordinated with cell cycle control, polarity, and cytoskeletal remodeling.","confidence":"Medium","size":14,"edges":25,"triangles":20,"max_degree":13,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0031175","count":5},{"id":"GO:0007283","count":5},{"id":"GO:0030011","count":5},{"id":"GO:0030154","count":5}]},{"hash":"2244585545209807536","title":"Vitamin biosynthesis and central carbon metabolism","description":"The cluster is enriched for biosynthetic processes of cobalamin (vitamin B12), biotin, and other central metabolites (pyruvate, oxaloacetate, alanine), plus fatty acid transport, pointing to central carbon metabolism and cofactor biosynthesis as the core theme; regulatory terms like transcription and insulin response appear peripheral but may reflect coordination with metabolism.","confidence":"Medium","size":14,"edges":85,"triangles":299,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009236","count":5},{"id":"GO:0042866","count":5},{"id":"GO:0019518","count":5},{"id":"GO:0009102","count":4},{"id":"GO:0042853","count":4}]},{"hash":"2233545354182488976","title":"Cell Polarity, Migration, and Mitosis","description":"This cluster centers on processes shaping and moving cells (cell polarity maintenance, amoeboid and cortical neuron migration, neuromuscular balance) and coordinating cell division machinery (mitotic spindle assembly, division septum, cleavage furrow formation). The mixture suggests a theme of cytoskeletal dynamics linking motility and mitosis, with some peripheral muscle-related terms.","confidence":"Medium","size":14,"edges":19,"triangles":6,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030011","count":9},{"id":"GO:0050885","count":9},{"id":"GO:0021799","count":9},{"id":"GO:0060047","count":9},{"id":"GO:1902583","count":9}]},{"hash":"1900360416326314302","title":"Tissue Development and Genome Maintenance","description":"The GO terms point to developmental processes across multiple tissues (lymphangiogenesis, substantia nigra development, skeletal muscle fiber development, connective tissue remodeling) combined with cell-cycle and DNA repair activities (mitotic chromosome condensation, nonhomologous end joining repair, spindle\u2013kinetochore attachment). A unifying theme is development-related remodeling alongside genome maintenance mechanisms, with oxidative stress response as a possible supporting signal. ","confidence":"Medium","size":14,"edges":38,"triangles":44,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070301","count":5},{"id":"GO:1905213","count":4},{"id":"GO:2001034","count":4},{"id":"GO:0001946","count":4},{"id":"GO:1905205","count":4}]},{"hash":"825228158561454817","title":"RNA processing and translation regulation cluster","description":"The set centers on RNA processing and translation control: ncRNA-mediated gene silencing, translation initiation and reinitiation, spliceosome-driven splicing, mRNA export, and rRNA maturation. Together they point to a cluster of proteins involved in RNA maturation, splicing, export, and regulation of translation.","confidence":"High","size":14,"edges":16,"triangles":20,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":5},{"id":"GO:0002188","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0006406","count":5}]},{"hash":"874880148754226654","title":"Metabolic and Nutrient Stress Response","description":"The terms point to cellular adaptation to energy/nutrient status and various stresses: glucose response, glycolysis, lactate fermentation, hypoxia, hydrogen peroxide, cAMP signaling, and hormonal (estrogen) signaling, along with regulation of apoptosis. This suggests a cohesive cluster of proteins involved in energy metabolism and stress-response pathways rather than a single isolated function.","confidence":"High","size":14,"edges":26,"triangles":19,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0043627","count":8},{"id":"GO:0001666","count":8},{"id":"GO:0042542","count":8},{"id":"GO:0051591","count":8},{"id":"GO:0009749","count":8}]},{"hash":"1462962108995225731","title":"Innate immune signaling and apoptosis regulation","description":"This cluster centers on ubiquitin-dependent protein catabolic process and innate antiviral defense, with regulation of JNK and NF-kB pathways and apoptosis. The combination of protein turnover, antiviral defense, and stress signaling suggests a coherent module of immune response coupled to controlled cell fate decisions. Some terms about histone catabolism and dosage compensation are less central to the main theme.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0045087","count":4},{"id":"GO:0051607","count":4},{"id":"GO:0046328","count":4},{"id":"GO:1903762","count":4}]},{"hash":"1627147269234906118","title":"Energy metabolism and quinone biosynthesis","description":"The GO terms show a strong emphasis on energy-related pathways (fatty acid beta-oxidation, valine and phenylacetate catabolism, TCA cycle, glycolysis) and biosynthesis of quinones (menaquinone, phylloquinone), with additional signals of secondary metabolism (antibiotic biosynthetic process). This suggests a cohesive theme around energy production and electron carrier biosynthesis in a microbial context.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006635","count":9},{"id":"GO:0006574","count":9},{"id":"GO:0009234","count":9},{"id":"GO:0010124","count":9},{"id":"GO:0017000","count":9}]},{"hash":"22388225097572415","title":"Vertebrate neural development and transcription","description":"The cluster\u2019s terms are strongest for vertebrate neural development (neural tube closure, brain development) and DNA-templated transcription, with supporting signals from DNA replication and skeletal development. This suggests a broader developmental/transcriptional program rather than a single precise function, with neural development as the key theme. Connectivity is sparse, so the label is tentative and best reflects the dominant signal.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0034316","count":6},{"id":"GO:0030433","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0001501","count":4}]},{"hash":"371805387809592167","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":73,"triangles":202,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030433","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0006469","count":5},{"id":"GO:0043588","count":5},{"id":"GO:0000278","count":5}]},{"hash":"161524391519368523","title":"Hippocampal neuron development and axon growth","description":"The cluster is enriched for neural development terms, including neuron development, axon extension, dentate gyrus and hippocampus development, and axon fasciculation, along with microtubule-related processes such as alpha-tubulin acetylation and regulation of microtubule cytoskeleton organization. This combination points to proteins involved in neuronal growth and pathfinding in hippocampal circuitry, with cytoskeletal remodeling driving axon extension and fasciculation.","confidence":"High","size":14,"edges":8,"triangles":0,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048666","count":6},{"id":"GO:0045773","count":4},{"id":"GO:0045598","count":4},{"id":"GO:1900227","count":4},{"id":"GO:0021542","count":4}]},{"hash":"665551083307535807","title":"Neuronal morphogenesis and immune signaling","description":"The top GO terms include neural-development-related processes (dendrite morphogenesis, dendrite development, cochlea morphogenesis) alongside immune signaling terms (T cell receptor signaling, cellular response to lipopolysaccharide, GM-CSF stimulus). Potassium ion transport and transcription are broad cellular processes that appear across contexts. The combination suggests a broad, multi-domain protein set rather than a single, cohesive function, so the label reflects a composite theme rather than a narrowly defined pathway.","confidence":"Low","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":9},{"id":"GO:0043552","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0048813","count":7},{"id":"GO:0006935","count":6}]},{"hash":"359510155956798111","title":"Antigen presentation and lymphocyte activation","description":"The cluster features strong signals for antigen processing and presentation via MHC class Ib (endogenous and exogenous lipid antigens), along with positive regulation of T cell cytotoxicity and cytokine production and B cell activation. Additionally, phagocytosis and responses to LPS/Gram-positive bacteria support a link between innate antigen handling and adaptive lymphocyte activation. These together point to a cohesive role in presenting antigens to T/B cells and driving adaptive immune responses.","confidence":"High","size":14,"edges":16,"triangles":2,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0001916","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0002726","count":2},{"id":"GO:0006911","count":2},{"id":"GO:0050871","count":2}]},{"hash":"507108469637267164","title":"RNA splicing and translation regulation","description":"The GO terms center on spliceosome-mediated mRNA splicing and regulation of alternative splicing, plus various aspects of translational control (initiation, reinitiation, IRES-dependent initiation, preinitiation complex formation) and regulatory ncRNA-mediated silencing, suggesting a module that bridges RNA processing with translation regulation, including stress-related mRNA stability. This combination best captures the cluster\u2019s core functions.","confidence":"High","size":14,"edges":70,"triangles":215,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":9},{"id":"GO:0048026","count":9},{"id":"GO:0000398","count":6},{"id":"GO:0075522","count":6},{"id":"GO:0000381","count":6}]},{"hash":"56697333054601950","title":"Neural development and axon guidance regulation","description":"The set centers on neural development processes: axonogenesis, neuronal migration (tangential migration to olfactory bulb), axon guidance, and synapse assembly, with some signaling regulation terms. This suggests a cohesive cluster of proteins involved in shaping neural connectivity rather than general development.","confidence":"High","size":14,"edges":17,"triangles":1,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019800","count":9},{"id":"GO:0007409","count":8},{"id":"GO:0016525","count":8},{"id":"GO:0006469","count":8},{"id":"GO:0060348","count":8}]},{"hash":"301749040819249009","title":"Spliceosome-driven RNA processing","description":"This cluster is dominated by GO terms related to mRNA splicing via the spliceosome, spliceosomal complex assembly, transcription termination, and RNA stability regulation in stress, with additional signals for nuclear import and rRNA maturation. Together these indicate a coherent network of nuclear RNA processing and spliceosome activity.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":9},{"id":"GO:0006369","count":8},{"id":"GO:0031047","count":7},{"id":"GO:0048026","count":7},{"id":"GO:0010610","count":7}]},{"hash":"1889919990571666067","title":"RNA Splicing and Post-transcriptional Regulation","description":"This cluster centers on post-transcriptional control of gene expression, with emphasis on mRNA splicing (spliceosome and regulation of alternative splicing), mRNA stability and decay, and ncRNA-mediated silencing (miRNA and regulatory ncRNAs), plus translation initiation/reinitiation pathways (IRES-dependent initiation), illustrating a cohesive program of RNA processing and regulation.","confidence":"High","size":14,"edges":85,"triangles":307,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":13},{"id":"GO:0048025","count":12},{"id":"GO:0045292","count":12},{"id":"GO:0035278","count":11},{"id":"GO:0031047","count":11}]},{"hash":"271123904947696020","title":"Lateral-line sensory learning and synaptic regulation","description":"The terms point to sensory processing and learning across modalities (olfactory and visual learning, startle response) tied to synaptic modulation (short-term plasticity, receptor recycling, and glutamatergic transmission). The presence of anterior lateral line development strongly suggests a zebrafish lateral-line context, indicating a cluster of proteins involved in sensory signaling and synaptic regulation. An outlier term related to ectoine transport is noted but does not change the central theme of sensory learning and synaptic modulation.","confidence":"High","size":14,"edges":18,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0048172","count":3},{"id":"GO:0001919","count":2},{"id":"GO:0050806","count":2},{"id":"GO:0045471","count":2},{"id":"GO:0048899","count":2}]},{"hash":"1588817130336481826","title":"Bacterial cell wall and capsule biosynthesis","description":"The top GO terms cluster around peptidoglycan biosynthesis, cell wall organization, capsule polysaccharide biosynthetic process, and regulation of cell shape, suggesting a shared role in assembling and remodeling the bacterial cell envelope. While some metabolic and antibiotic-response terms appear, the envelope-related processes are most representative of the cluster\u2019s function.","confidence":"Medium","size":14,"edges":53,"triangles":119,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0009252","count":5},{"id":"GO:0071555","count":5},{"id":"GO:0008360","count":5},{"id":"GO:0019878","count":5},{"id":"GO:0006552","count":4}]},{"hash":"1577769190974557693","title":"Ubiquitin-Dependent Protein Degradation & Apoptosis Regulation","description":"The top GO terms cluster strongly around ubiquitination and ubiquitin-dependent protein catabolic processes, indicating proteins involved in tagging substrates for degradation. The concurrent enrichment for negative regulation of apoptosis supports a survival/maintenance role linked to protein turnover. Other terms (transcription regulation, spindle assembly, differentiation) may reflect broader ubiquitin-mediated regulation across processes, but the core theme remains ubiquitin-driven proteolysis and its impact on cell survival.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":4},{"id":"GO:0043066","count":4},{"id":"GO:0000209","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0000122","count":3}]},{"hash":"1218595272009017992","title":"Rac and Arp2/3-Driven Synaptic Actin Remodeling","description":"This cluster is dominated by GO terms about Rac signaling, Arp2/3-mediated actin nucleation, and actin polymerization/crosslinking, together with postsynaptic density assembly and long-term synaptic potentiation, pointing to actin cytoskeleton remodeling at synapses. While a few terms touch on ribosome export, splicing, and polarity, the strongest signal ties to Rac- and Arp2/3-driven actin dynamics and synaptic organization. ","confidence":"Medium","size":14,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016601","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0000055","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0030041","count":2}]},{"hash":"1260024710636833206","title":"Nucleobase and Nucleotide Transport","description":"Most terms describe transport and import of purines/pyrimidines (adenine, guanine, hypoxanthine, xanthine), urate, and uracil across membranes, fitting a transporter or uptake function. A couple of translation-related GO terms appear but are far less represented; overall the common theme is nucleobase/nucleotide transport.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042906","count":3},{"id":"GO:0098702","count":3},{"id":"GO:0070904","count":3},{"id":"GO:1903825","count":3},{"id":"GO:0098710","count":3}]},{"hash":"1330097086162182480","title":"Mitochondrial energy metabolism and redox balance","description":"This cluster\u2019s top GO terms cluster around mitochondrial NADH dehydrogenase activity (NADH to ubiquinone), lipoate- and dihydrolipoamide-containing metabolic steps, and redox homeostasis, with related regulation of membrane potential and thiamine-dependent cofactors, all pointing to core mitochondrial energy production and cofactor biosynthesis rather than development or reproduction per se. Some terms may be misannotations (aging, gamete-related terms), but the dominant theme is mitochondrial metabolism and redox balance.","confidence":"High","size":14,"edges":4,"triangles":1,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007369","count":14},{"id":"GO:0006120","count":14},{"id":"GO:0009106","count":14},{"id":"GO:0007568","count":14},{"id":"GO:0045454","count":14}]},{"hash":"100346801559387437","title":"Seed development and fatty acid metabolism","description":"The dominant GO terms point to seed-related biology (positive regulation of seed germination, seed coat development) alongside multiple fatty acid metabolic processes (long-, medium-, and very long-chain fatty acids) and fatty acid transport, suggesting a focus on seed development supported by lipid metabolism and related pathways. Some outliers (siderophore biosynthesis, phenylacetate catabolism) appear peripheral but do not override the main seed-and-fatty-acid theme.","confidence":"Medium","size":14,"edges":20,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0019290","count":4},{"id":"GO:0001676","count":4},{"id":"GO:0090410","count":4},{"id":"GO:0010030","count":4},{"id":"GO:0010214","count":4}]},{"hash":"215958263310463403","title":"Hemostasis and innate immunity","description":"This cluster prominently features GO terms related to blood coagulation, fibrinolysis, plasminogen activation, and complement activation, plus neutrophil-mediated killing. Together these suggest a shared function in hemostasis and early innate immune defense, with inflammatory regulation as a common thread. A few terms (like transcriptional regulation and muscle growth) appear less central and may reflect broader annotations, but the core theme aligns with coagulation/inflammation.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0045766","count":7},{"id":"GO:0048632","count":7},{"id":"GO:0001867","count":7},{"id":"GO:0042730","count":7}]},{"hash":"2151419998366885144","title":"ER-Golgi vesicle trafficking and synaptic exocytosis","description":"The terms cluster around ER-to-Golgi transport, SNARE-mediated vesicle fusion, Golgi organization, and exocytic delivery of neurotransmitter receptors to the postsynaptic membrane, with links to long-term synaptic potentiation, indicating a cohesive vesicular trafficking/synaptic exocytosis theme.","confidence":"High","size":14,"edges":83,"triangles":282,"max_degree":13,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006888","count":14},{"id":"GO:0035493","count":14},{"id":"GO:0048280","count":14},{"id":"GO:0090161","count":14},{"id":"GO:0098967","count":14}]},{"hash":"1950174177821293762","title":"Mitochondrial Transport and Metabolic Shuttle","description":"The cluster is dominated by GO terms describing transport of various metabolites and ions across mitochondrial membranes (deoxynucleotide, Mg2+, Mn2+, phosphate, citrate, NAD) and the malate-aspartate shuttle, indicating a coherent theme of mitochondrial metabolite exchange and energy metabolism; a couple terms relate to cellular energy signaling (insulin response, amino acid starvation), but the core signal is mitochondrial transport and metabolism.","confidence":"High","size":14,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030302","count":9},{"id":"GO:1990616","count":9},{"id":"GO:0090152","count":9},{"id":"GO:0032869","count":9},{"id":"GO:0006828","count":9}]},{"hash":"1390396524548308124","title":"Leukocyte activation and migration","description":"The top GO terms cluster around immune activation (B cell maturation; T cell activation) and cell movement (neutrophil chemotaxis; filopodium assembly; Rho signaling; hyaluronan metabolism), pointing to proteins involved in leukocyte signaling and trafficking. Some terms (heart development, dendritic spine regulation) are less directly tied and may reflect broader developmental roles, but the central theme appears to be immune activation coupled with cell movement.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0002344","count":9},{"id":"GO:0035023","count":9},{"id":"GO:0010765","count":9},{"id":"GO:0043552","count":8},{"id":"GO:0007507","count":8}]},{"hash":"518681682252679792","title":"Vascular ECM remodeling and coagulation regulation","description":"The cluster is dominated by collagen biosynthesis and fibril organization alongside blood coagulation, platelet regulation, and nitric oxide production, all hallmarks of vascular extracellular matrix (ECM) remodeling and coagulation control. Additional terms related to cardiac conduction and smooth muscle migration suggest a broader vascular/cardiac tissue context, with NO signaling modulating vascular tone and perfusion. Overall, these terms point to a cohesive theme around ECM remodeling in vasculature and its interplay with coagulation and vascular signaling.","confidence":"High","size":14,"edges":71,"triangles":188,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":4},{"id":"GO:0032964","count":4},{"id":"GO:0030199","count":4},{"id":"GO:0045429","count":4},{"id":"GO:0001300","count":3}]},{"hash":"1114932655760619307","title":"Unknown","description":"The GO terms span mitochondrial translation, ER organization, and multiple catabolic processes, with odd items like nylon catabolic process and antibiotic response. The mix lacks a single dominant function or pathway that cohesively connects the proteins, so a concise, representative label cannot be confidently assigned.","confidence":"","size":14,"edges":13,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0009089","count":3},{"id":"GO:0019876","count":2},{"id":"GO:0032543","count":2},{"id":"GO:0009062","count":2},{"id":"GO:0070681","count":2}]},{"hash":"532992846911513308","title":"Cytoskeletal Dynamics and Cell Adhesion","description":"The cluster\u2019s top GO terms mainly reflect actin-driven cytoskeletal remodeling and membrane protrusions (microspike, filopodium, lamellipodium assembly) along with adhesion-related processes like substrate-induced cell spreading and stress fiber assembly. This points to a shared function in cytoskeletal dynamics and cell adhesion/motility, with a few terms touching neural or bone development as broader contexts rather than core themes.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900026","count":4},{"id":"GO:0022011","count":3},{"id":"GO:0051496","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0042220","count":3}]},{"hash":"2257826728488606276","title":"Developmental and Epigenetic Regulation","description":"This cluster features multiple development-related terms (brain development, gastrulation, skeletal system development, single fertilization) alongside epigenetic regulation (histone H3 methylation/acetylation) and regulatory processes (ubiquitin ligase activity, Ras signaling), plus intracellular transport. The combination suggests proteins involved in developmental control with chromatin-level regulation and signaling regulation, though the lack of network edges makes the link less tight. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051568","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0035773","count":2},{"id":"GO:0046580","count":2}]},{"hash":"1485260225181455253","title":"Immune Signaling and Cell Fate Regulation","description":"The cluster shows enrichment in signaling pathways related to immune responses (defense response to virus, IL-4 production, STAT phosphorylation) and regulators of cell behavior (Rho/small GTPase signaling, tissue cell number homeostasis, monocyte differentiation), plus links to apoptosis via death receptors and IGF signaling. This suggests a cohesive theme around immune signaling, cytokine responses, and cell fate decisions within tissue contexts.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048009","count":5},{"id":"GO:0051607","count":5},{"id":"GO:0007264","count":5},{"id":"GO:0048873","count":5},{"id":"GO:0035023","count":5}]},{"hash":"1058381951848024190","title":"Unknown","description":"The top GO terms cover a mix of vesicle trafficking, innate immune signaling, mechanotransduction and cytoskeletal dynamics, cell division machinery, DNA repair, and immune differentiation, with no single dominant function tying them together. Because the terms span diverse biological processes and there is no clear unifying theme, a cohesive label is not supported. ","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035544","count":3},{"id":"GO:0070431","count":3},{"id":"GO:0035994","count":3},{"id":"GO:0051225","count":3},{"id":"GO:0002268","count":3}]},{"hash":"2290799557599189464","title":"Neural development: axon guidance and vascular signaling","description":"This cluster's top GO terms cluster around nervous system development and neuron projection guidance (branchiomotor neuron axon guidance, sympathetic neuron projection guidance, trigeminal nerve organization, semaphorin-plexin signaling) and vascular cues (positive regulation of vasoconstriction, cellular response to VEGF stimulus). Acetylcholine GPCR signaling is common in neuronal signaling, and heterophilic cell adhesion supports nerve connections. An outlier is B cell affinity maturation, which may reflect shared signaling components but does not define the main theme. Therefore the label reflects neural development with guidance and accompanying vascular signaling.","confidence":"High","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0045907","count":7},{"id":"GO:0007213","count":7},{"id":"GO:0002344","count":7},{"id":"GO:0035924","count":7},{"id":"GO:0021785","count":7}]},{"hash":"221145631073933413","title":"Embryogenesis and epigenetic regulation","description":"Top GO terms indicate embryonic development processes such as angiogenesis, skeletal system development, and gastrulation, suggesting a role in embryogenesis. Additionally, terms related to RNA modification (RNA guanine-N7 methylation) and histone H3 acetylation, plus ubiquitin ligase activity, point to regulation of gene expression and epigenetic control. The presence of calcium release signaling also fits developmental signaling contexts. Together, these signals suggest a cluster of proteins involved in orchestrating development with epigenetic regulatory mechanisms, despite some obsolete term annotations.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0036265","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0006349","count":4},{"id":"GO:0051209","count":3},{"id":"GO:1901491","count":3}]},{"hash":"1636249436350354212","title":"Endosome\u2013lysosome trafficking and autophagy regulation","description":"The proteins cluster around Rab/Rap signaling and vesicle transport processes, including plus-end-directed transport along microtubules, plasma membrane to endosome/lysosome routes, and endosome-to-Golgi transport, with both positive and negative regulation of autophagosome maturation. This combination points to a cohesive function in intracellular trafficking with autophagy control.","confidence":"High","size":14,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032483","count":2},{"id":"GO:0072383","count":2},{"id":"GO:1901097","count":2},{"id":"GO:0032486","count":2},{"id":"GO:0048227","count":2}]},{"hash":"647616720307021336","title":"Transcription Regulation and RNA Processing","description":"Top terms are dominated by DNA-templated transcription, mRNA splicing via spliceosome, and negative regulation of transcription by RNA polymerase II, pointing to core roles in gene expression control. While a few terms reference vesicle transport and development, the recurring theme is nuclear RNA processing and transcriptional regulation, suggesting this cluster comprises transcription regulatory and RNA processing proteins with broader developmental roles.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0000398","count":4},{"id":"GO:0006888","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0060806","count":3}]},{"hash":"1160229629999095462","title":"Thermal and Pain Signal Response","description":"Top terms are dominated by pain and temperature-related responses, including sensory perception of pain, diet-induced thermogenesis, and cellular response to temperature stimulus, indicating a core theme of thermal/pain sensing and heat regulation. Additional terms such as visual perception and inflammatory-related processes appear but are secondary to the main thermal-sensory signal theme.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":14},{"id":"GO:0002024","count":14},{"id":"GO:0071502","count":14},{"id":"GO:0007596","count":11},{"id":"GO:0007601","count":11}]},{"hash":"568292196259814773","title":"Unknown","description":"The top GO terms span immune defense (LPS response, defense against bacteria, macrophage chemotaxis), coagulation, calcium signaling, and unrelated processes like vision and development, with no single cohesive function linking all proteins. ","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051281","count":5},{"id":"GO:0032496","count":5},{"id":"GO:0042742","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0007601","count":4}]},{"hash":"2281869143017957451","title":"RNA processing and ribosome maturation","description":"The strongest signals among the GO terms are related to RNA processing: mRNA splicing via spliceosome and maturation of SSU-rRNA, which point to RNA maturation and ribosome biogenesis as the core theme. The other terms are more scattered (purine metabolism, embryonic cleavage), suggesting the cluster\u2019s main thread is RNA processing, with some incidental metabolic annotations.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0030490","count":1},{"id":"GO:0019428","count":1},{"id":"GO:0006144","count":1},{"id":"GO:0055114","count":1}]},{"hash":"2145264394180292609","title":"Embryonic tissue morphogenesis","description":"This cluster centers on developmental and morphogenetic processes across diverse tissues (palate, mesoderm, cartilage, hair follicles, placenta, pancreatic cells, endocardial cushions, endocrine system). The common theme is embryonic development rather than a single specific function, thus a broad developmental label is appropriate.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":14},{"id":"GO:0060806","count":14},{"id":"GO:0003323","count":14},{"id":"GO:0060536","count":14},{"id":"GO:0003198","count":14}]},{"hash":"459581702981980383","title":"Ribosome biogenesis and translation","description":"The terms show strong representation of translation, cytoplasmic translation, and ribosome biogenesis (including small subunit biogenesis) along with tRNA modification, pointing to a core cluster of ribosome assembly and protein synthesis. A few cell cycle and cell division terms appear, which may reflect growth\u2013division coordination, but the dominant theme remains ribosome production and translation.","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0042254","count":5},{"id":"GO:0002181","count":4},{"id":"GO:0000747","count":3},{"id":"GO:0006400","count":3}]},{"hash":"1961633787869121595","title":"P53-Mediated Translation and Ribosome Biogenesis","description":"The cluster is enriched for translation and ribosome biogenesis terms (translation, cytosolic ribosome assembly, ribosomal large subunit biogenesis, regulation of translation) and also includes p53-mediated DNA damage response terms with responses to UV and gamma radiation, suggesting a link between DNA damage signaling and control of protein synthesis. This supports a functional module where the translation machinery and ribosome production are regulated in the context of p53-driven DNA damage response. ","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0042273","count":3},{"id":"GO:1902167","count":2},{"id":"GO:0006977","count":2},{"id":"GO:0042256","count":2}]},{"hash":"273364804316944273","title":"Epigenetic Regulation and Stress Signaling","description":"The cluster centers on chromatin- and transcription-related processes (DNA methylation, heterochromatin formation, histone deacetylation; negative regulation of gene expression) with accompanying stress-response signals (jasmonic acid/ethylene resistance, programmed cell death) and protein quality control, suggesting a theme of epigenetic regulation entwined with cellular stress responses rather than a single metabolic or developmental pathway.","confidence":"Medium","size":13,"edges":62,"triangles":152,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045668","count":10},{"id":"GO:0070845","count":10},{"id":"GO:1901300","count":10},{"id":"GO:0061198","count":10},{"id":"GO:0045149","count":10}]},{"hash":"1456739263610641126","title":"RNA Polymerase II Transcription Regulation","description":"This cluster is driven by transcription-related GO terms for RNA polymerase II, including DNA-templated transcription and negative regulation of transcription by RNA polymerase II, suggesting a shared role in RNAP II\u2013mediated gene control. A few terms are obsolete or redox-related, but the dominant signal is transcription regulation.","confidence":"High","size":13,"edges":21,"triangles":7,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0007576","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0070895","count":3}]},{"hash":"1497448247885836462","title":"B cell activation and phagocytosis","description":"The cluster shows strong enrichment for B cell receptor signaling, B cell activation, phagocytosis and complement activation, indicating a module of adaptive and innate immune activation. Although a couple of terms relate to development, the dominant terms point to B cell signaling and phagocytic/innate immune responses, with IL-10 regulation suggesting immune modulation within this cluster.","confidence":"High","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":3},{"id":"GO:0006911","count":2},{"id":"GO:0050871","count":2},{"id":"GO:0006910","count":2},{"id":"GO:0045087","count":2}]},{"hash":"613911205289558157","title":"Cellular stress response and organelle dynamics","description":"This cluster is enriched for terms tied to stress-related processes and organelle maintenance, including stress granule disassembly, Golgi reassembly, mitochondrial-related apoptotic signaling, and DNA damage response pathways, plus components involved in protein targeting and complex assembly, pointing to a cohesive theme of maintaining cellular homeostasis under stress and coordinating organelle dynamics.","confidence":"Medium","size":13,"edges":51,"triangles":95,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035617","count":5},{"id":"GO:0048364","count":4},{"id":"GO:0015991","count":4},{"id":"GO:1900740","count":4},{"id":"GO:0006977","count":4}]},{"hash":"1640261486146998608","title":"ER-Golgi vesicle transport and autophagy","description":"This cluster centers on vesicular trafficking in the early secretory pathway and endosomal routes, including ER-to-Golgi and Golgi-to-ER transport, endosome-to-Golgi and plasma membrane trafficking, and autophagy, with additional signals for GTPase regulation and dendrite-related transport\u2014together pointing to a cohesive vesicle trafficking/autophagy module, likely in neuronal contexts.","confidence":"High","size":13,"edges":11,"triangles":0,"max_degree":4,"top_function":"autophagy","top_go_terms":[{"id":"GO:0006888","count":11},{"id":"GO:0006914","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0034498","count":6},{"id":"GO:0006890","count":6}]},{"hash":"1415808939522473154","title":"Ubiquitin-Proteasome Regulation and Cell Cycle Control","description":"This cluster centers on ubiquitin-mediated protein turnover and cell cycle regulation. The top GO terms include SCF-dependent ubiquitin-proteasomal catabolic process, APC-dependent catabolic process, and positive regulation of ubiquitin ligase activity, all core to timed protein degradation. The presence of TORC1 signaling suggests growth-regulation integration. A few development-related terms may reflect downstream roles, but the strongest signal remains proteolysis and cell-cycle control.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:1904263","count":9},{"id":"GO:0031146","count":8},{"id":"GO:0031145","count":8},{"id":"GO:0043588","count":8},{"id":"GO:0043547","count":8}]},{"hash":"1200022619569206673","title":"Ribosome Biogenesis and Translation","description":"The top GO terms concentrate on ribosome assembly and protein synthesis (ribosome biogenesis, ribosomal small subunit biogenesis, translation, cytoplasmic translation, tRNA modification), indicating this cluster mainly comprises components of the ribosome assembly pathway and translation machinery. The concurrent cell cycle/division terms suggest coordination with growth, but the primary signal is ribosome biogenesis and translation. ","confidence":"High","size":13,"edges":6,"triangles":0,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0042274","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0000747","count":3}]},{"hash":"1478819668095723840","title":"Epithelial Polarity and Cytoskeletal Remodeling","description":"The top GO terms cluster around establishing and maintaining epithelial cell polarity and tight junctions, along with actin-driven cytoskeletal dynamics (filopodium assembly, actin branching) and small GTPase signaling. The presence of TGF-beta response and regulation of GTPase activity suggests signaling integration that drives polarity and cytoskeletal remodeling, rather than a single metabolic pathway. This points to a cohesive role in epithelial architecture and its cytoskeletal control via small GTPases.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071560","count":6},{"id":"GO:0050731","count":4},{"id":"GO:0090162","count":4},{"id":"GO:0071963","count":4},{"id":"GO:0050852","count":4}]},{"hash":"1805672414027996473","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000288","count":4},{"id":"GO:0000472","count":3},{"id":"GO:0034316","count":3},{"id":"GO:0000480","count":3},{"id":"GO:0000447","count":3}]},{"hash":"2293444571464260084","title":"Neural signaling and perception","description":"This cluster is dominated by GO terms related to sensory processing and neural communication, including visual perception, visual learning, pain perception, dopaminergic synaptic transmission, and behavioral responses to cocaine, along with signaling pathways like ERK cascade and GTPase regulation, suggesting a shared theme of neural signaling and sensory/behavioral processing. Some terms (heart development, macrophage chemotaxis) are less directly connected but do not obscure the central neural theme.","confidence":"Medium","size":13,"edges":68,"triangles":192,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":7},{"id":"GO:0010759","count":7},{"id":"GO:0019233","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0008542","count":7}]},{"hash":"1975070509234185523","title":"Spliceosome-Driven mRNA Splicing and Processing","description":"The top GO terms are dominated by mRNA splicing via the spliceosome, including alternative splicing, and broader RNA processing events (e.g., polyadenylation and mRNA splicing). This clustering of spliceosome- and processing-related terms suggests proteins in this group function primarily in RNA maturation and splicing regulation rather than other pathways. The presence of regulatory mRNA processing terms reinforces this cohesive theme.","confidence":"High","size":13,"edges":8,"triangles":1,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":4},{"id":"GO:0045657","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0000381","count":3}]},{"hash":"1038173535940601245","title":"Amino acid catabolism and nucleotide biosynthesis","description":"The Top Terms cluster around metabolism, notably amino acid degradation (serine, homocysteine/transsulfuration, hydrogen sulfide) and nucleotide biosynthesis (GTP, GMP). This suggests a cohesive metabolic module rather than a single pathway; a few terms like regulation of mitotic metaphase/anaphase are likely incidental. Overall, the cluster seems to represent amino acid catabolism coupled with nucleotide biosynthesis, hence the chosen label.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0045722","count":4},{"id":"GO:0030071","count":4},{"id":"GO:0043418","count":4},{"id":"GO:0006183","count":4},{"id":"GO:0055114","count":4}]},{"hash":"463142987822551946","title":"Chromatin-regulated transcription and cell proliferation","description":"This cluster features DNA-templated transcription and chromatin remodeling signals (rDNA heterochromatin formation and histone-related regulation), together with growth-proliferation cues (stem cell and endothelial proliferation, HGF response). A few terms touch on protein stability and fatty acid oxidation, but the dominant theme is transcription control through chromatin state coupled to proliferative signaling.","confidence":"High","size":13,"edges":73,"triangles":236,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0000183","count":6},{"id":"GO:2000648","count":6},{"id":"GO:0055114","count":5},{"id":"GO:0035729","count":5}]},{"hash":"758766942075124383","title":"Heart development and vascular differentiation","description":"This cluster is dominated by cardiac-related terms: cardiac right atrium morphogenesis and Notch signaling in regulation of heart field cardioblast proliferation, plus venous endothelial cell differentiation. While other terms like growth, translation, and response to mechanical stimulus appear, the strongest signal centers on heart development and associated vascular differentiation, supporting this label.","confidence":"High","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":4},{"id":"GO:0060843","count":2},{"id":"GO:0003270","count":2},{"id":"GO:0010745","count":2},{"id":"GO:0003213","count":2}]},{"hash":"1930157312790601459","title":"Growth and Development Regulation with Immune Signaling","description":"This cluster shows links to controlling growth and proliferation (cell growth, negative regulation of proliferation) and modulation of signaling (negative regulation of STAT tyrosine phosphorylation, NOD2 signaling), plus protein turnover (ubiquitin-dependent degradation) and various development-related processes (nervous system development, morphogenesis). The collection is heterogeneous but centers on regulatory roles in growth, development, and immune signaling, rather than a single pathway.","confidence":"Medium","size":13,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":4},{"id":"GO:0042518","count":4},{"id":"GO:0042787","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0008285","count":3}]},{"hash":"1923544819067218553","title":"Neuronal adhesion and synapse assembly","description":"This cluster is dominated by GO terms for cell-cell adhesion (homophilic/heterophilic), nervous system development, and synapse assembly, including neuroligin clustering at the postsynaptic membrane, with supporting terms for sensory perception and locomotion; together these point to proteins involved in neuronal connectivity and synaptogenesis, despite one outlier term on ossification.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":6},{"id":"GO:0007157","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0051965","count":5},{"id":"GO:0007605","count":5}]},{"hash":"399524040037316963","title":"JNK signaling, membrane trafficking, and mechanotransduction","description":"This cluster is enriched for GO terms involving JNK cascade regulation, endocytic transport from the plasma membrane to endosome, and cellular responses to mechanical stimuli, suggesting a core theme of signaling linked to membrane trafficking and mechanotransduction. Additional terms related to immune modulation, cell polarity, and development (brain migration and heart function) indicate broader roles of these signaling routes in physiological contexts. Therefore, I label it as JNK signaling, membrane trafficking, and mechanotransduction.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048227","count":3},{"id":"GO:0046330","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0042088","count":3},{"id":"GO:0032707","count":3}]},{"hash":"1762476411429534644","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":21,"triangles":10,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034975","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0006458","count":4},{"id":"GO:0071630","count":4},{"id":"GO:0006452","count":4}]},{"hash":"382389193991099925","title":"Innate Immunity and Coagulation Regulation","description":"This cluster shows enrichment for innate immune responses (response to lipopolysaccharide, defense response to fungus) and for coagulation/fibrinolysis processes (blood coagulation, positive regulation of fibrinolysis). The combination suggests a theme where inflammatory signaling intersects with hemostasis, with possible protease activities reflected by terms like seminal clot liquefaction and digestion.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":6},{"id":"GO:0000122","count":5},{"id":"GO:0044130","count":5},{"id":"GO:0007596","count":4},{"id":"GO:0007586","count":4}]},{"hash":"770920349529210215","title":"Broad developmental regulation","description":"These proteins are linked to diverse organ development (skeletal muscle, midbrain, uterus, spleen, placenta, gonads, tooth, palate), suggesting a shared role in general developmental processes rather than a single tissue. The transcription-related terms imply involvement of transcription factors or regulators coordinating developmental programs across tissues.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007519","count":4},{"id":"GO:0030901","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0060065","count":3},{"id":"GO:0048536","count":3}]},{"hash":"579053701131764232","title":"Multisystem Embryonic Organogenesis","description":"The top GO terms span development across many tissues (midbrain, eye, pancreas, liver, somites, primitive streak, metanephric mesenchyme), indicating a broad embryonic organogenesis program rather than a single tissue. The inclusion of transcriptional regulation terms fits the general control of developmental processes, supporting a multisystem embryonic development theme.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0030901","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0043010","count":6},{"id":"GO:1900212","count":6},{"id":"GO:0072075","count":6}]},{"hash":"2114900552845977945","title":"Multiorgan embryonic development","description":"Top GO terms point to development across diverse tissues (eye, pancreas, kidney, limb, brain regions, spinal cord, joints), suggesting the proteins are linked to broad embryonic organogenesis and neural development rather than a single pathway. This supports a general developmental role for the cluster, rather than a specific tissue function.","confidence":"Medium","size":13,"edges":19,"triangles":10,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":13},{"id":"GO:0035847","count":13},{"id":"GO:0031018","count":13},{"id":"GO:0072095","count":13},{"id":"GO:0021524","count":13}]},{"hash":"1433953496675017670","title":"Embryonic organogenesis and tissue patterning","description":"The GO terms point to broad developmental processes across multiple tissues, including cartilage morphogenesis, placental and endocrine system development, epithelial-to-mesenchymal transitions in heart development, and left-right patterning. This suggests a cohesive theme of embryonic organogenesis and pattern formation, so this label captures the cluster\u2019s shared function without overreaching.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0060536","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0003323","count":3}]},{"hash":"863923160873625460","title":"Embryonic development and morphogenesis","description":"The terms span multiple tissues and stages of embryonic morphogenesis (facial/roof of mouth development, cartilage formation, EMT in heart cushion formation, placental/trophoblast differentiation, hair follicle morphogenesis, pancreatic endocrine development, endocrine system development, left-right patterning), with a supporting role for transcriptional regulation during development.","confidence":"High","size":13,"edges":12,"triangles":0,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":11},{"id":"GO:0060536","count":10},{"id":"GO:0060806","count":10},{"id":"GO:0003198","count":10},{"id":"GO:0060707","count":10}]},{"hash":"1146143883007264909","title":"Diverse solute transmembrane transport","description":"This cluster is dominated by GO terms about transmembrane transport of a wide range of solutes (vitamins, nitrite/nitrate, various sugars, sialic acid, phosphate, sodium ions, xenobiotics, etc.), with a few metabolic terms like fucose metabolism. The common theme is proteins involved in moving diverse substrates across membranes, indicating a broad-spectrum transporter or solute-transport function.","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":11},{"id":"GO:0015707","count":11},{"id":"GO:0015757","count":11},{"id":"GO:0015739","count":11},{"id":"GO:0035435","count":11}]},{"hash":"2143824120604850795","title":"Planar Polarity and Mechanosensory Development","description":"The top GO terms cluster around planar polarity (establishment of planar polarity, cell-cell junction organization) and mechanosensory structures (stereocilium organization, detection of mechanical stimulus in equilibrioception), with several entries touching organ morphogenesis (lung branching) and development of heart-related structures (Purkinje cells, mitral valve). This suggests a common theme of coordinated tissue development guided by polarity and mechanosensory/junctional cues, despite some variance in specific organ contexts.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0097118","count":13},{"id":"GO:0050973","count":13},{"id":"GO:0060243","count":13},{"id":"GO:0032533","count":13},{"id":"GO:0060489","count":13}]},{"hash":"793980089719390251","title":"Calcium signaling and cardiac muscle regulation","description":"Proteins in this cluster are enriched for calcium handling (ion transport, mitochondrial calcium import) and regulation of calcium-dependent cardiac muscle contraction, plus heart development terms. This suggests a cohesive theme of calcium signaling driving muscle/heart biology, with a few broader developmental or metabolic terms as context.","confidence":"Medium","size":13,"edges":38,"triangles":50,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0072221","count":8},{"id":"GO:0006816","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0010881","count":6},{"id":"GO:0016061","count":6}]},{"hash":"1471162994067694623","title":"Muscle Contraction and Phototransduction","description":"This cluster is defined by strong representation of cardiac muscle contraction and sarcomere organization terms, pointing to a muscle-related function, alongside visual perception and phototransduction terms that indicate sensory/retinal signaling. The presence of GPCR signaling via cGMP connects signaling mechanisms used in both photoreceptors and vascular/muscle contexts. Some outliers (e.g., spicule insertion) may reflect annotation noise, but overall the proteins appear to bridge muscle machinery with sensory/transduction pathways, especially vision-related signaling.","confidence":"Medium","size":13,"edges":15,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":8},{"id":"GO:0007601","count":7},{"id":"GO:0007602","count":6},{"id":"GO:0045214","count":6},{"id":"GO:0034609","count":5}]},{"hash":"650857131015269348","title":"Dopaminergic signaling and cocaine-induced behavior","description":"The top GO terms point to neural signaling and behavior, especially dopaminergic synaptic transmission, cocaine-related behavioral responses, and ERK1/2 cascade regulation, with supporting terms for prostaglandin response and potassium transport. Some terms like heart development and visual perception appear broad or pleiotropic, but the core theme centers on dopamine-driven neural signaling and drug-induced behavior.","confidence":"Medium","size":13,"edges":74,"triangles":244,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0007601","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0008542","count":8},{"id":"GO:0010759","count":8}]},{"hash":"1851074105276061281","title":"Amino acid and polyamine metabolism with acetylation","description":"This cluster centers on acetylation of amine-containing molecules (peptidyl-lysine N6-acetylation, putrescine acetylation) and related small-molecule catabolic pathways (acetoin, spermine), alongside amino-acid related biosynthesis (arginine) and mycothiol production. Some terms appear tangential (leaf formation, heterochromatin formation), likely annotation noise. Overall, the shared theme is acetylation-linked modification and metabolism of nitrogen-containing small molecules.","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0018003","count":9},{"id":"GO:0045150","count":7},{"id":"GO:0006526","count":7},{"id":"GO:0010125","count":7},{"id":"GO:0006041","count":7}]},{"hash":"2187357990649144095","title":"Mitochondrial Ion and Metabolite Transport","description":"The Top Terms overwhelmingly point to transport across mitochondrial membranes and movement of ions and metabolites (deoxynucleotides, NAD, citrate, phosphate, manganese, magnesium) and related metabolic shuttles (malate-aspartate). The occurrence of multiple transmembrane transport terms centered on mitochondria and energy metabolism supports this cohesive theme.","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030302","count":11},{"id":"GO:1990616","count":11},{"id":"GO:0090152","count":11},{"id":"GO:0032869","count":11},{"id":"GO:0006828","count":11}]},{"hash":"580834823230322091","title":"RNA processing and translation regulation","description":"The terms consistently point to RNA metabolism and control of gene expression at the RNA level: translation initiation and reinitiation, preinitiation complex formation, IRES-dependent translation, miRNA and regulatory ncRNA\u2013mediated silencing, spliceosome-mediated mRNA splicing and its regulation, and mRNA stabilization. These together suggest a cluster centered on RNA processing and translational control mechanisms.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":9},{"id":"GO:0001731","count":9},{"id":"GO:0006378","count":7},{"id":"GO:0045292","count":7},{"id":"GO:0035278","count":6}]},{"hash":"1277762195031639348","title":"Cardiovascular GPCR\u2013cAMP signaling cluster","description":"The prominent GO terms center on activation of adenylate cyclase and adenylate cyclase\u2013activating GPCR signaling, plus positive regulation of blood pressure, which together point to GPCR-driven cAMP signaling governing vascular regulation. Although other terms appear (electron transport, visual perception, gastric acid secretion, etc.), the common thread across the cluster is GPCR-mediated signaling influencing cardiovascular physiology and related pathways. ","confidence":"Medium","size":13,"edges":38,"triangles":41,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":13},{"id":"GO:0007190","count":13},{"id":"GO:0022900","count":13},{"id":"GO:0010579","count":13},{"id":"GO:0007596","count":12}]},{"hash":"1861171281787480880","title":"Neural signaling, perception, and drug response","description":"Several top GO terms cluster around brain function: visual perception, visual learning, dopaminergic synaptic transmission, and behavioral responses to cocaine and morphine, plus ERK cascade regulation in brain contexts. This suggests the proteins co-function in neural signaling and drug-related behaviors; a single theme accordingly.","confidence":"High","size":13,"edges":60,"triangles":134,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":12},{"id":"GO:0010759","count":12},{"id":"GO:0043278","count":12},{"id":"GO:0002035","count":12},{"id":"GO:0019233","count":12}]},{"hash":"483136679735344402","title":"Lymphoid immune signaling and chemotaxis","description":"The GO terms cluster around immune system activity in lymphoid tissues\u2014lymph node development, monocyte chemotaxis, B cell homeostasis, interferon production, and paracrine signaling\u2014suggesting a pattern of immune cell recruitment and intercellular communication in lymphoid contexts, despite some unrelated metabolic terms present. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048535","count":3},{"id":"GO:0042952","count":3},{"id":"GO:0033280","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0071230","count":2}]},{"hash":"734497526519584878","title":"Regulated signaling and developmental processes","description":"These proteins mainly associate with signaling regulation (positive regulation of peptidyl-tyrosine phosphorylation, positive regulation of GTPase activity, ubiquitin ligase activity) and growth-factor\u2013related responses (cellular response to TGF-beta) plus developmental events (gastrulation, skeletal system development). Although a few terms are broader (e.g., taste perception, nuclear pore localization), the dominant theme points to regulators of signaling pathways that influence development. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0050731","count":5},{"id":"GO:0071560","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0050909","count":5},{"id":"GO:0001501","count":4}]},{"hash":"1466756495283309574","title":"Neuronal development and synaptic signaling","description":"This cluster is enriched for neural development and synaptic function terms: cerebellar Purkinje cell layer formation, synapse organization, and chemical synaptic transmission, along with Rho-mediated signaling affecting neural connectivity. Behavioral terms (exploration, vocalization) point to neural circuits governing behavior, supporting a cohesive neural development and synaptic communication theme.","confidence":"High","size":13,"edges":10,"triangles":3,"max_degree":6,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0070433","count":12},{"id":"GO:0051612","count":10},{"id":"GO:1901206","count":10},{"id":"GO:0050953","count":10},{"id":"GO:0035640","count":10}]},{"hash":"731940436030385650","title":"Embryonic Morphogenesis and Cardiovascular Development","description":"Most GO terms describe morphogenesis and development across several tissues, especially heart development, bone/cartilage formation, hair follicle morphogenesis, and uterine/placental development, as well as an EMT process in endocardial cushion formation. This suggests a shared theme of embryonic tissue formation and regulation of signaling during development. The innate immune response term appears less central, likely an incidental annotation.","confidence":"Medium","size":13,"edges":9,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":4},{"id":"GO:0045087","count":3},{"id":"GO:0060065","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0007507","count":2}]},{"hash":"1573243151402460303","title":"Neural signaling and learning regulation","description":"The terms cluster around neural communication and plasticity: both positive and negative regulation of synaptic transmission, including glutamatergic signaling, along with behavioral and sensory learning-related terms (olfactory learning, startle response, anterior lateral line development). The JNK cascade further supports neural stress-signaling context. A couple of terms (ERAD and NK cell regulation) are less obviously tied to neurons, but the dominant theme is neural signaling and learning, justifying this label.","confidence":"Medium","size":13,"edges":13,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007254","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0032815","count":2},{"id":"GO:0001919","count":1},{"id":"GO:0050806","count":1}]},{"hash":"290715569154521958","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":19,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0070389","count":3},{"id":"GO:0036494","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0006986","count":3},{"id":"GO:0051965","count":3}]},{"hash":"301869553763806025","title":"Immune cell adhesion and activation","description":"Enriched GO terms point to leukocyte interactions and responses: cell adhesion (homophilic/heterophilic CAMs) supports immune cell trafficking; monocyte extravasation and phagocytosis indicate innate recruitment and clearance; TNF production and T cell differentiation/activation show adaptive immune engagement; lipoteichoic acid detection marks pathogen sensing; and regulation of tolerance induction reflects immune regulation. A single term about atrial cardiac muscle depolarization appears peripheral noise rather than a core theme. Overall, the cluster aligns with immune cell adhesion and activation.","confidence":"High","size":13,"edges":64,"triangles":159,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":7},{"id":"GO:0007156","count":7},{"id":"GO:0060371","count":6},{"id":"GO:1904469","count":6},{"id":"GO:0006911","count":6}]},{"hash":"1150506020846499065","title":"Innate and adaptive immune activation","description":"This cluster is dominated by immune-related GO terms: phagocytosis, innate immune response, complement activation (classical pathway), and signals for B cell receptor signaling, positive regulation of B cell activation, and T cell costimulation. These collectively point to coordinated innate and adaptive immune activation, with phagocytic and lymphocyte signaling as the core theme. A few terms related to paranodal junctions and skeletal development are present but far less represented, not redefining the cluster\u2019s function.","confidence":"High","size":13,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006911","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0050853","count":7},{"id":"GO:0006958","count":7},{"id":"GO:0050871","count":7}]},{"hash":"1356997023841674182","title":"GPCR Signaling and Systemic Responses","description":"This set of GO terms clusters around GPCR-mediated signaling and broad physiological responses: regulation of GPCR signaling, response to peptides, visual perception via phototransduction (GPCR-driven), and regulation of serotonin secretion, with additional terms spanning coagulation, gastric acid secretion, inflammation, and cardiac growth that can be linked through GPCR pathways and downstream lipid signaling (PI biosynthesis). The pattern suggests a general theme of GPCR-dependent signaling affecting diverse tissues and processes rather than a single specific function.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":13},{"id":"GO:0007601","count":13},{"id":"GO:0010513","count":13},{"id":"GO:2000458","count":13},{"id":"GO:0001698","count":13}]},{"hash":"364589469825271823","title":"GPCR-cAMP/IP3 Signaling Components","description":"The top GO terms are centered on GPCR-mediated signaling and second messenger pathways, including activation of adenylate cyclase, regulation of cAMP and IP3 biosynthesis, and acetylcholine metabolism. While a few terms relate to tissue development or maintenance, the dominant pattern points to components of GPCR signaling cascades and associated second messenger regulation across contexts. This suggests a coherent, if not exclusively tight, theme around signaling rather than a single metabolic or developmental function.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":5},{"id":"GO:0060408","count":5},{"id":"GO:0060427","count":5},{"id":"GO:0007190","count":5},{"id":"GO:0001545","count":5}]},{"hash":"780424654010714787","title":"Unknown","description":"The top GO terms span disparate physiological processes (blood coagulation, visual perception, GPCR signaling, inflammation, gastric acid secretion, astrocyte chemotaxis, cardiac morphogenesis, serotonin regulation). There is no clear, common biological function or pathway uniting these proteins, and the network shows no connections to suggest a cohesive module. Therefore I cannot assign a specific, representative label beyond Unknown.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":13},{"id":"GO:0007601","count":13},{"id":"GO:0010513","count":13},{"id":"GO:2000458","count":13},{"id":"GO:0001698","count":13}]},{"hash":"1631076866887973307","title":"Skeletal morphogenesis and actin cytoskeleton signaling","description":"The proteins are enriched for skeletal system development and morphogenesis, and show strong signals for actin cytoskeleton regulation (Arp2/3\u2013mediated nucleation, barbed-end capping) plus growth-factor signaling (TGF-beta, GTPase activity, tyrosine phosphorylation), suggesting a developmental program coupling skeletal formation with cytoskeletal remodeling.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0050731","count":7},{"id":"GO:0071560","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0034316","count":7},{"id":"GO:0007275","count":7}]},{"hash":"339471357276102709","title":"Developmental signaling and lipid biosynthesis","description":"The top GO terms cluster around developmental processes (CNS development, retinoic acid response, hemopoiesis) and lipid metabolism (prostaglandin biosynthesis, cholesterol biosynthesis), with related metabolic and signaling facets (insulin response, mitochondrial potential regulation, detoxification, ion transport). This suggests a label capturing developmental signaling intertwined with lipid biosynthesis and metabolic regulation.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048147","count":2},{"id":"GO:0007417","count":2},{"id":"GO:0032869","count":2},{"id":"GO:0051881","count":2},{"id":"GO:0034765","count":2}]},{"hash":"588951690695223434","title":"Mitotic progression and DNA repair","description":"This cluster is strongly characterized by terms related to mitosis and genome maintenance: exit from mitosis, G2/M transition, chromosome segregation, and proteasome-dependent degradation that governs mitosis, alongside multiple DNA repair pathways (NER, translesion synthesis, postreplication repair). Although BMP signaling and embryonic development terms appear, the dominant theme is mitotic control coupled with DNA repair processes, suggesting these proteins function together in cell-cycle regulation and genome integrity during division. ","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0010458","count":12},{"id":"GO:0000086","count":12},{"id":"GO:0070911","count":12},{"id":"GO:0016032","count":12},{"id":"GO:0031146","count":12}]},{"hash":"1707280081703336962","title":"Cardiac development and conduction","description":"Most terms point to heart formation and electrical activity: AV node action potential, atrial/ventricular membrane depolarization and repolarization, regulation of heart rate by cardiac conduction, outflow tract morphogenesis, and multicellular organism development. A bone ossification term seems less aligned but may reflect broader development processes; overall the cluster centers on cardiac development and electrophysiology, with potassium ion import supporting cardiac function.","confidence":"High","size":12,"edges":26,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":8},{"id":"GO:0060371","count":6},{"id":"GO:0086091","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0086016","count":6}]},{"hash":"175608214725155957","title":"Growth Factor Signaling and Actin Remodeling","description":"Based on enrichment for insulin receptor and PDGF receptor signaling alongside actin polymerization and crosslinking terms, this cluster likely represents growth factor\u2013driven signaling that coordinates cytoskeletal remodeling. The inclusion of development- and neuron-related terms (branching morphogenesis, dendritic spine maintenance) suggests context-dependent roles in cellular morphology and tissue morphogenesis. Confidence: Medium","confidence":"","size":12,"edges":15,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":3},{"id":"GO:0030041","count":2},{"id":"GO:1902951","count":2},{"id":"GO:0060670","count":2},{"id":"GO:0010863","count":2}]},{"hash":"1249193976155336418","title":"Unknown","description":"The top GO terms span neuronal growth regulation, cytoskeletal processes, reproductive development, ubiquitination pathways, immune/coagulation responses, and antibacterial peptide regulation, with no clear, single shared function tying them together. The heterogeneous mix and lack of connectivity make a confident, representative label unlikely.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0048671","count":4},{"id":"GO:0051497","count":4},{"id":"GO:0008584","count":4},{"id":"GO:0070534","count":3},{"id":"GO:0051865","count":3}]},{"hash":"1589583403571879538","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":62,"triangles":183,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0071456","count":2},{"id":"GO:0031639","count":2},{"id":"GO:0006096","count":2},{"id":"GO:0030855","count":2}]},{"hash":"1136819640613516259","title":"Nervous system and muscle development","description":"The terms center on nervous system development (GO:0007399), PNS myelination (GO:0022011), and skeletal muscle fiber development (GO:0048741), indicating a shared theme of development of excitable tissues. The presence of calcium signaling (GO:0051281) and regulation of action potentials in SA node (GO:0098907) suggests functional aspects of neural and cardiac/muscle physiology, while apoptotic and glucocorticoid response terms reflect stress-related regulation often seen in these tissues. Taken together, the cluster appears to group proteins involved in development and excitability of nervous system and muscle.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043065","count":4},{"id":"GO:0051281","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0051384","count":3},{"id":"GO:0071456","count":3}]},{"hash":"1086969715003824776","title":"Neural development and synaptic signaling","description":"The cluster shows a clear emphasis on nervous system development and synaptic function, with GO terms for visual perception, long-term potentiation, excitatory postsynaptic potential, axonogenesis, and Schwann cell development. While there are also cell cycle and heart development terms that may reflect pleiotropy or broader developmental roles, the dominant theme centers on neural differentiation and synaptic activity.","confidence":"Medium","size":12,"edges":61,"triangles":174,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000086","count":11},{"id":"GO:0007601","count":9},{"id":"GO:0043065","count":9},{"id":"GO:0060291","count":9},{"id":"GO:0060079","count":9}]},{"hash":"1466831589151655675","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":53,"triangles":116,"max_degree":11,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0006412","count":3},{"id":"GO:0042274","count":2},{"id":"GO:1990258","count":2},{"id":"GO:0048254","count":2}]},{"hash":"1661593113765046690","title":"Metabolic response to xenobiotics and hormones","description":"The top GO terms cluster around xenobiotic response and metabolism (response to cocaine, cellular response to xenobiotic stimulus, xenobiotic metabolic process) and hormone/steroid catabolism (estrogen catabolic process, bile acid catabolic process), with supporting metabolic signaling (insulin receptor signaling pathway) and energy metabolism (aerobic respiration) terms, plus protein sulfation and sulfate assimilation. This suggests a theme of broad metabolic adaptation to xenobiotics and hormonal signals rather than a single, narrow pathway.","confidence":"Medium","size":12,"edges":14,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0009060","count":2},{"id":"GO:0008286","count":2},{"id":"GO:0030206","count":2}]},{"hash":"835562904615174435","title":"Mitochondrial lipid metabolism and energy production","description":"GO terms point to lipid biosynthesis (triglycerides, ether lipids, cardiolipin remodeling, phosphatidylcholine regulation) and mitochondrial ATP synthesis, suggesting the proteins cluster around mitochondrial lipid homeostasis and energy production. Some developmental or plant-specific terms appear, but the core theme centers on mitochondrial function linked to lipid metabolism.","confidence":"Medium","size":12,"edges":29,"triangles":23,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0070970","count":9},{"id":"GO:0042775","count":9},{"id":"GO:0019432","count":9},{"id":"GO:0008611","count":9},{"id":"GO:0035965","count":9}]},{"hash":"476789013395343115","title":"Purine nucleotide metabolism and salvage","description":"Most of the top GO terms focus on nucleotide metabolism and biosynthesis (AMP salvage, ADP and CDP biosynthesis, ITP metabolism, purine ribonucleotide interconversion, NAD+ biosynthesis), indicating a core theme of nucleotide metabolism. The brain and liver development terms likely reflect tissue-specific expression patterns rather than a unifying function of the cluster. Therefore, a concise label capturing nucleotide biosynthesis and salvage is appropriate.","confidence":"High","size":12,"edges":22,"triangles":14,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007420","count":11},{"id":"GO:0046940","count":8},{"id":"GO:0046939","count":8},{"id":"GO:0044209","count":7},{"id":"GO:0046041","count":7}]},{"hash":"149914164973532192","title":"Unknown","description":"The top GO terms span diverse processes including drug response, immune signaling, viral replication regulation, left-right organ asymmetry, mitotic cell cycle control, heart and urinary tract development, and lipid biosynthesis, with no clear, single theme linking the proteins. Therefore, there isn\u2019t a cohesive function to name this cluster.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0043278","count":5},{"id":"GO:0071357","count":5},{"id":"GO:0045070","count":5},{"id":"GO:0071908","count":5},{"id":"GO:0050689","count":5}]},{"hash":"1372779863827637578","title":"Peripheral nervous system development and myelination","description":"The terms cluster around nervous system formation and function: peripheral nervous system development, myelination, synapse organization, transmission of nerve impulse, paranode region localization, and clustering of voltage-gated sodium channels. Together these point to a module of proteins involved in guiding peripheral nerve development, organizing synapses, and forming myelin sheaths to enable efficient nerve signaling. Some terms like angiogenesis or neutrophil clearance may appear in broader developmental or inflammatory contexts but do not dominate the cluster\u2019s theme.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0045663","count":6},{"id":"GO:0050808","count":6},{"id":"GO:0042517","count":6},{"id":"GO:0045162","count":6},{"id":"GO:0002175","count":6}]},{"hash":"1556694888064566648","title":"Developmental differentiation and morphogenesis","description":"The top GO terms cluster around regulation of differentiation across multiple tissues (muscle, heart, astrocyte, pancreas) and morphogenesis, plus related cell adhesion and EMT processes, suggesting a broad developmental/differentiation role rather than a single tissue-specific function.","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0045663","count":12},{"id":"GO:0003199","count":12},{"id":"GO:0042981","count":12},{"id":"GO:0031018","count":12},{"id":"GO:0072049","count":12}]},{"hash":"1066357670723005695","title":"Developmental differentiation and morphogenesis","description":"The top GO terms point to transcriptional regulation and differentiation across diverse tissues (astrocytes, myoblasts, heart valve development, pancreas), plus processes like EMT and cell adhesion\u2014hallmarks of morphogenesis and developmental regulation. Together, these terms suggest a cohesive theme of genes coordinating development, differentiation, and tissue formation rather than a single specialized pathway. Confidence: High","confidence":"","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":9},{"id":"GO:2001038","count":9},{"id":"GO:0048712","count":9},{"id":"GO:0045663","count":8},{"id":"GO:0003199","count":8}]},{"hash":"258637693083622306","title":"Cell Polarity, Migration, and Division","description":"The cluster\u2019s GO terms repeatedly highlight cell polarity maintenance, various modes of cell migration (including amoeboid and neuronal cortex migration), and key mitotic processes (spindle assembly, division septum, cleavage furrow). Together these point to a set of proteins involved in cytoskeletal dynamics that coordinate shape changes, movement, and cell division, rather than a tissue-specific function. Some terms about heart contraction and neuromuscular balance may reflect shared cytoskeletal or motility roles rather than a distinct tissue-specific activity, but the core theme remains polarity, movement, and division.","confidence":"Medium","size":12,"edges":11,"triangles":0,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030011","count":11},{"id":"GO:0050885","count":11},{"id":"GO:0021799","count":11},{"id":"GO:0060047","count":11},{"id":"GO:1902583","count":11}]},{"hash":"1399950895700734285","title":"Neurodevelopment and muscle formation signaling","description":"The cluster is enriched for brain development, nervous system development, heart development, and myoblast fusion, pointing to roles in neural and muscular development. Additional terms like intracellular protein transport and regulation of Rho signaling fit with cytoskeletal dynamics and trafficking during development, while membrane repair and neuropeptide signaling modulation hint at broader cellular maintenance and communication in these tissues. Overall, the proteins appear to participate in developmental signaling in neural and muscular contexts.","confidence":"Medium","size":12,"edges":46,"triangles":81,"max_degree":11,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0006886","count":4},{"id":"GO:0043065","count":4},{"id":"GO:0007520","count":4},{"id":"GO:0035023","count":4}]},{"hash":"600501604489078232","title":"Nuclear DNA replication and chromatin remodeling","description":"This cluster is dominated by nuclear processes: DNA replication (primer synthesis and replication), DNA topology changes, and chromatin remodeling, along with protein targeting to the nucleus and RNA-based regulation (nonsense-mediated decay and ncRNA-mediated silencing). These terms together suggest a coherent theme of genome maintenance and chromatin-driven transcriptional control in the nucleus, with some development-related regulation likely tied to chromatin state. Confidence in this cohesive theme is Medium due to some ancillary terms (developmental and cold response) that are less central to the core replication/chromatin functions.","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0000184","count":12},{"id":"GO:0006269","count":12},{"id":"GO:0006260","count":12},{"id":"GO:0006605","count":12},{"id":"GO:0043044","count":12}]},{"hash":"53063701840053518","title":"Spliceosome-Mediated mRNA Processing","description":"The top GO terms cluster around mRNA splicing via the spliceosome (including cis and alternative splicing) and its regulation (positive and negative), along with mRNA stability and silencing pathways (ncRNA- and miRNA-mediated). This pattern points to a cohesive group of proteins involved in post-transcriptional RNA processing and regulation, especially spliceosome-driven splicing control and mRNA stability, with some links to translational initiation and silencing mechanisms.","confidence":"High","size":12,"edges":50,"triangles":95,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":9},{"id":"GO:0045292","count":8},{"id":"GO:0031047","count":7},{"id":"GO:0048025","count":7},{"id":"GO:0010610","count":7}]},{"hash":"1515099498907254385","title":"RNA processing and translational control","description":"These proteins cluster around RNA silencing and spliceosome-mediated splicing regulation, plus translation initiation and mRNA stabilization, indicating a cohesive role in RNA metabolism and control of gene expression at both splicing and translational levels.","confidence":"High","size":12,"edges":15,"triangles":5,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":9},{"id":"GO:0048026","count":9},{"id":"GO:0035278","count":8},{"id":"GO:0075522","count":8},{"id":"GO:0048025","count":8}]},{"hash":"529560758239732573","title":"Spliceosome and Translational Initiation Machinery","description":"The top GO terms cluster around mRNA splicing via the spliceosome (spliceosomal snRNP assembly, alternative splicing) and multiple facets of translation initiation and reinitiation (preinitiation complex formation, IRES-dependent initiation, translation reinitiation), with ribosome biogenesis also represented. This points to a coherent theme of RNA processing coupled with the machinery that initiates protein synthesis.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0070433","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0000387","count":2},{"id":"GO:0075522","count":2}]},{"hash":"892353477638049543","title":"Embryonic organogenesis and neural development","description":"This cluster centers on morphogenesis and development across many tissues (lung, heart, eye, floor plate, somitogenesis) and includes neural lineage terms (amacrine cell differentiation, neuronal stem cell maintenance). The presence of RNA polymerase II\u2013mediated transcription supports a shared transcriptional program driving these developmental processes, suggesting a cohesive theme of embryonic organogenesis with neural specification rather than a single tissue function.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":10},{"id":"GO:2000824","count":9},{"id":"GO:0060426","count":9},{"id":"GO:0001756","count":9},{"id":"GO:0035881","count":9}]},{"hash":"638888010943756016","title":"Mammary gland development and cell cycle regulation","description":"The top GO terms cluster around mammary gland development and epithelial cell proliferation (mammary gland alveolus development; positive regulation of mammary gland epithelial cell proliferation) together with cell cycle control (G2/M transition; regulation of cell cycle; mitotic spindle pole separation) and transcriptional regulation, suggesting a group of proteins involved in developmental proliferation governed by transcription and cell-cycle control. Some terms (e.g., Leydig differentiation, early viral transcription) are peripheral, but the dominant signal points to mammary gland development with proliferative control.","confidence":"Medium","size":12,"edges":36,"triangles":56,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060749","count":8},{"id":"GO:0006351","count":8},{"id":"GO:0033327","count":8},{"id":"GO:0000122","count":6},{"id":"GO:0071157","count":6}]},{"hash":"1773162652562646430","title":"Blood coagulation and vascular development signaling","description":"The cluster centers on processes related to blood coagulation and angiogenesis, with Wnt signaling and midbrain development terms suggesting a broader developmental/vascular program. While transcription regulation terms appear, the dominant themes point to coagulation intertwined with vascular development rather than a single, tightly connected function.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0007596","count":7},{"id":"GO:0016055","count":7},{"id":"GO:0045766","count":7},{"id":"GO:0030901","count":7}]},{"hash":"220452141217358294","title":"Neural axon guidance and photoreceptor differentiation","description":"The top GO terms cluster around neural development: CNS neuron axonogenesis, retinal ganglion cell axon guidance, fasciculation, neuron adhesion, and compound eye photoreceptor differentiation, plus related signaling (PI3K-AKT) and regulation of nerve growth. This suggests a cohesive function in neural differentiation and axon pathfinding, including eye development.","confidence":"High","size":12,"edges":65,"triangles":210,"max_degree":11,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0045663","count":7},{"id":"GO:0021952","count":7},{"id":"GO:0060168","count":7},{"id":"GO:0043491","count":7},{"id":"GO:0031290","count":7}]},{"hash":"791742798979569035","title":"Glycosylation-Linked Neural Development","description":"The Top GO terms cluster around protein glycosylation (N-linked and related acetylglucosamine metabolism) alongside neural and developmental processes (neuropeptide signaling, neuromast hair cell differentiation, olfactory bulb development, gastrulation, and endoderm development). This suggests proteins in this cluster are tied to glycosylation processes that influence neural differentiation and embryonic development, with some noise from species- or annotation-specific terms (e.g., plant cell wall metabolism). Confidence: Medium","confidence":"","size":12,"edges":16,"triangles":4,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006487","count":2},{"id":"GO:0070658","count":2},{"id":"GO:0007218","count":2},{"id":"GO:0019276","count":1},{"id":"GO:0021772","count":1}]},{"hash":"1142116165916572660","title":"Linkage-specific deubiquitination regulators","description":"The top GO terms cluster around deubiquitination across multiple ubiquitin linkages (K63, K33, K29, K11) and ubiquitin-dependent protein catabolic processes, suggesting the proteins act as deubiquitinases or ubiquitin-cycle regulators. Some terms also indicate negative regulation of immune signaling (IL-1\u03b2, NOD1, TLR3) and germinal center formation, which aligns with ubiquitin-mediated modulation of immune pathways. Overall, this cluster appears to center on ubiquitin editing rather than a single signaling pathway.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070536","count":2},{"id":"GO:1990168","count":2},{"id":"GO:0071947","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0035523","count":2}]},{"hash":"550200733925650721","title":"Motile cilium assembly and movement","description":"The top GO terms show robust signals for axoneme and motile cilium assembly and movement, pointing to ciliogenesis and ciliary motility as the cluster's shared function. Other terms present are more ancillary (e.g., signaling pathways, DNA binding, or transport), but the ciliogenesis/motility theme is the most representative.","confidence":"High","size":12,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043388","count":2},{"id":"GO:0035082","count":2},{"id":"GO:0044458","count":2},{"id":"GO:0060294","count":2},{"id":"GO:2001275","count":2}]},{"hash":"2148966924881285141","title":"Unknown","description":"The top GO terms cover diverse areas: acetoin, arginine, glucosamine, and mycothiol metabolism; polyamine (spermine/putrescine) acetylation; N-terminal protein acetylation; plus regulatory/epigenetic processes like subtelomeric heterochromatin formation and leaf formation. This broad, scattered set lacks a single cohesive function or pathway linking all proteins, so a specific, representative cluster label cannot be confidently assigned.","confidence":"","size":12,"edges":37,"triangles":49,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0045150","count":9},{"id":"GO:0006526","count":9},{"id":"GO:0010125","count":9},{"id":"GO:0006041","count":9},{"id":"GO:2000025","count":9}]},{"hash":"1362727757308695882","title":"Unknown","description":"The top GO terms do not point to a single coherent function. They include nervous system processes (regulation of membrane potential, visual perception, GPCR signaling), a chemical/physiological response (response to morphine, peptide), and unrelated systemic processes (blood coagulation, gastrin-induced acid secretion, astrocyte chemotaxis). Because there isn't a dominant shared biology, this cluster cannot be confidently assigned a specific biological theme.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042391","count":10},{"id":"GO:0043278","count":9},{"id":"GO:0007596","count":8},{"id":"GO:0007601","count":8},{"id":"GO:0010513","count":8}]},{"hash":"252816606190639839","title":"GPCR\u2013Adenylate Cyclase Signaling Cluster","description":"This cluster is dominated by GO terms for activation of adenylate cyclase and GPCR signaling, the core of the cAMP signaling pathway. Additional terms point to downstream GPCR cascades (phosphatidylinositol biosynthesis, calcium signaling) and diverse tissue effects (blood pressure, astrocyte chemotaxis, inflammation, vision, bone remodeling), suggesting a coherent GPCR\u2013cAMP signaling module with broad physiological links.","confidence":"High","size":12,"edges":14,"triangles":0,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":12},{"id":"GO:0010579","count":12},{"id":"GO:0045777","count":12},{"id":"GO:0022900","count":12},{"id":"GO:0007601","count":11}]},{"hash":"953840962444376966","title":"Endosomal sorting and receptor recycling","description":"The GO terms point to endosomal and vesicle trafficking roles: multivesicular body assembly, ubiquitin-dependent sorting via the MVB pathway, and receptor recycling, plus regulation of endosome size. While there are a couple of additional terms related to signaling, the clustering of endosome/trafficking-related processes suggests a membrane protein turnover and sorting theme, potentially linked to receptor recycling in cells and neurons.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0035249","count":1},{"id":"GO:0051036","count":1},{"id":"GO:0034968","count":1},{"id":"GO:0006355","count":1}]},{"hash":"848620349708197894","title":"Plant lipid and secondary metabolite catabolism","description":"The top GO terms point to lipid-related catabolic processes (triglyceride and phospholipid dephosphorylation) and degradation of plant secondary metabolites (stilbene), with additional hints of plant development (secondary shoot formation) and stress response (response to toxic substance). This suggests a cluster centered on plant lipid metabolism and degradation of secondary metabolites, rather than a single cohesive pathway, hence a cautious but specific label.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":5},{"id":"GO:0009636","count":4},{"id":"GO:0009086","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0009102","count":3}]},{"hash":"568388324856459971","title":"Innate Immune Signaling and Transcription Regulation","description":"The top GO terms include two innate immune pathways (MyD88-dependent TLR4 signaling and NOD2 signaling) and a term for regulation of DNA-templated transcription, suggesting a core theme of signaling driving transcriptional control. Other terms touch on cellular trafficking and differentiation, which can accompany signaling cascades, but the strongest, cohesive signal is immune signaling linked to gene regulation. Confidence: Medium.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0035660","count":2},{"id":"GO:0007527","count":2},{"id":"GO:0060050","count":1},{"id":"GO:0090161","count":1}]},{"hash":"1074255558389805720","title":"Cardiac potassium channel regulation and cytoskeletal signaling","description":"The terms are centered on potassium channel activity and cardiac conduction (membrane repolarization, heart rate regulation, membrane hyperpolarization), suggesting a cardiac electrophysiology theme. Supporting terms on stress fiber assembly and Rho signaling indicate cytoskeletal regulation, which can influence cardiomyocyte structure and signaling. Together they point to a cluster of proteins involved in cardiac ion transport and cytoskeletal regulation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060081","count":1},{"id":"GO:0086091","count":1},{"id":"GO:0071435","count":1},{"id":"GO:0060372","count":1},{"id":"GO:0071286","count":1}]},{"hash":"250363906160373849","title":"RNA processing and translation with viral interactions","description":"The cluster's strongest signals are RNA processing and translation (miRNA/siRNA processing, rRNA turnover) with a contextual link to viral regulation of host machinery; a couple terms are less connected.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0046726","count":4},{"id":"GO:0009636","count":4},{"id":"GO:0097049","count":4},{"id":"GO:2000628","count":4}]},{"hash":"1975039723971127751","title":"Microtubule dynamics and polarity","description":"The top GO terms point to microtubule-based processes: nuclear migration along microtubules, plus-end\u2013directed vesicle transport, plus-end\u2013specific microtubule depolymerization, and establishment/maintenance of microtubule cytoskeleton polarity, all central to cell division and polarized growth. Additional terms related to zonula adherens maintenance, integrin regulation, and root development reflect the broader role of microtubule organization in adhesion and developmental processes. Together, these terms indicate a cluster of proteins primarily involved in microtubule dynamics and cellular polarity during development and division.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0030473","count":11},{"id":"GO:0070462","count":11},{"id":"GO:0033624","count":11},{"id":"GO:0045218","count":11},{"id":"GO:0048364","count":11}]},{"hash":"1343354965739418456","title":"Mitochondrial translation and tRNA aminoacylation","description":"The cluster is dominated by GO terms for mitochondrial tRNA aminoacylation (Lys, Asn, and Asp) and translation, with supporting tRNA modification terms (wybutosine). This points to a cohesive role in mitochondrial protein synthesis and tRNA processing, despite a couple of outlier terms that may reflect broader or cross-species annotations.","confidence":"High","size":11,"edges":19,"triangles":9,"max_degree":7,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0070154","count":4},{"id":"GO:0070145","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0070146","count":4},{"id":"GO:0072581","count":4}]},{"hash":"765137926020037866","title":"Ubiquitin-Proteasome Regulation in Neural Development","description":"The cluster mixes mitotic cell-cycle terms (mitotic cell cycle, G2/M, G1/S transitions) with ubiquitin-proteasome\u2013related processes (SCF-dependent ubiquitination, K11-linked ubiquitination, proteasomal degradation) and neural development terms (nervous system development, axon extension, synaptic plasticity). This pattern suggests a module where ubiquitin-mediated protein turnover coordinates both cell-cycle control and neural development/plasticity, indicating a cohesive role in regulating neuronal differentiation and plasticity via the ubiquitin\u2013proteasome system.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0000086","count":3},{"id":"GO:0031146","count":3},{"id":"GO:0045773","count":3},{"id":"GO:0031915","count":3}]},{"hash":"1095324844494704098","title":"Immune Signaling Regulation and Cell Fate Control","description":"Many top GO terms point to regulation of key signaling pathways (NF-kappaB, JNK, TORC1) and post-translational modification (sumoylation), along with processes tied to immune cell differentiation and survival (T follicular helper cell differentiation, germinal center formation, regulation of apoptosis). The common theme is modulation of signaling networks that shape immune responses and cell fate decisions, with some broader pathway coverage (e.g., synaptic plasticity) that may reflect generic signaling regulation.","confidence":"Medium","size":11,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":2},{"id":"GO:0016925","count":2},{"id":"GO:0031915","count":2},{"id":"GO:2001015","count":2},{"id":"GO:0046328","count":1}]},{"hash":"1097992023775894802","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":11,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021943","count":5},{"id":"GO:0051291","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0021861","count":5},{"id":"GO:0051301","count":5}]},{"hash":"1933680443482970436","title":"Unknown","description":"These GO terms are highly heterogeneous: environmental responses, diverse developmental processes, various metabolic steps, and cell-cycle regulation, with no single unifying function. This makes a cohesive functional label unsupported.","confidence":"","size":11,"edges":10,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0032094","count":3},{"id":"GO:0045737","count":2},{"id":"GO:0061298","count":2},{"id":"GO:0019383","count":2},{"id":"GO:0060736","count":2}]},{"hash":"195330879964200455","title":"Neural Development and Synaptic Plasticity","description":"Terms cluster around neural function: visual perception, long-term potentiation, regulation of synaptic plasticity, excitatory postsynaptic potentials, axonogenesis, Schwann cell development, and calcium signaling, indicating neural development and synaptic function; a stray cell-cycle term exists but does not define the cluster.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":9},{"id":"GO:0043065","count":9},{"id":"GO:0060291","count":9},{"id":"GO:0048168","count":9},{"id":"GO:0060079","count":9}]},{"hash":"1629219931545360214","title":"Diverse Transmembrane Transporters","description":"This cluster is dominated by GO terms for transmembrane transport of a variety of substrates (nitrite, galactose, sialic acid, phosphate, nitrate, sodium, xenobiotics, vitamins, etc.), suggesting the proteins function broadly as membrane transporters. The convergence on transport across membranes across multiple substrates supports this cohesive theme.","confidence":"High","size":11,"edges":8,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":3},{"id":"GO:0015707","count":3},{"id":"GO:0015757","count":3},{"id":"GO:0015739","count":3},{"id":"GO:0035435","count":3}]},{"hash":"143084758299786920","title":"Polyamine metabolism and transport","description":"The cluster\u2019s strongest signals are putrescine and spermidine biosynthesis and regulation of polyamine transmembrane transport, indicating a cohesive focus on polyamine production and trafficking. Some terms (e.g., kidney development, transcription antitermination) appear unrelated noise, but the polyamine-related terms dominate the functional theme.","confidence":"Medium","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":3},{"id":"GO:0009089","count":2},{"id":"GO:1902269","count":2},{"id":"GO:0006527","count":2},{"id":"GO:0001822","count":2}]},{"hash":"1146836137937188009","title":"MAPK/ERK Pathway Regulation and Cell Cycle","description":"These proteins appear enriched in regulators of MAPK/ERK signaling (negative regulation of ERK cascade, T cell receptor signaling, and tyrosine dephosphorylation) and pathways tied to growth and fate decisions (cell cycle, PDGF/EGFR-like receptor signaling, ER stress-induced apoptosis). This suggests a cohesive function in fine-tuning MAPK/ERK signaling and related growth and immune signaling rather than a single isolated process.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":11},{"id":"GO:0000200","count":11},{"id":"GO:0070373","count":11},{"id":"GO:0007049","count":8},{"id":"GO:0035335","count":8}]},{"hash":"1812132163576551404","title":"Bacterial secretion and flagellar virulence factors","description":"The top GO terms cluster around bacterial pathogenic mechanisms: type III secretion system\u2013mediated protein secretion and bacterial flagellum assembly, which point to virulence-related machinery and host-interaction functions. While some terms (e.g., osteoblast differentiation, mitochondrial targeting) are less directly related and may reflect cross-annotation noise, the strongest signals consistently describe bacterial secretion and motility components. This makes the label representative of the core function of the cluster.","confidence":"High","size":11,"edges":17,"triangles":2,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":3},{"id":"GO:0042742","count":3},{"id":"GO:0030254","count":2},{"id":"GO:0090463","count":2},{"id":"GO:0006933","count":2}]},{"hash":"1513445965664988700","title":"Unknown","description":"Top terms span visual perception, diverse signaling pathways (Wnt, tachykinin, leukotriene), neural plasticity regulation, adipocyte differentiation, GTPase activity regulation, vascular smooth muscle relaxation, and centromeric cohesion. The spread of functions suggests no single dominant process linking the proteins, so there isn\u2019t a clear, coherent label beyond Unknown.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0060087","count":3},{"id":"GO:0060823","count":3},{"id":"GO:0007217","count":3}]},{"hash":"2151134241404381680","title":"Heart and fat cell differentiation signals","description":"This cluster is dominated by fat cell differentiation and heart development terms, pointing to adipogenesis and cardiogenesis. The presence of Wnt signaling and other tissue-signaling terms (tachykinin, leukotriene, vascular smooth muscle relaxation) supports a general theme of developmental signaling in mesoderm-derived tissues, notably heart and adipose. Hence, a label emphasizing heart and fat cell differentiation is appropriate and representative.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045444","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0060087","count":4},{"id":"GO:0060823","count":4},{"id":"GO:0007217","count":4}]},{"hash":"1646240712456773085","title":"Inflammation and cell survival signaling","description":"This cluster centers on signaling pathways like NF-\u03baB, ERK, and PI3K\u2013AKT, together with downstream effects on apoptosis, differentiation, and inflammatory responses (e.g., prostaglandin-mediated fever). These themes point to a shared role in transmitting signals that regulate inflammation and cell fate, despite a few outlier terms like virion attachment and paranodal junction assembly. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046813","count":4},{"id":"GO:0051092","count":3},{"id":"GO:0030913","count":3},{"id":"GO:1902042","count":3},{"id":"GO:0070374","count":3}]},{"hash":"1875867600661320447","title":"Innate Immunity and Mitochondrial Transport","description":"The top GO terms are dominated by innate immune responses (defense against Gram-negative bacteria, interferon-beta signaling, innate immune response, defense against protozoa), suggesting an immune-focused cluster. Several terms also point to mitochondrial processes (ion transport, malate-aspartate shuttle, mitochondrial localization/fission), indicating a link between immune function and mitochondrial metabolism. Overall, a cohesive theme around innate immunity with mitochondrial involvement, though not uniformly strong across all proteins. ","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0050829","count":1},{"id":"GO:0035458","count":1},{"id":"GO:0045087","count":1},{"id":"GO:0042832","count":1},{"id":"GO:0030302","count":1}]},{"hash":"912969848237957768","title":"Regulation of signaling and innate immunity","description":"The top GO terms cluster around negative regulation of signaling pathways (protein kinase activity; JAK-STAT) and innate immune responses (dsRNA response, LPS response, type III interferon production), suggesting the proteins act to modulate signaling and immune signaling. Some development-related terms appear as outliers, but the core theme is modulation of cellular signaling and immune response.","confidence":"Medium","size":11,"edges":11,"triangles":1,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006469","count":6},{"id":"GO:0007409","count":5},{"id":"GO:0034346","count":4},{"id":"GO:0043330","count":4},{"id":"GO:1905289","count":4}]},{"hash":"584866427173874162","title":"Multitissue Development and Transcriptional Regulation","description":"The top GO terms point to broad developmental processes across multiple tissues (facial/placental/pallidal/eye/uterine/pancreatic development, motor neuron differentiation) and core transcriptional control by RNA polymerase II, suggesting a cluster of proteins involved in general developmental programs rather than a single tissue-specific function.","confidence":"Medium","size":11,"edges":8,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":8},{"id":"GO:0060021","count":8},{"id":"GO:0021759","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0006366","count":6}]},{"hash":"1418581253819537995","title":"SNARE-mediated exocytosis and vacuolar transport","description":"This cluster centers on SNARE complex assembly and exocytic insertion of postsynaptic neurotransmitter receptors, indicating vesicle fusion/exocytosis as a core function. The additional terms point to vacuolar transport, acidification, and ion/homeostasis processes, suggesting a broader role in membrane trafficking tied to organellar ion regulation and energy-driven transport. Overall, the dominant theme is vesicle fusion/exocytosis with supporting vacuolar/ion transport activities.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035493","count":2},{"id":"GO:0098967","count":2},{"id":"GO:0015991","count":1},{"id":"GO:0006878","count":1},{"id":"GO:0006626","count":1}]},{"hash":"795130637313653729","title":"DNA replication and chromatid cohesion","description":"The dominant GO terms are about DNA replication and mitotic sister chromatid cohesion (including regulation of polymerase activity and maintenance of cohesion), suggesting a core function in genome duplication and chromosome maintenance. A few terms (visual perception, glutamate reuptake, uterine epithelium and pancreas development) appear as outliers and may reflect annotation noise or multi-function proteins. Overall, the cluster is best described by a DNA replication/chromosome cohesion theme, with moderate confidence.","confidence":"Medium","size":11,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":1},{"id":"GO:0034421","count":1},{"id":"GO:1900264","count":1},{"id":"GO:0007064","count":1},{"id":"GO:0034088","count":1}]},{"hash":"524191574666782938","title":"Mitochondrial Energy Transport and Insulin Signaling","description":"The cluster centers on mitochondrial energy handling\u2014ADP/ATP transport, mitochondrial membrane potential regulation, and apoptotic mitochondrial changes\u2014indicating proteins involved in mitochondrial bioenergetics. It also includes related transport processes (phosphate and manganese ions) and responses to insulin/IGF stimuli, pointing to regulation by insulin signaling and glucose metabolism. Together, these terms suggest a cohesive function in mitochondrial energy production and its insulin-responsive regulation.","confidence":"High","size":11,"edges":13,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0008637","count":9},{"id":"GO:0006828","count":8},{"id":"GO:0035435","count":8},{"id":"GO:1990314","count":8},{"id":"GO:0015866","count":8}]},{"hash":"652069239428631939","title":"Plant membrane lipid biosynthesis proteins","description":"The terms point to membrane-associated processes and lipid metabolism (ER insertion, fatty acid transport, ceramide biosynthesis, heme biosynthesis) with plant-specific functions (root hair elongation, plant-type cell wall assembly), suggesting a cluster of plant proteins involved in membrane dynamics and lipid biosynthesis.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048767","count":1},{"id":"GO:0071816","count":1},{"id":"GO:1902001","count":1},{"id":"GO:0006783","count":1},{"id":"GO:0071668","count":1}]},{"hash":"748470403030122057","title":"Calcium-regulated vesicle trafficking","description":"This cluster is dominated by terms related to vesicle tethering and docking in exocytosis and the regulation of calcium signaling (Ca2+ release, voltage-gated Ca2+ channels), suggesting a theme of calcium-dependent vesicle trafficking and signaling. Other terms reflect stress responses and post-translational acetylation, which may modulate these core processes but are less central. Overall, the strongest common thread is calcium-controlled vesicle trafficking.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090522","count":1},{"id":"GO:0042331","count":1},{"id":"GO:0006904","count":1},{"id":"GO:0010881","count":1},{"id":"GO:0071470","count":1}]},{"hash":"1443491125215610225","title":"Membrane microdomain signaling in immune and neural tissues","description":"The top GO terms cluster around membrane organization and signaling (eisosome and tight junction/eisosome assembly, membrane raft polarization, PKC signaling regulation) with additional terms from immune (B cell differentiation and BCR signaling) and neural/sensory contexts (myelination, sensory perception of sound). This suggests a shared theme of membrane domain\u2013mediated signaling across immune and neural tissues, though the set is heterogeneous. ","confidence":"Low","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034115","count":2},{"id":"GO:0002337","count":2},{"id":"GO:0070830","count":2},{"id":"GO:0070941","count":2},{"id":"GO:0050861","count":2}]},{"hash":"139388996012120047","title":"Developmental transcriptional regulation and differentiation","description":"The cluster is dominated by GO terms related to transcription regulation by RNA polymerase II and DNA-templated transcription, suggesting a core role in controlling gene expression. The presence of multiple differentiation/development terms (placental development, cartilage morphogenesis, trophoblast giant cell differentiation, EMT in endocardial cushion formation) indicates these proteins may coordinate developmental programs through transcriptional control. Some obsolete terms appear as annotation noise but do not negate the overall theme. Overall, the cluster aligns with transcriptional control guiding developmental differentiation.","confidence":"High","size":11,"edges":10,"triangles":0,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0060806","count":6},{"id":"GO:0003323","count":6},{"id":"GO:0007576","count":6}]},{"hash":"153490300133172541","title":"Planar polarity and tissue morphogenesis","description":"The top GO terms cluster around planar cell polarity establishment and related morphogenetic processes across tissues (hair orientation, lung branching) as well as cell\u2013cell adhesion and receptor clustering, with supporting cues from satellite cell activation and acetylcholine receptor signaling\u2014pointing to a cohesive theme of PCP-guided tissue organization and morphogenesis.","confidence":"High","size":11,"edges":22,"triangles":15,"max_degree":10,"top_function":"wound healing","top_go_terms":[{"id":"GO:0014841","count":10},{"id":"GO:0007213","count":10},{"id":"GO:0090251","count":10},{"id":"GO:0043113","count":10},{"id":"GO:0007156","count":10}]},{"hash":"2192577667089449422","title":"Telomere maintenance and cell cycle control","description":"These proteins show GO terms focused on telomere maintenance via telomerase (and telomere capping) and G2/M cell cycle regulation, suggesting a core role in nuclear genome maintenance and cell division control. Other terms touch on transcription regulation, RNA splicing, and DNA integration, with one entry for virion assembly, which may reflect broader nuclear-related functions or annotation noise. Overall, the telomere- and cell-cycle-related terms best unify the cluster.","confidence":"Medium","size":11,"edges":11,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0042308","count":1},{"id":"GO:0000122","count":1},{"id":"GO:0032212","count":1},{"id":"GO:0010389","count":1},{"id":"GO:2000480","count":1}]},{"hash":"1233690406514135712","title":"Unknown","description":"The GO terms span DNA replication, chaperone-dependent refolding, fungal mating and cell wall synthesis, stem cell differentiation regulation, membrane-targeting, stress responses, and iron-sulfur cluster assembly, with no single cohesive function tying all members together, so a specific label is not supported.","confidence":"","size":10,"edges":22,"triangles":35,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":8},{"id":"GO:0070389","count":8},{"id":"GO:0000742","count":7},{"id":"GO:1902037","count":7},{"id":"GO:0070880","count":7}]},{"hash":"1321386120443426726","title":"Unknown","description":"The listed GO terms are diverse and cover digestion, proteolysis, plant defense, kidney development, endocrine regulation, and behavior, with no clear overarching function linking the proteins. There isn't a coherent theme to assign a specific, representative label.","confidence":"","size":10,"edges":5,"triangles":1,"max_degree":4,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0007586","count":3},{"id":"GO:0016540","count":3},{"id":"GO:0002018","count":3},{"id":"GO:0009627","count":3},{"id":"GO:0045493","count":3}]},{"hash":"547478840027064308","title":"TGF-beta/BMP signaling regulators","description":"The dominant GO terms center on transforming growth factor beta signaling and BMP regulation, including cellular responses to TGF-\u03b2 and negative regulation of TGF-\u03b2 receptor signaling and BMP pathways. There are hints of signaling cross-talk (NF-kappaB, MAPK) and development-related processes, suggesting the proteins act as regulators of TGF-\u03b2/BMP signaling and associated developmental pathways. ","confidence":"High","size":10,"edges":10,"triangles":1,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":3},{"id":"GO:0030512","count":2},{"id":"GO:0042347","count":2},{"id":"GO:0000173","count":2},{"id":"GO:0010074","count":2}]},{"hash":"1804375052671358256","title":"Inflammation and leukocyte recruitment","description":"This cluster is dominated by immune and inflammatory processes: regulation of arachidonate secretion, leukocyte tethering/rolling, phagocytosis recognition, NK cell chemotaxis regulation, cell adhesion molecule production, and platelet activation. A few development terms (mesonephric/metanephric) are present but do not define the main theme; overall, the proteins appear to participate in leukocyte recruitment and inflammatory signaling.","confidence":"High","size":10,"edges":41,"triangles":92,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0090238","count":10},{"id":"GO:2000502","count":10},{"id":"GO:0060355","count":10},{"id":"GO:0010572","count":10},{"id":"GO:0050901","count":10}]},{"hash":"1710162940152515273","title":"Transmembrane transporters for ions and metabolites","description":"Based on the top GO terms, the cluster is dominated by transmembrane transport of ions and small metabolites (potassium ion, glycerol, acetate, hydrogen peroxide), with supporting signals from related excretion and cellular response to water deprivation. Eye-related terms appear but likely reflect tissue-specific expression rather than a core shared function. Therefore, a concise, representative label is \u201cTransmembrane transporters for ions and metabolites.\u201d","confidence":"High","size":10,"edges":15,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":4},{"id":"GO:0015793","count":3},{"id":"GO:0048593","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0042476","count":3}]},{"hash":"974974153284065496","title":"Ubiquitin-Proteasome\u2013Mediated Immune Signaling","description":"The cluster centers on immune signaling pathways (T cell receptor, C-type lectin receptor, Fc-epsilon receptor) and on ubiquitin-proteasome\u2013related proteolysis (SCF-dependent degradation, autoubiquitination), suggesting regulation of signaling networks through protein turnover; auxiliary terms like negative regulation of TGF-beta signaling and viral processes indicate broader signaling and host-defense context.","confidence":"High","size":10,"edges":39,"triangles":80,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0030512","count":3},{"id":"GO:0050852","count":2},{"id":"GO:0070911","count":2},{"id":"GO:0031145","count":2},{"id":"GO:0002223","count":2}]},{"hash":"701485515664764397","title":"Organ and vascular development","description":"Based on the prominent GO terms focusing on development and differentiation in various organs (retina vasculature, hepatocytes, uterus, prostate), and endothelial cell adhesion related to vascular formation, the cluster appears to group proteins involved in tissue and vascular development. While a couple terms such as specific catabolic processes are less cohesive, the main signal centers on organogenesis and vascular differentiation.","confidence":"Medium","size":10,"edges":9,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0046232","count":7},{"id":"GO:0061298","count":6},{"id":"GO:0019383","count":6},{"id":"GO:0060736","count":6},{"id":"GO:0010164","count":6}]},{"hash":"1681093085064885743","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":41,"triangles":91,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0031120","count":2},{"id":"GO:0031118","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0000462","count":2}]},{"hash":"1633644695804848625","title":"Metabolic Stress and Redox Balance","description":"The cluster centers on metabolic pathways (fatty acid oxidation, leucine catabolism, thiamine/folate metabolism, glutathione metabolism) and redox-related processes (glutathionylation, redox homeostasis), with accompanying signals of stress responses (starvation, cold). This suggests a coherent theme of energy production and maintaining redox balance under adverse conditions, even though one GO term is obsolete. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0042594","count":3},{"id":"GO:0033539","count":3},{"id":"GO:0009409","count":3},{"id":"GO:0006552","count":3}]},{"hash":"860613014524866598","title":"Mitochondrial Import and Mitophagy under Oxidative Stress","description":"The top GO terms point to mitochondrial processes (protein import into the mitochondrial matrix, calcium import into mitochondrion, regulation of mitophagy) and a hydrogen peroxide\u2013related stress response, suggesting a mitochondria-centered module governing maintenance and redox signaling. Neuronal and epithelial terms appear as secondary associations, but the core theme is mitochondrial import/mitophagy with oxidative stress response.","confidence":"Medium","size":10,"edges":5,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070301","count":3},{"id":"GO:0030150","count":3},{"id":"GO:0007612","count":2},{"id":"GO:0006820","count":2},{"id":"GO:0036444","count":2}]},{"hash":"248430717698712452","title":"Ubiquitin-regulated EGFR signaling","description":"This cluster centers on protein ubiquitination and EGFR pathway regulation (including negative regulation of EGFR activity and EGFR signaling), suggesting a module where ubiquitin-mediated turnover or ER-associated degradation modulates EGFR signaling and downstream processes such as cell survival and differentiation (with additional terms touching telomere maintenance and adipogenesis as broader context).","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0043966","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0032212","count":3},{"id":"GO:0007175","count":3}]},{"hash":"1940375501511853399","title":"Drosophila Development and Metamorphosis","description":"This cluster is strongly enriched for developmental processes specific to insects, including embryonic development via the syncytial blastoderm, metamorphosis, head involution, heart development, and related morphogenesis (angiogenesis). While some terms touch on stress responses (e.g., response to X-ray, glucocorticoid), the dominant theme ties to developmental progression and tissue remodeling in Drosophila.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035234","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0001525","count":3},{"id":"GO:2001269","count":2}]},{"hash":"353106079744414905","title":"Neural development and synaptic plasticity","description":"The cluster\u2019s GO terms predominantly point to brain-related development and synaptic function, including substantia nigra development, long-term synaptic potentiation, psychomotor behavior, and actin filament polymerization with positive regulation of GTPase activity\u2014together suggesting neuronal growth and synaptic plasticity. A few terms (heart development, tight junction assembly, transcytosis, symbiont-entry) are more peripheral and do not override the neuronal signal. Overall, the name reflects the strongest theme in the data.","confidence":"Medium","size":10,"edges":10,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0008284","count":2},{"id":"GO:0021762","count":2},{"id":"GO:0070830","count":2},{"id":"GO:0045056","count":2},{"id":"GO:0060291","count":2}]},{"hash":"2059550747270666627","title":"Developmental signaling and cell cycle regulation","description":"GO terms point to developmental programs (multicellular organism development, brain development) together with signaling regulation (positive regulation of GTPase activity and peptidyl-tyrosine phosphorylation) and structural/cellular-architecture processes (cilium assembly, mitotic spindle assembly, cell division, cell proliferation). This combination suggests a cohesive role in developmental signaling that coordinates proliferation and cytoskeletal/ciliogenesis machinery.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0050731","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0060271","count":6},{"id":"GO:0043984","count":6}]},{"hash":"2232863580913614544","title":"Actin filament assembly and organization","description":"The top GO terms cluster around actin dynamics: actin polymerization, nucleation, filament network formation, and formin-mediated assembly, plus centrosome localization, all pointing to actin cytoskeleton remodeling. Some broader terms (synaptic depression, histamine response) reflect signaling context, but the core theme remains actin filament assembly and organization.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051660","count":3},{"id":"GO:2000251","count":3},{"id":"GO:0060292","count":3},{"id":"GO:0070649","count":2},{"id":"GO:0030041","count":2}]},{"hash":"2274280392239694095","title":"Developmental signaling and tissue formation","description":"The top GO terms cluster around development across multiple tissues (skeletal, brain, heart, nervous system), supported by Rho GTPase signaling and regulation of exocytosis, which together point to coordinated development and cellular signaling during morphogenesis. Some outlier terms (ABA signaling, pseudohyphal growth) likely reflect cross-species annotations, but the dominant theme is developmental processes and associated signaling. ","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":10},{"id":"GO:0007266","count":10},{"id":"GO:0043547","count":10},{"id":"GO:0007420","count":10},{"id":"GO:0007507","count":10}]},{"hash":"637212217720786724","title":"Cross-tissue morphogenesis and differentiation","description":"The top GO terms point to regulation of differentiation across multiple tissues (myoblast/skeletal muscle, astrocytes, endocrine pancreas, osteoclast) and a heart valve morphogenesis process, with supporting terms on integrin-mediated adhesion. This suggests proteins in a developmental/differentiation network acting across diverse tissues rather than a single pathway. Confidence: High","confidence":"","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0045663","count":10},{"id":"GO:0003199","count":10},{"id":"GO:0042981","count":10},{"id":"GO:0031018","count":10},{"id":"GO:0072049","count":10}]},{"hash":"2030440164674977956","title":"Endocytic Trafficking and Receptor Regulation","description":"Top GO terms point to regulation of clathrin-dependent endocytosis, endosome transport, phagocytosis, and Golgi localization, with additional links to AMPA receptor activity and signaling pathways like Notch and TGF-\u03b2. This suggests a cohesive theme of proteins involved in vesicle trafficking and receptor turnover, potentially coordinating endocytosis with signaling and Golgi-mediated processes. Therefore, a label describing endocytic trafficking and receptor regulation captures the cluster\u2019s core function.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000311","count":2},{"id":"GO:2000370","count":2},{"id":"GO:2000643","count":2},{"id":"GO:0034383","count":2},{"id":"GO:0006911","count":2}]},{"hash":"315313782688158225","title":"Post-transcriptional mRNA processing and translation control","description":"The terms cluster around mRNA lifecycle control: export from the nucleus, stability and degradation, spliceosome- and ncRNA-mediated splicing regulation, translation initiation/reinitiation, and even IRES-driven translation. This suggests a cohesive group of proteins involved in post-transcriptional gene regulation and mRNA fate, rather than a single processing step.","confidence":"High","size":10,"edges":12,"triangles":8,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":5},{"id":"GO:0006406","count":5},{"id":"GO:0035278","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0075522","count":4}]},{"hash":"1549547671579586535","title":"Unknown","description":"The GO terms span developmental, metabolic, neurochemical, reproductive, and substance-response processes with no clear shared function across the proteins; terms include gastrulation, in utero embryonic development, sperm capacitation, quinolinate and thymidine catabolic processes, and regulation of biosynthesis and responses to substances. This lack of a cohesive theme makes it impossible to assign a concise, representative label; thus the cluster is best described as Unknown.","confidence":"","size":10,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":2},{"id":"GO:0046886","count":2},{"id":"GO:0048240","count":2},{"id":"GO:0019383","count":2},{"id":"GO:0007369","count":2}]},{"hash":"1304276681887332053","title":"Inflammatory signaling and vascular remodeling","description":"This cluster is dominated by inflammatory-related GO terms: inflammatory response, cellular response to lipopolysaccharide, NF-kappaB signaling pathway, and NOD2 signaling. These point to innate immune and inflammatory signaling as a core theme. Additional terms about branching morphogenesis and smooth muscle differentiation suggest concurrent vascular remodeling. Some terms (nucleolus localization, spliceosome regulation) appear ancillary. Overall, the cluster seems to group inflammatory signaling with vascular remodeling processes, rather than a single narrowly defined function. ","confidence":"Medium","size":10,"edges":10,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006407","count":2},{"id":"GO:0051092","count":2},{"id":"GO:1904751","count":2},{"id":"GO:0070431","count":2},{"id":"GO:0071222","count":2}]},{"hash":"118666431208983263","title":"Spinal cord neuron differentiation and growth regulation","description":"This cluster combines GO terms tied to spinal cord neurodevelopment (medial motor column neuron differentiation, ventral spinal cord interneuron specification, axonogenesis) with growth-related signaling (growth hormone receptor signaling, thyroid hormone response, hippo signaling regulation, organ growth) and cytoskeletal/trafficking processes (actomyosin organization, endocytic recycling), suggesting proteins that coordinate neural differentiation with growth control and cellular remodeling.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000637","count":3},{"id":"GO:0031032","count":3},{"id":"GO:0097067","count":3},{"id":"GO:0060396","count":3},{"id":"GO:0035331","count":3}]},{"hash":"543172499943093471","title":"Unknown","description":"The terms include DNA-templated transcription, apoptotic signaling (including p53 mediation), steroid biosynthesis, bile acid signaling via nuclear receptors, and various developmental processes, which do not converge on a single, cohesive function for the cluster. This lack of a clear common theme makes it unclear how to label the group with a specific, representative function.","confidence":"","size":10,"edges":8,"triangles":0,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0035902","count":3},{"id":"GO:0043066","count":3},{"id":"GO:0072332","count":3},{"id":"GO:0006694","count":3}]},{"hash":"791613207476864023","title":"Neutrophil-Mediated Defense Against Gram-Positive Bacteria","description":"The top GO terms cluster around innate immune and neutrophil functions, notably defense against Gram-positive bacteria and neutrophil-mediated killing, with supporting signals from inflammatory pathways (LPS response and IL-8 regulation). Some terms related to development and growth appear less connected, likely representing annotation noise, but the dominant theme is neutrophil-driven antibacterial defense.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0032496","count":4},{"id":"GO:0030901","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0044130","count":4}]},{"hash":"1675978876370891902","title":"RNA Pol II Regulation and RNA Processing","description":"Dominant GO terms center on transcription by RNA polymerase II and its negative regulation, along with RNA processing such as splicing and mRNA maturation, suggesting a nuclear gene expression control module. A few developmental terms (palate and pancreatic cell development) and other nuclear processes appear as potential context but do not override the core transcription/RNA processing signal. Overall, the cluster seems to represent transcriptional regulation and RNA processing machinery with some development-associated annotations.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0060021","count":5},{"id":"GO:0006366","count":4},{"id":"GO:0060806","count":4}]},{"hash":"1198621220645228828","title":"Neural development and calcium-dependent synaptic signaling","description":"The top GO terms cluster around nervous system development (CNS axonogenesis, corticospinal tract morphogenesis, sympathetic nervous system development), axon-related processes, and postsynaptic density assembly, supported by store-operated calcium channel activity/entry, which points to calcium-dependent signaling at synapses. The combination suggests a protein set involved in neural development and calcium-mediated synaptic function, despite one outlier term.","confidence":"High","size":10,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0032237","count":3},{"id":"GO:0051612","count":3},{"id":"GO:0021952","count":3},{"id":"GO:0060513","count":3},{"id":"GO:0009966","count":3}]},{"hash":"960725289266406873","title":"Cardiac development and chromatin remodeling","description":"This cluster is driven by terms pointing to heart development (secondary heart field specification and atrioventricular valve morphogenesis) and by chromatin dynamics (chromatin remodeling, nucleosome disassembly) alongside cell cycle regulation (G0 to G1 transition, regulation of the cell cycle) and transcriptional control, suggesting proteins that coordinate chromatin state with cardiac differentiation and proliferation. Dendritic spine morphogenesis appears as a peripheral link, likely due to shared cytoskeletal or signaling components rather than a core function here.","confidence":"Medium","size":10,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":2},{"id":"GO:0071456","count":1},{"id":"GO:0006977","count":1},{"id":"GO:0045023","count":1},{"id":"GO:0000122","count":1}]},{"hash":"1096121400687741916","title":"Unknown","description":"The GO terms are highly diverse, spanning development (blastocyst development, mammary gland involution), metabolism and signaling (digestion, cellular response to insulin), stress responses (cellular response to salt stress), protein regulation (negative regulation of protein sumoylation), cell cycle/differentiation (G1 to G0 transition) and various tissue-specific processes. There is no clear, shared function or pathway linking these terms, and no network connections among the proteins, so a single cohesive label is not evident.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001824","count":1},{"id":"GO:0007586","count":1},{"id":"GO:0016540","count":1},{"id":"GO:0014718","count":1},{"id":"GO:0032869","count":1}]},{"hash":"182694341777957097","title":"Dopaminergic synaptic signaling and cocaine response","description":"This cluster is dominated by neural signaling terms: dopaminergic synaptic transmission, ERK1/2 signaling, and behavioral responses to cocaine, with supporting terms for visual perception/learning and prostaglandin signaling, pointing to a neural signaling/plasticity module. Although a heart development term appears, the strongest signal centers on dopamine-related neuronal communication and drug response.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0007601","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0008542","count":8},{"id":"GO:0010759","count":8}]},{"hash":"54502873211307192","title":"Plant lipid and secondary metabolite catabolism","description":"Top GO terms point to lipid catabolism (triglyceride catabolic process, phospholipid dephosphorylation) and phenylpropanoid/secondary metabolite turnover (stilbene catabolic process), with supporting plant-specific processes (secondary shoot formation) and stress response. This suggests the cluster centers on plant metabolism focusing on lipid and secondary metabolite breakdown, rather than a single enzyme pathway.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0009102","count":5},{"id":"GO:0097755","count":5},{"id":"GO:0009636","count":5},{"id":"GO:0009086","count":5}]},{"hash":"996550970694882173","title":"Nuclear mRNA processing and export","description":"The top GO terms cluster around import of RNA-binding/splicing factors into the nucleus (hnRNP and splicing factors), mRNA export from the nucleus, and ribosomal subunit export, all core components of nuclear RNA processing and ribosome biogenesis pathways.Additional terms touch on transcription regulation and centrosome-related processes, but the dominant theme is nuclear RNA handling and transport.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006609","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0042493","count":6},{"id":"GO:0035048","count":6},{"id":"GO:0000055","count":6}]},{"hash":"1968889153256797429","title":"Neural membrane trafficking and barrier formation","description":"The cluster\u2019s top GO terms cluster around neural connectivity and membrane dynamics: regulation of short-term neuronal synaptic plasticity, substantia nigra development, myelination, endothelial barrier establishment, tight junction assembly, and transcytosis, as well as eisosome assembly. Together these suggest processes in neural circuit function and membrane trafficking that support synaptic signaling and barrier integrity. A few terms related to B cell differentiation/signaling appear, which may reflect annotation noise or broader membrane-related roles beyond the core neural theme.","confidence":"Medium","size":10,"edges":14,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0048172","count":2},{"id":"GO:0002337","count":2},{"id":"GO:0034115","count":2},{"id":"GO:0021762","count":2},{"id":"GO:0070830","count":2}]},{"hash":"1714782351185747178","title":"Vertebrate Embryonic Development Across Tissues","description":"This cluster centers on diverse embryonic development processes across tissues and organs, including nervous system development (myelination, sensory perception of sound, sympathetic nervous system), craniofacial and skeletal morphogenesis (cranial skeleton, roof of mouth, eyelid, hindlimb), lung development, and bone mineralization. The common thread is coordinated developmental programs in vertebrates rather than a single pathway or function, making this a coherent label that captures the broad developmental theme.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0048286","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0048701","count":2}]},{"hash":"1892059878018477745","title":"Diverse Biosynthesis and Metabolic Processes","description":"The top GO terms span multiple biosynthetic and metabolic activities, from testosterone and androgen biosynthesis to melanin and very long-chain fatty acid biosynthesis, plus other metabolism-related processes like acetoin catabolism and tetrahydrobiopterin biosynthesis. The terms are heterogeneous and not tied to a single pathway, and there are a few unrelated items (antibiotic response, sporulation, redox). This suggests a broad metabolism/biosynthesis theme rather than a specific functional cluster.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061370","count":3},{"id":"GO:0008209","count":3},{"id":"GO:0045150","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0009710","count":2}]},{"hash":"2251377563235756356","title":"Nuclear gene expression and RNA processing regulation","description":"The top terms center on regulation of transcription, RNA splicing, and RNA export within the nucleus, plus cell-cycle\u2013related nuclear events and a few stimuli-responsive responses. This suggests a cohesive theme of controlling gene expression at the transcriptional/processing level, with supporting roles in mRNA handling and nuclear dynamics during the cell cycle.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031065","count":3},{"id":"GO:0033127","count":3},{"id":"GO:0043484","count":3},{"id":"GO:0032784","count":3},{"id":"GO:0032720","count":3}]},{"hash":"1722031627948100924","title":"ECM-Driven Tissue Morphogenesis","description":"This cluster is enriched for extracellular matrix organization and interactions (ECM, integrin activation, cell-substrate adhesion) along with ossification and various tissue-specific morphogenetic terms (retina, ommatidial rotation, corticospinal tract). The common theme appears to be ECM-mediated regulation of morphogenesis across diverse tissues, rather than a single pathway, supporting a label around ECM-driven development.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0016318","count":2},{"id":"GO:0070173","count":1},{"id":"GO:0010811","count":1},{"id":"GO:0030198","count":1},{"id":"GO:0001503","count":1}]},{"hash":"1561949243802996314","title":"Unknown","description":"The Top Terms include coagulation, visual perception, gastric acid secretion, astrocyte chemotaxis, GPCR signaling, peptide response, heart morphogenesis, and serotonin regulation, spanning multiple tissues and processes with no clear common function. This heterogeneity makes it inappropriate to assign a cohesive label beyond Unknown.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":10},{"id":"GO:0007601","count":10},{"id":"GO:0010513","count":10},{"id":"GO:2000458","count":10},{"id":"GO:0001698","count":10}]},{"hash":"553418596228212267","title":"Diverse Substrate Transmembrane Transporters","description":"The GO terms show transmembrane transport across a wide range of substrates: ions (sodium, phosphate), nitrate/nitrite, various small molecules (galactose, fucose, 4-hydroxyphenylacetate), vitamins, and xenobiotics. While there is a metabolism term (fucose metabolic process) present, the core signal is membrane transporters handling multiple substrates, suggesting a transporter-focused cluster rather than a single substrate family. Confidence: Medium","confidence":"","size":10,"edges":9,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":2},{"id":"GO:0006004","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0042891","count":2}]},{"hash":"362212126987459755","title":"Androgen receptor signaling and prostate development","description":"The strongest signals are steroid hormone receptor complex assembly, male sex differentiation, and prostate gland development, which point to androgen receptor signaling as the central theme. Additional terms like cellular response to type I interferon, morphine response, and photoreceptor outer segment localization may reflect broader protein interaction or annotation noise, but do not override the core link to steroid signaling and prostate development.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071357","count":4},{"id":"GO:0006463","count":4},{"id":"GO:0046661","count":4},{"id":"GO:0030850","count":4},{"id":"GO:0043278","count":3}]},{"hash":"81910566424971785","title":"Immune cell differentiation regulators","description":"The top GO terms cluster around regulation and differentiation of immune cells (T cell proliferation, T follicular helper cell differentiation, myeloid progenitor and monocyte differentiation, and germinal center dynamics), suggesting a theme of immune cell development and control of immune proliferation. A few terms (eye morphogenesis, RNA decay/translation) appear as noise but do not outweigh the immune-differentiation signal. Overall, the cluster likely reflects proteins involved in governing immune cell fate and expansion.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000495","count":1},{"id":"GO:0007050","count":1},{"id":"GO:0002318","count":1},{"id":"GO:0002635","count":1},{"id":"GO:0045657","count":1}]},{"hash":"91881876924785565","title":"Unknown","description":"The GO terms span diverse processes including growth signaling, inflammatory regulation, NF-kappaB signaling, GPCR signaling, mRNA processing, and even cardiac action potential regulation and structural components, with no single dominant theme. Because the functions are heterogeneous and do not converge on a clear, representative mechanism, a confident, specific label cannot be assigned. ","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060396","count":3},{"id":"GO:0050728","count":3},{"id":"GO:0098907","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0001558","count":3}]},{"hash":"684279200281724415","title":"Somite patterning and bone morphogenesis","description":"The GO terms point to vertebrate embryonic development focused on somitogenesis and axial patterning (somite specification, left/right axis determination, somite rostral/caudal axis) plus skeletal formation processes (ossification, bone morphogenesis, pharyngeal system development). Notch signaling is a key driver of somite segmentation, strengthening the link to somite patterning and subsequent skeletal morphogenesis. The cluster therefore represents proteins involved in somite formation and skeletal development.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007368","count":1},{"id":"GO:0001503","count":1},{"id":"GO:0032525","count":1},{"id":"GO:0036342","count":1},{"id":"GO:0044324","count":1}]},{"hash":"956174309905898243","title":"Embryogenesis and tissue morphogenesis","description":"The terms cluster around embryonic development and tissue morphogenesis (placenta/trophoblast differentiation, cartilage morphogenesis, endocardial cushion EMT, pancreatic/endocrine development), with accompanying general gene-expression processes, implying a cohesive theme of developmental differentiation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060806","count":8},{"id":"GO:1903026","count":8},{"id":"GO:0003323","count":8},{"id":"GO:0032298","count":8},{"id":"GO:0000055","count":8}]},{"hash":"1053000823847120241","title":"Mitochondrial respiration and ETC assembly","description":"The frequent GO terms point to mitochondrial energy production, including proton transmembrane transport, NADH dehydrogenase to ubiquinone, cytochrome c to oxygen, and respirasome/complex II assembly, indicating a cluster of proteins involved in oxidative phosphorylation and assembly of mitochondrial respiratory chain supercomplexes. A CNS development term appears sparsely and may reflect annotation noise rather than a shared function. ","confidence":"High","size":9,"edges":31,"triangles":54,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":4},{"id":"GO:0034553","count":2},{"id":"GO:0006120","count":2},{"id":"GO:0009060","count":2},{"id":"GO:0097250","count":2}]},{"hash":"1641793900884479940","title":"Developmental tissue morphogenesis and mitotic regulation","description":"The top GO terms span tissue development (lymphangiogenesis, skeletal muscle fiber development, substantia nigra development, connective tissue replacement) and cell division/cytoskeletal control (mitotic chromosome condensation regulation, spindle\u2013kinetochore attachment, mitotic actomyosin ring assembly, RNA Pol II CTD dephosphorylation). This points to a theme of developmental tissue remodeling coordinated with mitosis and cytoskeletal dynamics, rather than a single, narrow pathway. Therefore, a label reflecting development plus mitotic regulation fits best.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1905213","count":9},{"id":"GO:2001034","count":9},{"id":"GO:0001946","count":9},{"id":"GO:1905205","count":9},{"id":"GO:0070940","count":9}]},{"hash":"797381243815071036","title":"Epigenetic Regulation in Development","description":"The top GO terms center on chromatin state and transcriptional control (histone methylation, heterochromatin formation, RNA Pol II regulation) with genome maintenance elements (mRNA decay, cohesion). These epigenetic and transcriptional processes intersect with developmental programs such as vitellogenesis, spermatogenesis, and muscle differentiation, suggesting a cluster tied to epigenetic regulation guiding differentiation across tissues.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007296","count":3},{"id":"GO:0048741","count":2},{"id":"GO:0007283","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0070481","count":2}]},{"hash":"180146390678413281","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":31,"triangles":55,"max_degree":8,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0042273","count":4},{"id":"GO:0002181","count":4},{"id":"GO:0000463","count":3},{"id":"GO:0000465","count":3}]},{"hash":"531394922786013702","title":"Translation Machinery and Fidelity Regulation","description":"This cluster is dominated by translation-related GO terms (translation, translational termination, mitochondrial translation, and regulation/maintenance of translational fidelity), pointing to a core function in protein synthesis and its quality control. A few peripheral terms (response to antibiotic, brain-derived neurotrophic factor stimulus, muscle differentiation, mRNA decay) are present but do not define the main theme, so the label emphasizes the central role in ribosome-mediated translation and fidelity.","confidence":"High","size":9,"edges":11,"triangles":10,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0046677","count":3},{"id":"GO:1990416","count":3},{"id":"GO:0006415","count":2},{"id":"GO:1902802","count":2}]},{"hash":"1631494092000343946","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":4,"triangles":0,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048568","count":5},{"id":"GO:0031047","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0000462","count":4},{"id":"GO:0042273","count":4}]},{"hash":"983762677895108899","title":"Ribosome and translation machinery","description":"The top GO terms are dominated by translation (GO:0006412) and ribosomal large subunit assembly (GO:0000027), with a Peptidyl-prolyl isomerase activity (GO:0000413) supporting protein folding during synthesis. While some viral-related terms appear (uncoating, viral replication activation, release), the core signal points to components of the protein synthesis machinery, suggesting the cluster represents ribosome/translation-related proteins with potential viral interaction context. ","confidence":"Medium","size":9,"edges":7,"triangles":2,"max_degree":3,"top_function":"protein folding","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0000027","count":3},{"id":"GO:2000276","count":3},{"id":"GO:0000413","count":3},{"id":"GO:0019061","count":3}]},{"hash":"1291818928766300910","title":"Ribosome biogenesis and SRP targeting","description":"The cluster is dominated by translation, ribosomal subunit assembly, and SSU rRNA maturation terms, along with SRP-dependent cotranslational targeting to membranes, indicating a core theme of ribosome assembly and nascent-chain targeting to the ER. Some development terms appear but do not define the primary function of the cluster.","confidence":"High","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0000082","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0000028","count":2},{"id":"GO:0001825","count":2}]},{"hash":"1722039559893881825","title":"Redox-regulated transcription and ER protein quality control","description":"This cluster shows a mix of redox/oxidant detoxification terms and transcription-related terms, plus ER protein folding and repair. The overlap suggests a module where cellular redox state modulates transcriptional control and ER-associated protein quality control under stress.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045454","count":4},{"id":"GO:0046826","count":3},{"id":"GO:0006662","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0034975","count":3}]},{"hash":"1590840023290997366","title":"Wnt signaling and cell cycle regulation","description":"The cluster\u2019s top terms center on development- and signaling-related processes, notably positive regulation of canonical Wnt signaling and cell cycle, with supporting cues from differentiation and transcriptional regulation. While some terms are less cohesive (e.g., mating projection growth, antibiotic response), the dominant theme ties signaling to proliferation and fate decisions.","confidence":"Medium","size":9,"edges":16,"triangles":11,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007049","count":5},{"id":"GO:0010796","count":5},{"id":"GO:0090263","count":5},{"id":"GO:0043524","count":5},{"id":"GO:0043525","count":5}]},{"hash":"1341524392801728436","title":"Mitochondrial protein import and stress response","description":"This cluster is driven by GO terms for protein import into the mitochondrial intermembrane space and for regulating mitochondrial membrane potential, which together point to mitochondrial maintenance functions. Additional terms related to cell division and defense/stress responses are present but less specific, making the core theme mitochondria and stress response.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0046677","count":2},{"id":"GO:2000072","count":1},{"id":"GO:0045041","count":1}]},{"hash":"2186246077372655396","title":"Bacterial metabolism and host interaction","description":"The top GO terms point to bacterial-centered metabolic pathways: amino acid biosynthesis (serine, valine, alanine), various catabolic processes (formate, galactarate), and menaquinone biosynthesis, along with selenium metabolism. The presence of a term related to the entry of bacterium into host cells suggests potential virulence-related activity, while the absence of network edges indicates these annotations come from diverse functions rather than a tightly connected module. Taken together, the cluster seems to reflect overall bacterial metabolic capabilities with some host interaction relevance.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006564","count":3},{"id":"GO:0001666","count":3},{"id":"GO:0009234","count":3},{"id":"GO:0009099","count":2}]},{"hash":"1814410116198918261","title":"Bacterial polysaccharide and sugar-nucleotide biosynthesis","description":"Most terms describe biosynthesis of sugars and exopolysaccharides (GDP-D-rhamnose, UDP-D-xylose, UDP-L-arabinose, galacturonate, colanic acid) and related polymers (PHB). This suggests a bacterial polysaccharide capsule/exopolysaccharide biosynthesis cluster. A couple of outlier terms are present but do not negate the main theme.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0042619","count":3},{"id":"GO:1902653","count":2},{"id":"GO:0001081","count":2},{"id":"GO:0019306","count":2}]},{"hash":"381672086331893926","title":"Neural glycolysis and PPP regulation","description":"This cluster is dominated by GO terms tied to central carbon metabolism and its regulation, especially glycolysis and the pentose phosphate pathway (PPP) and related sugar metabolism (fructose, fructose-2,6-bisphosphate). The inclusion of brain development suggests a neural context, while mitophagy regulation and dephosphorylation point to coordinated signaling that modulates energy pathways. Taken together, the proteins likely participate in neural energy metabolism regulation, particularly glycolysis and PPP flux. ","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":5,"top_function":"autophagy","top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0043456","count":3},{"id":"GO:0006564","count":3},{"id":"GO:0045820","count":3},{"id":"GO:1901525","count":3}]},{"hash":"1205282077203980970","title":"Mitotic cell cycle and vesicle trafficking","description":"The terms show mitosis-related processes (spindle assembly, cell division, mitotic cell cycle) together with vesicle trafficking (COPII budding, Golgi-to-ER transport) and cytoskeletal dynamics (actin branching, filopodium assembly) and adhesion-related spreading. This suggests proteins coordinate cell division with membrane trafficking and cytoskeletal remodeling.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0008283","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0090114","count":5}]},{"hash":"1236010455375245460","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034975","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0006458","count":6},{"id":"GO:0071630","count":6},{"id":"GO:0006452","count":6}]},{"hash":"1803430991911589257","title":"Unknown","description":"The terms span ER-Golgi ceramide transport, immune signaling (IL-6/IL-23 production, defense against virus, GM-CSF response), neural/sensory functions (CNS myelin maintenance, hearing), and skin-related processes (sebaceous gland differentiation), plus a sterol oxidation term. There is no single cohesive function linking these nine proteins, so a specific, representative label is not justifiable. ","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035621","count":2},{"id":"GO:0010572","count":2},{"id":"GO:0097011","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0051607","count":2}]},{"hash":"1952723907106007101","title":"ERK/MAPK signaling and cell adhesion in myogenesis","description":"This cluster centers on signaling pathways that regulate muscle cell differentiation (positive regulation of myoblast differentiation/fusion) and adhesion processes (integrin-mediated and calcium-independent cell-cell adhesion), with concurrent involvement in broader growth factor signaling (ERK cascade, FGFs, VEGF) and responses to estradiol and nitric oxide\u2014together pointing to coordinated signaling controlling myogenesis and associated cell\u2013matrix interactions.","confidence":"Medium","size":9,"edges":18,"triangles":11,"max_degree":6,"top_function":"wound healing","top_go_terms":[{"id":"GO:0010744","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0071392","count":4},{"id":"GO:0044344","count":4},{"id":"GO:0045663","count":3}]},{"hash":"433414186429329406","title":"Craniofacial Bone Development and Cytoskeletal Remodeling","description":"The top GO terms converge on cranial skeletal system and bone development, suggesting a role in craniofacial bone formation. Additionally, actin filament polymerization, integrin activation, and substrate adhesion-dependent cell spreading point to cytoskeletal dynamics and cell adhesion critical for morphogenesis. While other signals like insulin and GPCR pathways appear, they do not outweigh the core developmental/adhesion theme. Confidence: High","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0051798","count":2},{"id":"GO:0008286","count":2},{"id":"GO:1904888","count":2},{"id":"GO:0030041","count":2},{"id":"GO:0034446","count":2}]},{"hash":"1521957436184008325","title":"RNA modification and rRNA processing regulation","description":"The top GO terms are dominated by RNA modification activities (pseudouridine synthesis in rRNA and tRNA) and negative regulation of rRNA processing, pointing to a cohesive theme around RNA maturation and modification. While several nucleoside/nucleotide catabolic and biosynthetic processes appear among the terms, they are less central to the cluster's core function compared to RNA modification roles.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000455","count":1},{"id":"GO:0031119","count":1},{"id":"GO:0006203","count":1},{"id":"GO:1901909","count":1},{"id":"GO:0015938","count":1}]},{"hash":"2160021151625980620","title":"Zinc Transport and Homeostasis","description":"The top GO terms cluster around zinc handling: import across the plasma membrane, intracellular zinc homeostasis, response to zinc starvation, and detoxification, pointing to a cohesive zinc uptake and maintenance function. A single limb-development term is out of place but does not affect the overall zinc-centric pattern.","confidence":"High","size":9,"edges":9,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0070574","count":1},{"id":"GO:0034224","count":1},{"id":"GO:0006882","count":1},{"id":"GO:0006831","count":1},{"id":"GO:0010312","count":1}]},{"hash":"1616401709365028503","title":"Telomere Maintenance and Cell Cycle Regulation","description":"The top GO terms point to telomere maintenance via telomerase and holoenzyme assembly, along with regulation of the cell cycle and kinase/phosphatase activities, suggesting a core function in telomere biology and cell-cycle control. While other terms present (e.g., virion attachment, otolith tethering, salt stress) are diverse and may reflect broader annotations, the strongest common theme is telomere maintenance linked to cell-cycle signaling.","confidence":"Medium","size":9,"edges":21,"triangles":23,"max_degree":8,"top_function":"protein folding","top_go_terms":[{"id":"GO:0007004","count":6},{"id":"GO:1905323","count":6},{"id":"GO:0030511","count":6},{"id":"GO:0032516","count":6},{"id":"GO:0019062","count":6}]},{"hash":"2086913655169985546","title":"General Embryonic Development","description":"The top GO terms cluster around development across multiple tissues and organs (eye, uterus, pancreas, kidney, motor neurons, cerebellum, limbs, mesoderm), plus patterning and cell fate specification. This suggests a broad theme of embryonic development and tissue patterning rather than a single specific function, so a general \u201cembryonic development\u201d label fits best.","confidence":"Medium","size":9,"edges":10,"triangles":1,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007601","count":9},{"id":"GO:0035847","count":9},{"id":"GO:0031018","count":9},{"id":"GO:0072095","count":9},{"id":"GO:0021524","count":9}]},{"hash":"1309440323385325798","title":"Embryonic Development and Organ Morphogenesis","description":"The proteins show involvement across diverse developmental and morphogenetic processes in multiple tissues (pancreas, brain, cornea, neural crest, digestive tract, ureteric bud branching, muscle lineage, megakaryocyte differentiation), with a common thread of developmental regulation, including transcriptional control by RNA polymerase II. This suggests a theme of embryonic organogenesis and tissue morphogenesis rather than a single pathway.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0031018","count":4},{"id":"GO:0048557","count":4},{"id":"GO:0090190","count":4},{"id":"GO:0001755","count":4}]},{"hash":"1985022442004477667","title":"Planar polarity and mechanosensory organ development","description":"The cluster is enriched for terms about planar polarity establishment and polarity-related organization, mechanosensory processes (equilibrium sensing and stereocilium organization), and sensory organ morphogenesis (inner ear receptors, neuroligin clustering in postsynaptic membranes), suggesting a coherent theme around sensory organ development guided by planar polarity and cell\u2013cell adhesion.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":4},{"id":"GO:0097118","count":3},{"id":"GO:0050973","count":3},{"id":"GO:0060243","count":3},{"id":"GO:0032533","count":3}]},{"hash":"2197387768273991509","title":"GPCR-Mediated Immune Cell Migration","description":"This cluster is enriched for GPCR signaling (GO:0007186), immune response (GO:0006955), and myeloid dendritic cell chemotaxis (GO:0002408), pointing to proteins involved in GPCR-driven signaling that guides immune cell movement, especially dendritic cells. While other terms mention responses to hypoxia or hormones, the strongest, recurrent signals tie to GPCR pathways and immune-cell trafficking, justifying this label.","confidence":"High","size":9,"edges":10,"triangles":2,"max_degree":8,"top_function":"wound healing","top_go_terms":[{"id":"GO:0014911","count":5},{"id":"GO:0002408","count":5},{"id":"GO:0001666","count":4},{"id":"GO:0007186","count":4},{"id":"GO:0032869","count":4}]},{"hash":"735746319105444572","title":"Mitochondrial dynamics and inheritance","description":"The major terms revolve around mitochondria\u2014fragmentation, fusion, intracellular distribution, inheritance, and morphogenesis\u2014indicating a cohesive theme of mitochondrial dynamics. A few non-mitochondrial terms appear, but the strongest signal is mitochondrial morphology and inheritance, justifying this label.","confidence":"High","size":9,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043653","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0048312","count":2},{"id":"GO:0070584","count":2},{"id":"GO:0000055","count":2}]},{"hash":"601073351589923603","title":"Glycan biosynthesis and cell wall polysaccharide assembly","description":"The top GO terms cluster around nucleotide-sugar biosynthesis (UDP-N-acetylglucosamine, GDP-mannose), plus biosynthesis of lipopolysaccharide, O antigen, glycogen, and related glucose-1-phosphate metabolism, all pointing to production and assembly of glycans and cell-surface components. Some outliers (nucleotide catabolism and gravity detection) exist, but the dominant theme strongly supports glycan biosynthesis and cell wall polysaccharide formation.","confidence":"High","size":9,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006148","count":3},{"id":"GO:0071555","count":3},{"id":"GO:0006048","count":3},{"id":"GO:0009298","count":3},{"id":"GO:0005978","count":3}]},{"hash":"704057805484290587","title":"Neural development and cell adhesion","description":"The top terms are dominated by cell-cell adhesion (heterophilic and homophilic) and signals regulating synapse assembly, along with nervous system development, retina homeostasis, and corticospinal tract morphogenesis. This indicates a cohesive theme of neural development and synaptic wiring, reinforced by integrin activation and adhesion processes. Ossification and nephron development appear as broader developmental contexts, but the core signal remains neural development tied to cell adhesion.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007157","count":7},{"id":"GO:0007156","count":7},{"id":"GO:0051965","count":6},{"id":"GO:0043931","count":6},{"id":"GO:0007399","count":6}]},{"hash":"173684631306288967","title":"Embryonic development and organogenesis","description":"The terms cluster around developmental processes: gastrulation, placenta development, skeletal system development, endothelial cell proliferation, and cilium assembly\u2014all central to embryogenesis and organ formation. Some terms (DNA transposition and mitochondrial outer membrane permeabilization) reflect genome dynamics and apoptosis that can accompany development. Overall, the proteins seem tied to developmental morphogenesis and organogenesis rather than a single biochemical pathway.  ","confidence":"Medium","size":9,"edges":9,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006313","count":3},{"id":"GO:0001935","count":3},{"id":"GO:0060271","count":2},{"id":"GO:0060137","count":1},{"id":"GO:0001893","count":1}]},{"hash":"1116996964894192027","title":"Neural development and axonogenesis","description":"This cluster's top GO terms are dominated by neural development and neuron differentiation: medial motor column neuron differentiation, ventral spinal cord interneuron specification, and peripheral nervous system neuron axonogenesis. Additional terms touch on cell-matrix interactions and cytoskeletal organization that can support tissue morphogenesis, but the strongest signal is neural differentiation and axon growth.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":3},{"id":"GO:0090503","count":2},{"id":"GO:0006308","count":2},{"id":"GO:0060976","count":2},{"id":"GO:0031032","count":2}]},{"hash":"1709692900251667354","title":"Hair cycle and keratinization","description":"The GO terms are strongly hair-specific, pointing to hair follicle biology and keratinization of the hair shaft, suggesting the proteins function together in hair growth cycles and shaft formation.","confidence":"High","size":9,"edges":24,"triangles":29,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0042633","count":9},{"id":"GO:0031424","count":9}]},{"hash":"2090587917982767295","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":13,"triangles":6,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":4},{"id":"GO:1901300","count":4},{"id":"GO:0009636","count":4},{"id":"GO:0090346","count":4},{"id":"GO:0031284","count":4}]},{"hash":"1068412922004841411","title":"Pro-angiogenic and inflammatory signaling","description":"The top GO terms cluster around promoting blood vessel formation (positive regulation of angiogenesis) and signaling pathways (ERK cascade, tyrosine kinase activity) that govern immune cell recruitment (positive regulation of monocyte chemotaxis) and inflammatory responses (acute-phase response). Although a few terms pertain to broader development (kidney, neuron projection), the strongest, recurring themes are angiogenesis and immune/inflammatory signaling, suggesting a module coordinating vascular growth with inflammatory cues.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":4},{"id":"GO:0010976","count":3},{"id":"GO:0006953","count":3},{"id":"GO:0001822","count":3},{"id":"GO:0010535","count":3}]},{"hash":"1424766215645804924","title":"Ubiquitin-Dependent Regulation of Apoptosis and NF-\u03baB/JNK Signaling","description":"The top GO terms center on ubiquitin-dependent protein catabolic processes and autoubiquitination, indicating E3 ligase\u2013mediated protein turnover. Coupled terms include regulation of the JNK cascade, I-kappaB phosphorylation (NF-\u03baB signaling), TNF-mediated signaling, and regulation of apoptotic processes, all of which are commonly controlled by ubiquitination. This suggests a cohesive cluster of proteins involved in ubiquitin-mediated regulation of stress signaling and cell fate decisions.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0046328","count":4},{"id":"GO:1903762","count":4},{"id":"GO:0042981","count":4},{"id":"GO:1903721","count":4}]},{"hash":"2283816243744931957","title":"Retina and Visual Perception Proteins","description":"The top GO terms are strongly centered on eye-related functions (visual perception, photoreceptor maintenance, retina development), suggesting a cohesive theme around retina/photoreceptor biology. A few terms pertain to immune or cell-wall processes, which may reflect broader roles of some proteins or annotation noise, but the dominant signal points to vision-related functions.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:0042742","count":3},{"id":"GO:0035025","count":3},{"id":"GO:0019076","count":3},{"id":"GO:0009253","count":3}]},{"hash":"2192594230428679165","title":"Metanephric nephron development","description":"The top GO terms are dominated by metanephric kidney development and nephron morphogenesis (proximal/distal tubule development, ascending limb), with supporting signals related to lymph vessel morphogenesis and lectin-mediated immune signaling. This suggests a cohesive kidney development cluster with ancillary vascular/immune involvement.","confidence":"Medium","size":8,"edges":3,"triangles":1,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060355","count":6},{"id":"GO:0051873","count":6},{"id":"GO:0001502","count":6},{"id":"GO:0001867","count":6},{"id":"GO:0072177","count":4}]},{"hash":"351831103714794578","title":"Organ Development and Tissue Differentiation","description":"The top GO terms include retina vasculature development, prostate gland growth, hepatocyte differentiation, uterus development, and endothelial cell-cell adhesion, all pointing to development and differentiation across various tissues. A few terms related to metabolic/biosynthetic processes (camphor/kaurene/macrolide) may reflect annotation noise rather than core function. Overall, the cluster appears to capture organ- and tissue-specific developmental roles, hence this label. Confidence: Medium","confidence":"","size":8,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0061298","count":2},{"id":"GO:0019383","count":2},{"id":"GO:0060736","count":2},{"id":"GO:0010164","count":2},{"id":"GO:0010241","count":2}]},{"hash":"525759584688510804","title":"APC/C-Dependent Proteolysis in Mitosis","description":"The top GO terms cluster around ubiquitin-dependent protein catabolic processes, especially APC/C-dependent degradation, and cell division/mitosis, with K11-linked ubiquitination highlighting proteasome targeting during mitosis. While some terms are obsolete or reflect stress responses (cadmium, innate immunity), the dominant signal is ubiquitin-proteasome\u2013mediated regulation of mitotic progression. This suggests the proteins act together to control mitosis via targeted protein degradation.","confidence":"High","size":8,"edges":5,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0031145","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0070979","count":5}]},{"hash":"1641679682464590499","title":"Chaperone-mediated protein folding","description":"The top GO terms show unfolded-protein response and chaperone-dependent refolding, indicating a folding/stress-response theme for this cluster. While other terms (DNA replication, telomerase assembly, auxin transport, photoreceptor localization, centrosome microtubule anchoring) appear less related, the strongest signal is toward protein folding assistance and stress response, suggesting a cohesive chaperone-related function. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070389","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0006260","count":2},{"id":"GO:1900037","count":1},{"id":"GO:2000012","count":1}]},{"hash":"1513861261108272639","title":"DNA damage response and sumoylation regulation","description":"The top GO terms cluster around DNA damage response processes (intrinsic apoptotic signaling in response to DNA damage, TLS, DNA break attachment to the nuclear envelope) and regulation of protein sumoylation (both positive and negative). These together suggest the proteins are involved in coordinating DNA damage signaling and post-translational modification, rather than a single structural or signaling pathway. Some terms like osteoblast differentiation are less related, but the dominant theme points to DNA damage response and sumoylation control.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902231","count":3},{"id":"GO:1904290","count":2},{"id":"GO:0060766","count":2},{"id":"GO:0030999","count":2},{"id":"GO:0032088","count":2}]},{"hash":"522925659722308090","title":"Insulin signaling and metabolic regulation","description":"The cluster is dominated by GO terms tied to insulin signaling (insulin receptor and IGF receptor pathways) and metabolic processes (glucose import in response to insulin, glycogen biosynthesis, fatty acid oxidation). This suggests a cohesive group of proteins functioning in insulin-mediated control of glucose and lipid metabolism, despite a few auxiliary or obsolete terms. ","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:2001275","count":7},{"id":"GO:0048009","count":7},{"id":"GO:0014065","count":7},{"id":"GO:0045725","count":7},{"id":"GO:0008286","count":7}]},{"hash":"1948162516595692852","title":"Unknown","description":"The top terms are very diverse, spanning immune responses (lipopolysaccharide, systemic acquired resistance), digestion, protein autoprocessing, hormonal signaling (renin-angiotensin/aldosterone), plant- and metabolism-related processes (xylan catabolic), behavior, development, and signaling (cGMP). With no cohesive functional thread and no network structure (edges/triangles) to unify the proteins, there isn\u2019t a clear common theme to name a specific cluster. ","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":3},{"id":"GO:0007586","count":2},{"id":"GO:0016540","count":2},{"id":"GO:0002018","count":2},{"id":"GO:0009627","count":2}]},{"hash":"883238222440346609","title":"Immune Signaling and RNA Localization Regulators","description":"The cluster shows strong enrichment for immune-related GO terms, such as positive regulation of TNF production, IL-6 production, and T cell\u2013mediated immune responses, indicating involvement in immune signaling. There are also terms pointing to RNA biology (scaRNA and telomerase RNA localization to Cajal bodies) and mitochondrial protein import, suggesting these proteins may have dual roles in RNA processing/mitochondrial function alongside immune regulation. Some terms are broad (cell cycle, protein stabilization), so the link is not exclusively immune-related, but the dominant signal points to immune signaling with ancillary RNA localization roles.","confidence":"Medium","size":8,"edges":25,"triangles":41,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045041","count":8},{"id":"GO:1904469","count":8},{"id":"GO:0051086","count":8},{"id":"GO:0002842","count":8},{"id":"GO:0090666","count":8}]},{"hash":"259707406402837046","title":"Metabolic sensing and endocytic regulation","description":"GO terms in this cluster emphasize cellular responses to metabolic cues (fatty acids, glucose) and nucleotide biosynthesis (GTP, CTP), paired with endocytosis and regulation of phagocytosis, and phosphorylation events. Development-related terms (neuron projection and spermatid differentiation) appear but seem less central to the core theme. Overall, the cluster points to cellular metabolism linked to membrane trafficking and signaling regulation.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0071398","count":8},{"id":"GO:0006183","count":8},{"id":"GO:0006897","count":8},{"id":"GO:0002762","count":8},{"id":"GO:0010976","count":8}]},{"hash":"163793022941390938","title":"Unknown","description":"The terms span diverse biological themes: steroid hormone biosynthesis (testosterone biosynthetic process, androgen metabolic process) alongside multiple tissue development and differentiation terms (retina vasculature development, prostate gland growth, hepatocyte differentiation, uterus development). Additional terms describe specific metabolite or compound catabolic/biosynthetic processes (camphor catabolic process, ent-kaurene oxidation to kaurenoic acid, macrolide biosynthetic process) and a general ion response (response to cesium ion). Because there is no single coherent function or pathway tying all eight proteins together, this cluster appears heterogeneous or potentially noisy, supporting an Unknown label.","confidence":"","size":8,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0061370","count":2},{"id":"GO:0008209","count":2},{"id":"GO:0061298","count":1},{"id":"GO:0019383","count":1},{"id":"GO:0060736","count":1}]},{"hash":"894540572868899652","title":"Embryonic Tissue Morphogenesis and Connective Tissue Formation","description":"The top GO terms cluster around collagen fibril organization, organ morphogenesis, myoblast development, fibroblast proliferation, and axon guidance, indicating roles in embryonic tissue patterning and connective tissue/muscle development. The presence of developmental signaling (PI3K/AKT) and broader terms like dendritic cell differentiation fits into a general developmental program shaping tissues and cell lineages during embryogenesis, including connective tissues and neural guidance.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0030199","count":6},{"id":"GO:0097028","count":4},{"id":"GO:0045995","count":4},{"id":"GO:0048627","count":4},{"id":"GO:0072137","count":4}]},{"hash":"1947545722082317152","title":"Ribosome biogenesis and translation","description":"The cluster shows a strong pattern around ribosome-related processes: translation, maturation of rRNA, tRNA wobble modification, and diphthamide formation, plus regulation of RNA Pol I transcription elongation. These collectively point to ribosome assembly and protein synthesis, with some vesicle-trafficking terms noted that may reflect broader cellular housekeeping rather than a core theme. ","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006895","count":2},{"id":"GO:0048227","count":2},{"id":"GO:0008333","count":2},{"id":"GO:0000462","count":1}]},{"hash":"610053424761504943","title":"Neural development and synaptic signaling","description":"The top GO terms center on nervous system development, hippocampus development, dendrite morphogenesis, and synaptic signaling (ephrin signaling, excitatory postsynaptic potentials). While a couple of terms relate to immune signaling, the dominant theme is neural development and synapse function, justifying this label.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":8},{"id":"GO:0021766","count":7},{"id":"GO:0048013","count":7},{"id":"GO:0050852","count":7},{"id":"GO:0046330","count":7}]},{"hash":"1580642788927219377","title":"Unknown","description":"The top terms are a mix of signaling and stress-related processes (regulation of JNK cascade; regulation of apoptotic process; regulation of I-kappaB phosphorylation) plus unrelated processes (deglutamylation, actin/cytoskeleton organization, septin ring organization, Wnt receptor catabolic process, iron homeostasis, dosage compensation). There is no clear, shared function linking the eight proteins, and each term appears only once, indicating heterogeneity rather than a cohesive cluster. ","confidence":"","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":1},{"id":"GO:1903762","count":1},{"id":"GO:0035609","count":1},{"id":"GO:0042981","count":1},{"id":"GO:1903721","count":1}]},{"hash":"1830551848467694730","title":"Unknown","description":"The top GO terms cover diverse tissue development (mammary gland, retina vasculature, prostate, uterus, hepatocyte differentiation) plus scattered metabolism and biodegradation processes (kaurene oxidation, macrolide and carbazole catabolic processes) and a cesium response. There isn\u2019t a clear, single function tying these annotations together, so a coherent cluster label isn\u2019t evident.","confidence":"","size":8,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0030879","count":3},{"id":"GO:0061298","count":2},{"id":"GO:0019383","count":2},{"id":"GO:0060736","count":2},{"id":"GO:0010164","count":2}]},{"hash":"2158187530371252051","title":"Actin-Driven Cell Migration and Chemotaxis","description":"This cluster shows enrichment for lamellipodium and microspike assembly, neutrophil chemotaxis, and activation of small GTPases, all pointing to actin-driven cell movement and directional migration. The involvement of store-operated calcium entry and phosphoinositide signaling supports cytoskeletal remodeling during migration. Some terms (retinoic acid response, neuron differentiation) may reflect broader signaling overlaps, but the dominant theme is actin-based motility and chemotaxis.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045737","count":2},{"id":"GO:0071300","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0030035","count":2},{"id":"GO:0030032","count":2}]},{"hash":"2151074250889546172","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000601","count":5},{"id":"GO:0050731","count":5},{"id":"GO:0051028","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0071456","count":5}]},{"hash":"1329883579453898375","title":"Embryonic development and organ morphogenesis","description":"This cluster shows a strong emphasis on developmental processes and morphogenesis across multiple tissues and organs (embryonic development, limb joint morphogenesis, metanephros morphogenesis, oocyte localization, etc.). While there are related terms about cell cycle regulation and nuclear import, the dominant signal is developmental morphogenesis, making this label representative of the cluster\u2019s function.","confidence":"High","size":8,"edges":3,"triangles":0,"max_degree":3,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0048364","count":6},{"id":"GO:0032471","count":5},{"id":"GO:0070602","count":5},{"id":"GO:0006607","count":5},{"id":"GO:0061324","count":5}]},{"hash":"1746078202777674140","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":4},{"id":"GO:0006397","count":3},{"id":"GO:0006366","count":3},{"id":"GO:2000727","count":2},{"id":"GO:0006294","count":2}]},{"hash":"1700676738334633063","title":"Retinal Neuron Axon Guidance and Visual Perception","description":"This cluster is dominated by terms about neural development and axon guidance, especially for retinal ganglion cells and vision (e.g., CNS projection neuron axonogenesis, retinal ganglion cell axon guidance, visual perception, fasciculation of sensory neuron axons). A few terms are unrelated (ER polarization, heart development, metabolic regulation), but the core signal points to retinal neuron growth and visual system wiring.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021952","count":6},{"id":"GO:0007601","count":6},{"id":"GO:0045819","count":6},{"id":"GO:1901196","count":6},{"id":"GO:1990803","count":6}]},{"hash":"527651610759087396","title":"Neural development and synaptic assembly","description":"Most of the top GO terms point to nervous system development and synaptic organization (e.g., synapse assembly, axonogenesis, axon guidance, postsynaptic density assembly). While a couple of terms pertain to non-neural tissues, the dominant theme is neuronal development and synaptic wiring, suggesting the proteins cluster around neural connectivity processes.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0021952","count":2},{"id":"GO:0030713","count":2},{"id":"GO:0097107","count":2}]},{"hash":"804614600266974647","title":"Ribosome biogenesis and translation","description":"Based on the top GO terms, the cluster is dominated by ribosome-related processes: ribosome biogenesis, ribosomal small subunit biogenesis, cytoplasmic translation, and tRNA modification, indicating proteins involved in ribosome assembly and protein synthesis. There are also terms linked to cell division and cell cycle, which may reflect coordination between growth and division, but the core theme appears to be ribosome biogenesis and translation.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042274","count":3},{"id":"GO:0000747","count":2},{"id":"GO:0006400","count":2},{"id":"GO:0002181","count":2},{"id":"GO:0051301","count":2}]},{"hash":"2209300405047732336","title":"DNA Repair and Stress Signaling Cluster","description":"The top terms show strong connections to DNA maintenance (DNA recombination, base-excision repair) and apoptosis, with additional signals of cellular stress responses (response to xenobiotic stimulus, cellular response to cAMP) and gene regulation (regulation of mRNA stability, transcription coactivator activity). Together these suggest a cluster centered on DNA repair plus broader stress and transcriptional regulation pathways, despite some peripheral terms.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":4},{"id":"GO:0006284","count":4},{"id":"GO:2001153","count":3},{"id":"GO:0014912","count":3},{"id":"GO:1903507","count":3}]},{"hash":"62647537045135184","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071897","count":3},{"id":"GO:0042276","count":3},{"id":"GO:0006261","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0006310","count":2}]},{"hash":"1976855182230123852","title":"Bacterial metabolism and vitamin K biosynthesis","description":"This cluster shows enrichment for vitamin K biosynthesis terms (menaquinone and phylloquinone biosynthesis) along with various metabolic pathways (fatty acid beta-oxidation, valine and phenylacetate catabolism) and even antibiotic biosynthesis, which together suggest a prokaryotic metabolic/secondary metabolite theme. The presence of neuronal action potential and sensory perception terms is likely non-specific or misannotation and not central to the cluster's core function. Overall, the functions cluster around bacterial energy production and vitamin biosynthesis.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0019228","count":2},{"id":"GO:0050909","count":2},{"id":"GO:0070207","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0006635","count":1}]},{"hash":"1566241791503459458","title":"Embryogenesis and organogenesis","description":"This cluster is dominated by prenatal development terms: maternal placenta development, in utero embryonic development, forebrain neuron generation and axonogenesis, growth plate cartilage development, and epithelial proliferation in mammary gland ducts, indicating a broad embryonic/organogenesis program. Some terms (lipid handling and bile acid signaling, LPS response) are more divergent or less directly tied to development and may reflect pleiotropy or annotation noise, but do not negate the central developmental theme.","confidence":"High","size":8,"edges":9,"triangles":1,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001893","count":6},{"id":"GO:2001275","count":5},{"id":"GO:0021952","count":5},{"id":"GO:0003417","count":5},{"id":"GO:0010988","count":5}]},{"hash":"529734258310077646","title":"Embryonic Organogenesis","description":"The cluster features GO terms spanning embryonic development and organ formation (roof of mouth development, heart development, thyroid gland development, cranial skeleton morphogenesis, organ induction, neuron migration, axon extension), suggesting a common theme of embryonic organogenesis and tissue patterning. A regulatory term (negative regulation of transcription by RNA polymerase II) is consistent with developmental gene networks. Overall, these terms point to a cohesive role in embryonic organogenesis rather than a single tissue-specific function.","confidence":"High","size":8,"edges":8,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":7},{"id":"GO:0000122","count":6},{"id":"GO:0048675","count":4},{"id":"GO:0003350","count":4},{"id":"GO:0007275","count":4}]},{"hash":"2168011122612178291","title":"Neural development and Wnt signaling","description":"Top GO terms include neural development (inner ear development, midbrain development, cerebellar granule cell differentiation) and the Wnt signaling pathway, suggesting a coherent theme around neural patterning and signaling. The presence of additional terms like blood coagulation and immune-related processes may reflect multifunctional proteins or annotation noise, but the strongest signal centers on neural development and signaling. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0048839","count":4},{"id":"GO:0007596","count":3},{"id":"GO:0030901","count":3},{"id":"GO:0006958","count":3}]},{"hash":"1447211842839773684","title":"Organogenesis and tissue patterning","description":"This cluster centers on developmental processes across multiple organs and tissues (facial/mouth region, pancreas, cerebellum, limb/leg disc patterning, and ureteric bud branching), with an additional note of transcriptional regulation during development. The shared theme appears to be general developmental regulation and organogenesis rather than a single specific pathway, suggesting the proteins function as broad developmental regulators. ","confidence":"Medium","size":8,"edges":6,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":8},{"id":"GO:0000122","count":7},{"id":"GO:0007601","count":4},{"id":"GO:0035847","count":4},{"id":"GO:0031018","count":4}]},{"hash":"1330298711381447365","title":"Inner ear mechanosensory system","description":"This cluster centers on mechanosensory functions in the inner ear, including perception of sound and balance, and the organization of hair cell stereocilia and synapses (neural components like neuroligin clustering). While a few terms relate to broader development (e.g., other organ morphogenesis), the strongest signals are auditory/vestibular mechanosensation and hair cell synaptic organization, supporting a cohesive inner ear mechanosensory theme. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":4},{"id":"GO:0007626","count":4},{"id":"GO:0097118","count":3},{"id":"GO:0050973","count":3},{"id":"GO:0060243","count":3}]},{"hash":"405642232051855608","title":"Viral replication and protein folding","description":"Most enriched terms point to steps in the viral life cycle (uncoating, host-driven activation of viral genome replication, viral release) along with protein folding processes (peptidyl-prolyl isomerization, general folding). Some terms are obsolete or plant-specific noise, but the dominant theme ties viral replication with host protein-folding machinery. This supports labeling the cluster as viral replication and associated folding activities.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":"protein folding","top_go_terms":[{"id":"GO:2000276","count":6},{"id":"GO:0000413","count":6},{"id":"GO:0019061","count":6},{"id":"GO:0044829","count":6},{"id":"GO:0019076","count":6}]},{"hash":"1691963212215489468","title":"ER Protein Folding and Redox Homeostasis","description":"The top GO terms cluster around endoplasmic reticulum\u2013specific protein folding (GO:0034975) and cellular redox balance (GO:0045454), with supporting terms for protein repair and detoxification, suggesting a functional module focused on ER quality control and oxidative stress management. Nuclear transcription-related terms are present but seem secondary, not defining the core theme of this cluster. ","confidence":"Medium","size":8,"edges":13,"triangles":5,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034975","count":7},{"id":"GO:0045454","count":7},{"id":"GO:0046826","count":6},{"id":"GO:0006662","count":6},{"id":"GO:0006351","count":6}]},{"hash":"1719265565777027857","title":"Developmental signaling and vesicle trafficking","description":"The cluster is dominated by terms for brain, nervous system, heart, and skeletal development, paired with Rho GTPase signaling and vesicle fusion/exocytosis, suggesting a theme of developmental signaling linked to vesicle trafficking; an outlier is pseudohyphal growth but it does not overwhelm the main pattern.","confidence":"Medium","size":8,"edges":17,"triangles":13,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0007124","count":6},{"id":"GO:0001302","count":6},{"id":"GO:0043547","count":6}]},{"hash":"183662699455854758","title":"Neddylation and DNA damage response","description":"This cluster centers on post-translational modification by NEDD8 (neddylation) and ubiquitin-related regulation, with terms linked to protein degradation and ligase activity, plus stress response terms to UV-C and gamma radiation. The combination suggests a theme around regulation of protein modification/degradation in response to DNA damage and cellular stress, with some transcriptional regulation ties.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0051443","count":2},{"id":"GO:0044254","count":2},{"id":"GO:2000435","count":2},{"id":"GO:0010225","count":2}]},{"hash":"1897634861749210774","title":"Regulated signaling and membrane processes","description":"The proteins here are enriched for GO terms involving regulation of multiple signaling pathways (apoptosis, insulin secretion, B cell receptor signaling, neuropeptide- and reelin-mediated signaling) and membrane-associated activities (plasma membrane repair, sphingolipid biosynthesis). This suggests a theme of broader signaling regulation and membrane dynamics rather than a single, cohesive pathway, so a label focusing on regulated signaling and membrane processes fits best.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043065","count":4},{"id":"GO:0016525","count":4},{"id":"GO:0001778","count":3},{"id":"GO:1905433","count":3},{"id":"GO:0032024","count":3}]},{"hash":"75100517466464493","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006747","count":2},{"id":"GO:1990966","count":2},{"id":"GO:0019350","count":2},{"id":"GO:0046444","count":2},{"id":"GO:0009611","count":2}]},{"hash":"1937949755145049058","title":"Protein assembly and turnover regulation","description":"This cluster centers on regulatory processes affecting protein interactions and turnover (protein tetramerization, autophagosome/proteasome regulation, dephosphorylation) and on gene expression control via chromatin remodeling, suggesting a common theme of modulating protein complexes and signaling rather than a single pathway; a few terms about immune or neural processes are peripheral. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032288","count":2},{"id":"GO:0046855","count":1},{"id":"GO:0002233","count":1},{"id":"GO:1902902","count":1},{"id":"GO:0032120","count":1}]},{"hash":"1334731129719782804","title":"Golgi vesicle trafficking and synaptic exocytosis","description":"Most terms describe ER-to-Golgi and intra-Golgi transport, Golgi ribbon formation, SNARE complex assembly, and exocytic insertion of neurotransmitter receptors, plus indications of synaptic activity such as LTP and excitatory postsynaptic potential. This points to a cluster of proteins involved in the secretory pathway and synaptic vesicle exocytosis.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0048280","count":4},{"id":"GO:0090161","count":4},{"id":"GO:0006891","count":4},{"id":"GO:0035493","count":3}]},{"hash":"1916065585178076641","title":"Neural and Inner Ear Development with Cell Adhesion","description":"Top GO terms cluster around brain development, inner ear development, organ induction, and locomotory behavior, suggesting roles in neural and sensory organ formation and function. The presence of both heterophilic and homophilic cell-cell adhesion terms supports a theme of tissue organization during development. A few peroxisome-related and ossification terms are less frequent and don't define the main theme, so the core signal points to neural/sensory organ development with cell adhesion.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0007626","count":2},{"id":"GO:0001759","count":2},{"id":"GO:0048839","count":2},{"id":"GO:0007157","count":2}]},{"hash":"1952830671269142168","title":"Hair Keratinization","description":"The top terms point to hair cycle and keratinization, indicating these proteins are likely involved in hair follicle biology and keratinocyte differentiation essential for hair shaft formation.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042633","count":8},{"id":"GO:0031424","count":8}]},{"hash":"1555612833369885905","title":"Rac-driven actin remodeling and adhesion signaling","description":"The top GO terms converge on Rac and small GTPase\u2013mediated signaling, filopodium assembly, and adhesion-dependent cell spreading, pointing to actin cytoskeleton remodeling and related cell motility/signaling; immune and neural terms appear secondary but do not outweigh this core function.","confidence":"High","size":8,"edges":11,"triangles":2,"max_degree":6,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0008344","count":5},{"id":"GO:0032633","count":4},{"id":"GO:0032287","count":4},{"id":"GO:0001865","count":4},{"id":"GO:0007264","count":4}]},{"hash":"1831455869626233009","title":"RNA localization and processing in development","description":"The top terms point to RNA metabolism and localization during development, especially pole plasm/oocyte oskar mRNA localization, mRNA processing, and stabilization, indicating a shared function in RNA handling in early development. While a couple terms touch on signaling or muscle development, the dominant RNA-centric themes justify this label.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048627","count":2},{"id":"GO:0032728","count":2},{"id":"GO:0000184","count":1},{"id":"GO:0006397","count":1},{"id":"GO:0008103","count":1}]},{"hash":"1579520807197773383","title":"Vascular inflammation, coagulation, and neutrophil recruitment","description":"This cluster is dominated by GO terms for inflammatory processes (inflammatory response, response to lipopolysaccharide, neutrophil chemotaxis) and vascular modulation (blood coagulation, vasoconstriction, negative regulation of smooth muscle contraction, TNF production regulation). The core pattern points to an innate immune activation linked to coagulation and recruitment of neutrophils to sites of inflammation. Some terms like eye development appear as outliers, but the prevalent theme ties inflammation to vascular responses. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":3},{"id":"GO:0045907","count":3},{"id":"GO:0090023","count":3},{"id":"GO:0019233","count":3},{"id":"GO:0032720","count":3}]},{"hash":"1113432898274468030","title":"Rho-Driven Actin Remodeling and Filopodium Formation","description":"This cluster centers on actin cytoskeleton remodeling governed by Rho signaling, including filopodium/microspike assembly, actin turnover, and membrane trafficking processes (endomembrane system organization, endosomal transport, membrane tubulation, and pinocytosis). The combination suggests a cohesive role in forming protrusions and coordinating membrane dynamics, possibly in neuronal contexts (spinal cord development).","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0021510","count":3},{"id":"GO:1903527","count":2},{"id":"GO:0030035","count":2},{"id":"GO:0010256","count":2}]},{"hash":"872871630813420108","title":"Gene expression and signaling regulation","description":"This cluster centers on regulatory functions, including transcriptional regulation by RNA Pol II, potential chromatin-level control via methylation, and post-translational control through deubiquitination, as well as modulation of signaling pathways (TLR3, calcium signaling) and related processes. While a few terms touch on broader cell-cycle or morphogenesis contexts, the predominant pattern is regulation of gene expression and cellular signaling.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006357","count":7},{"id":"GO:1901097","count":7},{"id":"GO:0030474","count":7},{"id":"GO:0010216","count":7},{"id":"GO:0016579","count":7}]},{"hash":"783036278990422113","title":"Cell Cycle and Development Regulators","description":"The GO terms cluster around cell cycle control (G1/S and G2/M transitions, cell division, meiotic spindle elongation) and chromatin/ubiquitin regulation, with additional embryonic and neuronal differentiation hints (dendrite/axon development), suggesting these proteins coordinate proliferation with development.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000086","count":2},{"id":"GO:0051232","count":2},{"id":"GO:0000082","count":2},{"id":"GO:0030466","count":2},{"id":"GO:0051301","count":2}]},{"hash":"775442685944974709","title":"Inflammatory signaling and leukocyte recruitment","description":"This cluster is driven by GO terms tied to leukocyte tethering/rolling, phagocytosis, and inflammatory signaling (eicosanoid/arachidonate pathways), as well as regulation of adhesion molecules and platelet activation, which together indicate immune cell recruitment and inflammatory responses. A few terms about kidney development appear as outliers, suggesting some annotation overlap or broader regulatory roles, but the dominant theme is inflammation and leukocyte trafficking.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0090238","count":7},{"id":"GO:2000502","count":7},{"id":"GO:0060355","count":7},{"id":"GO:0010572","count":7},{"id":"GO:0050901","count":7}]},{"hash":"618937844136559927","title":"TGF-\u03b2/SMAD signaling and protein stress response","description":"Dominant GO terms point to TGF-\u03b2 receptor signaling and SMAD-mediated routes (GO:0007179, GO:0032925, GO:0007183). The co-occurrence of protein refolding and redox-related terms (GO:0042026, GO:0051775) along with amyloid processing terms (GO:1990000, GO:1902991) suggests a link to cellular stress responses and protein quality control in the same cluster. Overall, the theme appears to be TGF-\u03b2/SMAD signaling intertwined with stress-handling processes.","confidence":"Medium","size":7,"edges":12,"triangles":7,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007183","count":5},{"id":"GO:0007179","count":5},{"id":"GO:0032925","count":3},{"id":"GO:1990000","count":3},{"id":"GO:0007049","count":3}]},{"hash":"1886178003263305218","title":"Signal-Induced Actin Remodeling","description":"The cluster centers on signaling pathways (tyrosine phosphorylation, B cell receptor signaling, TGF-beta response, GTPase regulation) that drive actin cytoskeleton dynamics (barbed-end capping and polymerization). While some terms touch development or other processes, the strongest cohesive theme is actin remodeling prompted by signaling events in cells. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050731","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0071560","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0051016","count":4}]},{"hash":"1745048910465391426","title":"Microtubule Dynamics and Cell Polarity Regulation","description":"This cluster centers on microtubule-driven processes: nuclear migration along microtubules, plus-end transport and depolymerization, maintenance of microtubule polarity, and related regulation of cell growth and adherens junctions. The common thread is microtubule dynamics governing intracellular transport and cell polarity.","confidence":"High","size":7,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030473","count":6},{"id":"GO:0070462","count":6},{"id":"GO:0033624","count":6},{"id":"GO:0045218","count":6},{"id":"GO:0048364","count":6}]},{"hash":"2163381719023940731","title":"Protein turnover and stress response regulation","description":"The terms cluster around ubiquitin\u2013proteasome\u2013mediated protein degradation (positive regulation of proteasomal degradation, deubiquitination), autophagy regulation, and transcription control, with additional links to stress signaling (heat acclimation, TLR3 pathway regulation) and general cellular homeostasis; a peripheral note is spindle pole body duplication, which may reflect broader cell-cycle or structural regulation. This combination suggests a theme of coordinating protein turnover with stress responses.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1901097","count":5},{"id":"GO:0010216","count":5},{"id":"GO:0032436","count":4},{"id":"GO:0006357","count":4},{"id":"GO:0030474","count":4}]},{"hash":"847072848372813917","title":"Actin Dynamics and Cell Migration","description":"This cluster is dominated by terms for actin polymerization, Arp2/3-mediated nucleation, and actin cortex organization, plus phagocytosis, mesenchyme migration, and contractile ring activity, all pointing to actin cytoskeleton remodeling driving cell movement and endocytosis. Retina homeostasis and histone-related terms appear ancillary or incidental, so the core theme is actin dynamics and motility.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":7},{"id":"GO:0006909","count":7},{"id":"GO:0001895","count":7},{"id":"GO:0043981","count":7},{"id":"GO:0051666","count":7}]},{"hash":"1806068771521054287","title":"Immune signaling and Rac-dependent cytoskeletal remodeling","description":"Top GO terms indicate adaptive immune processes (IL-4 production, NK T cell differentiation, B cell affinity maturation) together with Rac/GTPase signaling and filopodium assembly, suggesting a cluster focused on immune cell activation requiring cytoskeletal dynamics for signaling and interactions.","confidence":"Medium","size":7,"edges":7,"triangles":0,"max_degree":4,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0032633","count":4},{"id":"GO:0001865","count":4},{"id":"GO:0007264","count":4},{"id":"GO:0046847","count":4},{"id":"GO:0043547","count":4}]},{"hash":"2177434694436396902","title":"Ribosome Biogenesis and Translation Regulation","description":"The cluster is dominated by GO terms tied to ribosome production and protein synthesis: translation (GO:0006412), ribosomal large subunit biogenesis (GO:0042273), and ribosomal large subunit assembly (GO:0000027), plus positive regulation of translation (GO:0045727). While a few terms touch on transcription elongation and DNA damage\u2013related stress responses (p53-mediated pathways, gamma radiation response), these likely reflect broader cellular stress and transcription-translation coupling rather than defining the core function. Overall, the proteins appear to participate mainly in ribosome assembly and regulation of translation.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0042273","count":2},{"id":"GO:0000027","count":2},{"id":"GO:1902167","count":1},{"id":"GO:0006977","count":1}]},{"hash":"2084917353838415012","title":"Neuronal mitochondrial dynamics and synaptic regulation","description":"This cluster prominently features mitochondrial fission and its positive regulation, paired with GO terms related to synaptic function (negative regulation of postsynaptic potential, negative regulation of glutamatergic transmission) and neuronal behavior (adult locomotory behavior). Additional links to stress signaling (JNK and NF-kappaB) and proteasomal/secretory processes suggest a cohesive theme where mitochondrial dynamics influence neuronal signaling and adaptive responses, potentially impacting behavior.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000266","count":3},{"id":"GO:0046329","count":3},{"id":"GO:0090141","count":3},{"id":"GO:0090394","count":3},{"id":"GO:0008344","count":3}]},{"hash":"692276750567712926","title":"Unknown","description":"The top terms cover a broad mix of metabolic and biosynthetic processes across plants and animals (acetoin catabolic, long-chain fatty acid, melanin, retinal, phylloquinone, tetrahydrobiopterin biosynthesis, etc.) and include an obsolete term, with no edges linking the proteins. There is no cohesive shared function to name the cluster; thus Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0045150","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0009710","count":3},{"id":"GO:0042761","count":3},{"id":"GO:0006729","count":3}]},{"hash":"648422248002589203","title":"Actin-regulated endocytosis and vesicle trafficking","description":"The top GO terms cluster around endocytosis and vesicle transport (endocytosis, clathrin-dependent endocytosis, Golgi to endosome transport, vesicle cargo loading, multivesicular body sorting) and connect to actin remodeling (actin cortical patch assembly; negative regulation of Arp2/3). This points to a coherent function group of proteins coordinating vesicle formation, cargo sorting, and trafficking with actin dynamics, with some apoptotic terms likely incidental. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000147","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0034316","count":3},{"id":"GO:0006919","count":3},{"id":"GO:0035459","count":2}]},{"hash":"1303083914472817845","title":"Unknown","description":"The top GO terms span photoreceptor localization, interferon response, viral replication regulation, morphine response, left/right asymmetry, protein isomerization, and other diverse processes, with no clear shared function or pathway. The cluster also has no edges or triangles, indicating a lack of cohesive interactions, so no specific functional label can be assigned.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903546","count":2},{"id":"GO:1901215","count":2},{"id":"GO:0051291","count":2},{"id":"GO:0071357","count":2},{"id":"GO:0045070","count":2}]},{"hash":"1562175872169142309","title":"Actin-driven membrane remodeling and cell polarity","description":"The terms cluster around actin-based processes that remodel the plasma membrane and organize cell shape: membrane addition at cytokinesis sites, vesicle docking in exocytosis, actin filament bundle distribution, plasma membrane repair, raft distribution, wound healing, and establishment/maintenance of cell polarity. These reflect coordinated actin dynamics with membrane trafficking and polarity during cytokinesis, repair, and polarized growth (with some yeast-specific hints like mating projection pathways). ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007107","count":2},{"id":"GO:0006904","count":2},{"id":"GO:0000001","count":2},{"id":"GO:0071963","count":2},{"id":"GO:0044319","count":2}]},{"hash":"1472904517588556441","title":"Ribosome Biogenesis and Translation During Cell Cycle","description":"This cluster is dominated by GO terms related to ribosome production and function (ribosome biogenesis, small/large subunit biogenesis, ribosomal subunit export from nucleus, cytoplasmic translation, tRNA modification, ribosome biogenesis) and core cell division processes (cell division, cell cycle, cell septum assembly). The presence of translation-related terms alongside cell cycle and division terms suggests a coordinated role in synthesizing ribosomes and proteins during cell proliferation, with some terms pointing to regulation under amino acid starvation. Overall, the theme is ribosome biogenesis and protein synthesis linked to cell cycle progression.","confidence":"High","size":7,"edges":7,"triangles":0,"max_degree":5,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0007049","count":7},{"id":"GO:0000055","count":7},{"id":"GO:0000747","count":6},{"id":"GO:0006400","count":6}]},{"hash":"144211592048942182","title":"Plant metabolism: mixed catabolic and biosynthetic processes","description":"The top GO terms are varied, centering on catabolic processes for several compounds (phenylpropionate, stilbene, triglycerides) and biosynthetic steps (biotin, methionine), with some lipid-related reactions and stress responses. The lack of a cohesive single function and the absence of edges suggest a broad, heterogeneous metabolic cluster rather than a single pathway, so the label emphasizes broad plant metabolism with a mix of catabolic and biosynthetic roles.","confidence":"Low","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019380","count":3},{"id":"GO:0009102","count":2},{"id":"GO:0097755","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0009086","count":2}]},{"hash":"2002603300457389341","title":"Regulation of signaling, cell cycle, and polarity","description":"The top terms show broad regulatory roles across signaling pathways (positive regulation of Wnt signaling; MAPKK activation), GTPase activity, cell cycle control, and maintenance of cell polarity, plus apoptosis regulation and growth-associated processes like mating projection growth; this pattern suggests the proteins act as regulators coordinating signaling and cellular growth rather than a single defined pathway.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010796","count":5},{"id":"GO:0090263","count":5},{"id":"GO:0043524","count":5},{"id":"GO:0043525","count":5},{"id":"GO:0031384","count":5}]},{"hash":"1388236388382610205","title":"Amino acid and antibiotic biosynthesis","description":"The top GO terms cluster around biosynthetic processes, especially amino acid synthesis (leucine and lysine) and antibiotic biosynthesis, suggesting a metabolic focus on producing amino acids and related secondary metabolites; the remaining terms are more divergent but do not override this core theme.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":2},{"id":"GO:0009098","count":2},{"id":"GO:0019878","count":2},{"id":"GO:0032467","count":1},{"id":"GO:0000086","count":1}]},{"hash":"1052292511729808368","title":"Spermatogenesis and acrosome formation","description":"These terms cluster around sperm development, especially acrosome assembly and spermatid nucleus differentiation, with calcium-dependent exocytosis and vesicle transport indicating acrosomal vesicle formation and trafficking. While a few unrelated terms appear, the dominant signals support a spermatogenesis/acrosome formation theme.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0045956","count":3},{"id":"GO:0001675","count":3},{"id":"GO:0007289","count":3},{"id":"GO:0033601","count":3},{"id":"GO:1903527","count":3}]},{"hash":"2278714305195647020","title":"Cytokinesis and Microtubule Assembly","description":"The top GO terms cluster around cell division and cytoskeletal processes: cell cycle, mitotic spindle, microtubule nucleation, mitotic cytokinesis, division site positioning, and cell septum assembly, including FtsZ-dependent cytokinesis. This points to a cohesive theme of mitotic machinery and microtubule dynamics driving cytokinesis. A few terms on immune or neural signaling appear peripheral and do not negate the central division-focused theme.","confidence":"Medium","size":7,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071353","count":4},{"id":"GO:0030182","count":4},{"id":"GO:0043093","count":4},{"id":"GO:0007020","count":4},{"id":"GO:0051301","count":4}]},{"hash":"1102585301496843904","title":"Telomere maintenance and genome stability","description":"The top GO terms cluster around DNA replication, repair, and recombination, with multiple terms about telomere maintenance via telomerase and localization to telomeres, plus mitotic cell cycle checkpoint signaling. This points to a cohesive functional group focused on preserving genome integrity and telomere function. Some translation- and mRNA stability-related terms may reflect ancillary regulatory roles or annotation overlap but do not override the telomere/genome maintenance theme. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0032212","count":3},{"id":"GO:0006310","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0006412","count":3}]},{"hash":"819810522883043561","title":"Chloroplast proteostasis","description":"The cluster is dominated by GO terms tied to chloroplast function and protein turnover, including chlorophyll biosynthetic process, ubiquitin-dependent protein catabolic process, and proteasome assembly, suggesting a theme of chloroplast proteostasis. Other terms like stamen formation and various stress or hormone responses appear less prominently, likely as noise, but do not outweigh the core connection to chloroplast protein homeostasis.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015995","count":4},{"id":"GO:0006511","count":4},{"id":"GO:0043248","count":4},{"id":"GO:0048455","count":4},{"id":"GO:0016180","count":2}]},{"hash":"957159438001787005","title":"Post-transcriptional RNA processing and translation control","description":"The cluster\u2019s top GO terms cluster around mRNA splicing regulation (spliceosome activity, alternative splicing control), mRNA stabilization, and various modes of translation control (translation reinitiation, IRES-dependent initiation), plus miRNA and regulatory ncRNA\u2013mediated silencing. Together these indicate a cohesive role in post-transcriptional regulation of gene expression, spanning RNA processing, stability, and translation rather than transcriptional initiation. Confidence: High","confidence":"","size":7,"edges":7,"triangles":2,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":5},{"id":"GO:0006376","count":5},{"id":"GO:0035278","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0075522","count":4}]},{"hash":"491099485026483202","title":"RNA Methylation and mRNA Capping","description":"The top GO terms are dominated by methylation-related processes: rRNA methylation, tRNA methylation, 7-methylguanosine RNA capping, 2-methylguanosine metabolism, and protein methylation. This suggests a cluster of methyltransferase activities targeting RNA and proteins. Some biosynthetic terms (ubiquinone, biotin) are present but less central, likely incidental. Overall, the theme is methylation pathways, especially RNA methylation and mRNA capping.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070476","count":3},{"id":"GO:0032775","count":3},{"id":"GO:0030488","count":3},{"id":"GO:0080180","count":3},{"id":"GO:0006479","count":3}]},{"hash":"1798214212134129189","title":"Amino acid catabolism and central carbon metabolism","description":"The cluster is dominated by amino acid catabolic processes (L-alanine, L-kynurenine from tryptophan, L-threonine derivatives) and central carbon metabolism (pyruvate biosynthesis, oxaloacetate metabolism), with supporting biotin biosynthesis and fatty acid transport; a couple of signaling terms (Notch pathway, insulin response) suggest signaling cross-talk rather than a core function.","confidence":"Medium","size":7,"edges":16,"triangles":20,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042853","count":5},{"id":"GO:0007219","count":5},{"id":"GO:0097053","count":5},{"id":"GO:0042866","count":3},{"id":"GO:0009102","count":3}]},{"hash":"60344746206588318","title":"Embryonic Morphogenesis Across Tissues","description":"The Top Terms cluster around developmental morphogenesis across multiple embryonic structures (heart, brain, placenta, gonads, eye, limb, muscle) and related signaling, indicating a general embryonic morphogenesis theme rather than a single tissue-specific function.","confidence":"High","size":7,"edges":13,"triangles":9,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003148","count":7},{"id":"GO:0021986","count":7},{"id":"GO:0001890","count":7},{"id":"GO:0008584","count":7},{"id":"GO:0007507","count":7}]},{"hash":"1097422581627079662","title":"Unknown","description":"The terms span skeletal development, lipid metabolism, reproduction, neuromuscular control, chitin and ganglioside catabolism, fertilization-related processes, lysosome organization, and rhodopsin synthesis. They point to multiple distinct biological themes with no single unifying function or pathway across the proteins, so a coherent, intuitive label cannot be assigned.","confidence":"","size":7,"edges":9,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":2},{"id":"GO:0019915","count":2},{"id":"GO:0019953","count":2},{"id":"GO:0050885","count":2},{"id":"GO:0006032","count":2}]},{"hash":"1448216847239525217","title":"Chromatin Organization and Histone Modification","description":"This cluster is dominated by GO terms related to chromatin structure and epigenetic marks, including nucleosome assembly, heterochromatin organization, establishment and regulation of histone modifications (e.g., H3K27me3, H3K4me3), and localization to chromatin, indicating a cohesive role in chromatin architecture and chromatin-state regulation.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0016584","count":7},{"id":"GO:0098532","count":7},{"id":"GO:0071169","count":7},{"id":"GO:0080182","count":7},{"id":"GO:0070828","count":7}]},{"hash":"201067649363802025","title":"Small-molecule biosynthesis and catabolism","description":"The top GO terms cover both biosynthetic (protoporphyrinogen IX biosynthetic process; thiamine biosynthetic process) and various catabolic pathways (choline catabolic, glycerophospholipid metabolic, glycol catabolic, methanol oxidation, 3-chlorocatechol catabolic). This suggests proteins involved in diverse small-molecule metabolism rather than a single pathway, so a concise label that captures both synthesis and breakdown is appropriate.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006782","count":2},{"id":"GO:0042426","count":2},{"id":"GO:0009228","count":2},{"id":"GO:0015993","count":2},{"id":"GO:0006650","count":2}]},{"hash":"194519909901986132","title":"Muscle development and synapse assembly","description":"This cluster\u2019s terms strongly converge on muscle biology and neural connectivity: myoblast differentiation, striated muscle thick filament assembly, and synapse organization/assembly, supported by BMP signaling. While some terms refer to broader developmental processes, the dominant pattern clearly reflects muscle differentiation and neuromuscular/synaptic formation.","confidence":"High","size":7,"edges":13,"triangles":6,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035987","count":5},{"id":"GO:0045663","count":5},{"id":"GO:0060168","count":5},{"id":"GO:0048671","count":5},{"id":"GO:0050808","count":5}]},{"hash":"2187573166371522918","title":"Immune Cell Signaling and Lymphocyte Development","description":"The enriched GO terms center on immune signaling and lymphocyte development, including PI3K/AKT signaling, IL-4 production, hematopoiesis, NK T cell differentiation, B cell maturation, and IL-7\u2013responsive pathways, suggesting a module of lymphocyte activation and differentiation. Dendritic spine morphogenesis can relate to immune synapse formation, reinforcing the immune-focused theme.","confidence":"High","size":7,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043491","count":3},{"id":"GO:0032633","count":3},{"id":"GO:0030097","count":3},{"id":"GO:0001865","count":3},{"id":"GO:0002344","count":3}]},{"hash":"1566771176204403680","title":"Neural Development","description":"The top GO terms cluster around brain, forebrain, and spinal cord development, indicating a neural development program; additional terms for microtubule-based movement, transcription, and the cell cycle reflect proliferative, migratory neural cells, with some general background processes like sterol biosynthesis and histone acetylation.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0021510","count":3},{"id":"GO:0007018","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0000278","count":3}]},{"hash":"191058808698397200","title":"CNS Neuronal Synapse Formation and Signaling","description":"The terms cluster around synapse assembly and localization (receptor clustering, protein localization to synapse, dendritic spine morphogenesis) and CNS-specific neuronal development (axonogenesis of projection neurons), with Rho signaling linking to cytoskeletal changes in neurons and visual processing. This points to a cohesive theme of synaptic development and signaling in the CNS rather than unrelated processes.","confidence":"High","size":7,"edges":13,"triangles":7,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043113","count":7},{"id":"GO:0008285","count":7},{"id":"GO:0060997","count":7},{"id":"GO:0007266","count":7},{"id":"GO:0035418","count":7}]},{"hash":"1486587782259051026","title":"SMAD-regulated development and differentiation","description":"The terms cluster around regulation of differentiation across multiple lineages (bone, neural, endothelial, myoblast) and include a central link to SMAD signaling regulation, suggesting a shared theme of modulating cell fate via SMAD/TGF-beta pathways.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045668","count":1},{"id":"GO:0017148","count":1},{"id":"GO:0045603","count":1},{"id":"GO:0045663","count":1},{"id":"GO:2000178","count":1}]},{"hash":"1298248551009846872","title":"Ion Transporters and Membrane Potential Regulators","description":"Most terms converge on transport of ions across membranes (bicarbonate, chloride, oxalate, L-aspartate) and related regulation of membrane potential and intracellular pH. While a couple terms reflect tissue-specific roles (gastric acid secretion, sensory perception of sound, sperm capacitation), the unifying theme is membrane ion transport and excitability. This cluster thus likely represents ion transporters and channels that shape ionic gradients and signaling.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015701","count":2},{"id":"GO:0042391","count":2},{"id":"GO:0048240","count":2},{"id":"GO:0089712","count":2},{"id":"GO:0001696","count":2}]},{"hash":"1304492915948300111","title":"Innate and T Cell Activation","description":"Proteins in this cluster are labeled by GO terms linking innate immune recognition (e.g., detection of lipoteichoic acid), phagocytosis, and recruitment (monocyte extravasation) with adaptive T cell processes (T cell costimulation, cytotoxic T cell differentiation, gamma-delta T cell activation, and regulation of immune tolerance). This suggests a cohesive module involved in mounting and modulating immune responses across both innate and adaptive arms, despite one term related to cardiac depolarization appearing less connected. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0031295","count":4},{"id":"GO:0060371","count":3},{"id":"GO:1904469","count":3},{"id":"GO:0006911","count":3}]},{"hash":"1246538976644676354","title":"MAPK signaling and stimulus-induced transcription","description":"Enriched GO terms include ERK1/ERK2 cascade and p38MAPK cascade, which are core MAPK signaling pathways. Additional terms describe cellular responses to growth factors and inflammatory stimuli (GM-CSF, phorbol ester, prostaglandin E) and downstream DNA-templated transcription, consistent with a signaling module that activates transcription in response to external cues. A few unrelated terms like visual perception appear, but the dominant signal is MAPK-mediated signal transduction leading to transcriptional changes.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097011","count":3},{"id":"GO:1904628","count":3},{"id":"GO:0070371","count":3},{"id":"GO:0038066","count":3},{"id":"GO:0006351","count":3}]},{"hash":"1680875550931793844","title":"Embryonic and heart morphogenesis","description":"These terms point to broad developmental morphogenesis with a spotlight on heart development and embryogenesis, indicating the proteins likely function in tissue morphogenesis and organ formation rather than a single signaling pathway.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003007","count":2},{"id":"GO:0010262","count":2},{"id":"GO:0045466","count":2},{"id":"GO:0055046","count":2},{"id":"GO:0008595","count":1}]},{"hash":"546229839801853041","title":"Immune signaling with ECM components","description":"This cluster is dominated by GO terms for innate immune response, complement activation (classical pathway), B cell receptor signaling, and immunological synapse formation, pointing to both innate and adaptive immune activity. Additional terms for collagen fibril organization, keratinization, and integrin-mediated signaling suggest associated extracellular matrix/tissue remodeling and skin barrier context, indicating a theme of immune actions intertwined with ECM dynamics.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0050853","count":3},{"id":"GO:0031424","count":2},{"id":"GO:0070207","count":2}]},{"hash":"1777753297837960839","title":"Neural development and inflammatory signaling","description":"The top GO terms show clear patterns of neural development processes (axon guidance for retinal and corticospinal neurons, tangential migration, synapse assembly, myelination) alongside inflammatory and NF-kappaB\u2013related signaling. This suggests proteins in the cluster coordinate neural development with inflammatory regulation, supporting a cohesive theme rather than unrelated functions. ","confidence":"Medium","size":7,"edges":10,"triangles":3,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042346","count":5},{"id":"GO:0019800","count":5},{"id":"GO:0022028","count":5},{"id":"GO:0051965","count":5},{"id":"GO:0090260","count":5}]},{"hash":"432463737380187724","title":"Muscle differentiation and cell adhesion regulation","description":"The terms are centered on myoblast differentiation and fusion (positive regulation of myoblast differentiation; negative regulation of myoblast fusion) and various cell-cell adhesion processes (integrin-mediated, calcium-independent adhesion). Additional terms point to muscle-vascular interplay (VEGF production, nitric oxide response), which supports a theme of muscle development coupled with vascular signaling. A few outliers (fertilization, NK cell chemotaxis) exist but do not override the core muscle-adhesion focus.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007162","count":1},{"id":"GO:0007338","count":1},{"id":"GO:0045663","count":1},{"id":"GO:0071731","count":1},{"id":"GO:1901740","count":1}]},{"hash":"1615137219708882184","title":"Multisubstrate Transmembrane Transporters","description":"The cluster shows strong enrichment for transmembrane transport of diverse substrates\u2014sodium, potassium, sugars (glucose, galactose, sialic acid), phosphate, nitrite, vitamins, and even microcystin\u2014consistent with membrane transporter proteins; the GPI anchor biosynthetic process appears as a secondary, less frequent term.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":3},{"id":"GO:0071805","count":3},{"id":"GO:1904659","count":3},{"id":"GO:0006506","count":2},{"id":"GO:0035461","count":2}]},{"hash":"1419978328510233862","title":"Translation machinery and hypusination","description":"The cluster is dominated by GO terms for translation\u2014initiation, elongation, termination, and frameshifting\u2014along with peptidyl-hypusine biosynthesis, pointing to the translation apparatus and its regulation. A couple of outliers (renal system process, JNK cascade) are minor. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0002038","count":1},{"id":"GO:0045905","count":1},{"id":"GO:1903272","count":1},{"id":"GO:0006452","count":1}]},{"hash":"2028880085655403523","title":"Unknown","description":"The GO terms here span transcription elongation regulation, inflammatory signaling, multiple developmental processes (cornea, ureteric bud morphogenesis, endodermal fate, xanthophore differentiation), plant vernalization responses, and immune signaling, with no clear single theme linking the proteins. The lack of cohesive biological function and no interaction edges suggests these proteins do not form a connected functional cluster.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032968","count":2},{"id":"GO:0050718","count":2},{"id":"GO:0061303","count":2},{"id":"GO:0090190","count":2},{"id":"GO:0031663","count":2}]},{"hash":"496298213548744046","title":"Neural Vision and Dopaminergic Signaling","description":"Most terms point to neural sensory processing and dopaminergic signaling (vision, pain perception, visual learning, dopaminergic transmission, cocaine-related behavior, ERK cascade). Additional terms about prostaglandin response and macrophage chemotaxis suggest inflammatory context that can intersect with neural pathways, but the core signal is neural sensory/dopaminergic. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":7},{"id":"GO:0019233","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0008542","count":7},{"id":"GO:0010759","count":7}]},{"hash":"1450728011262494928","title":"Vertebrate organogenesis and differentiation","description":"Most top GO terms point to developmental processes across vertebrate organ systems (atrial septum morphogenesis, otic vesicle development, cardiac muscle regeneration, sympathetic nervous system development, mesenchymal to epithelial transition) and signaling (BMP, estrogen). While immune-related terms appear, the overarching theme is embryonic organ formation and tissue differentiation, rather than a single enzymatic function. ","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0043627","count":6},{"id":"GO:0003290","count":6},{"id":"GO:0071599","count":6},{"id":"GO:0071773","count":6},{"id":"GO:0061026","count":6}]},{"hash":"42119239950029975","title":"Insulin-regulated energy metabolism","description":"This cluster shows enrichment in energy metabolism pathways: glycolysis, fatty acid beta-oxidation, and carnitine catabolism, indicating shifts in ATP production. Insulin-related terms (response to insulin, negative regulation of insulin secretion) suggest regulation of metabolic flux by insulin signaling. The presence of redox homeostasis and xenobiotic response hints at metabolic stress management during metabolic changes. Overall, the proteins point to metabolic regulation with insulin-response features.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0006635","count":1},{"id":"GO:0014823","count":1},{"id":"GO:0006096","count":1},{"id":"GO:0032868","count":1}]},{"hash":"1255890739872391035","title":"Ubiquitin-Mediated Protein Quality Control and Stress Signaling","description":"The cluster centers on ubiquitination and ERAD (protein ubiquitination; ubiquitin-dependent ERAD pathway) and includes protein import into organelles (peroxisome matrix, mitochondrial intermembrane space), as well as signaling and regulation of apoptosis, I-kappaB phosphorylation, JNK cascade, and innate immune response. This combination suggests a cohesive theme around protein quality control and stress- or immune-related signaling rather than a single tightly defined process, hence a name reflecting both turnover/trafficking and stress signaling.","confidence":"Medium","size":6,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0016558","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0045087","count":2}]},{"hash":"112805503488864414","title":"DNA Damage Response and Telomere Maintenance","description":"The top terms cluster around genome stability and cell-cycle control, including DNA damage response signaling (p53-mediated pathways leading to cell cycle arrest), telomere maintenance and capping via telomerase, and regulation of related processes such as ubiquitination and CDK activity. While some terms touch on broader cellular remodeling (mRNA processing, migration, adipogenesis) the core theme is genome integrity maintenance and cell-cycle control. Confidence: Medium","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006977","count":4},{"id":"GO:0016567","count":3},{"id":"GO:0035994","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0006397","count":3}]},{"hash":"1953576031370131893","title":"Ubiquitination-Driven Antiviral NF-\u03baB Signaling","description":"This cluster centers on ubiquitination processes (autoubiquitination, ubiquitin-dependent degradation, K48-linked ubiquitination) and innate antiviral defense, including NF-\u03baB signaling regulation and defense against virus, indicating proteins cooperate to tag substrates for degradation and modulate antiviral immune responses. Minor terms about vesicle fusion and peroxisomal import may reflect broader trafficking roles but do not define the core theme. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0051607","count":2}]},{"hash":"1970777952419246164","title":"Autophagy-ubiquitin proteostasis","description":"This cluster centers on protein turnover via macroautophagy and ubiquitin-dependent degradation (autoubiquitination, ubiquitin-mediated catabolism, ERAD), indicating a proteostasis/stress-response module. Some terms reflect general stress/inhibition responses (hydrogen peroxide, translation inhibition, antibiotic response), but the dominant signals are autophagy and ubiquitin-mediated protein degradation. The amygdala development term is likely an annotation outlier. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016236","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0070301","count":2}]},{"hash":"3986010668490679","title":"Cell signaling and vesicle trafficking","description":"The GO terms point to active signaling pathways (PI3K/AKT, IGF receptor signaling) and vesicle-related processes (clathrin-mediated endocytosis, synaptic vesicle recycling, platelet secretion). While a couple of terms touch broader transcription or immune production, the dominant pattern is signaling coupled to vesicle dynamics, suggesting a functional cluster centered on communication and vesicle trafficking.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0070560","count":1},{"id":"GO:2001275","count":1},{"id":"GO:0045792","count":1},{"id":"GO:1903423","count":1}]},{"hash":"1054203415320691180","title":"Meiosis-Related DNA Repair and Embryonic Development","description":"Top terms show a link between developmental signaling (BMP signaling, in utero embryonic development) and meiotic DNA double-strand break formation/recombination, plus error-free DNA repair pathways, suggesting a cluster of proteins tied to development and genome maintenance during meiosis. Some terms appear obsolete or peripheral (e.g., peroxisome import), indicating annotations noise, but the core theme remains development coupled with meiotic repair.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030509","count":1},{"id":"GO:0070987","count":1},{"id":"GO:0042275","count":1},{"id":"GO:0001701","count":1},{"id":"GO:0042138","count":1}]},{"hash":"663895049525893219","title":"Ubiquitin-Dependent Proteolysis","description":"Top GO terms cluster around ubiquitin-mediated protein turnover (ubiquitin-dependent catabolic process and autoubiquitination), with links to ERAD and apoptosis regulation (JNK and TNF signaling). Even without network edges, the shared annotations point to a cohesive role in ubiquitin-dependent protein degradation and related cell-death signaling.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0051865","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0046328","count":3},{"id":"GO:1903762","count":3}]},{"hash":"1590656100204103687","title":"Glycolysis and TCA Cycle","description":"This cluster is enriched in core energy metabolism terms, notably glycolytic process and the tricarboxylic acid cycle, indicating a group of proteins tied to central carbon metabolism. Supporting terms include amino acid and cofactor biosynthesis (L-glutamate, thiamine, tetrahydrofolate) that are commonly linked to energy production and macromolecule biosynthesis, though a few outlier terms may reflect annotation noise. ","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006096","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0042493","count":2},{"id":"GO:0006099","count":2},{"id":"GO:0048240","count":2}]},{"hash":"1292363015295299536","title":"Sterol and lipid biosynthesis","description":"Top GO terms are dominated by lipid/sterol processes (unsaturated fatty acid biosynthesis, MIPC metabolism, ergosterol biosynthesis regulation). Some terms appear unrelated (myelin maintenance, sebaceous gland differentiation, NO biosynthesis), likely annotation noise. Overall, the common thread points to lipid and sterol membrane metabolism.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006636","count":3},{"id":"GO:0032286","count":3},{"id":"GO:0001949","count":3},{"id":"GO:0006675","count":3},{"id":"GO:0006809","count":3}]},{"hash":"1504720505993059467","title":"Embryonic development and morphogenesis","description":"The proteins are linked to a broad set of embryonic development and tissue morphogenesis processes (cartilage morphogenesis, placenta-related differentiation, EMT in endocardial cushion formation, trophoblast giant cell differentiation, pancreatic endocrine development, and left-right patterning), indicating a developmental/differentiation theme rather than a single, specific function. This supports labeling the cluster as embryonic development and morphogenesis.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060536","count":5},{"id":"GO:0060806","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0060707","count":5},{"id":"GO:0003323","count":5}]},{"hash":"1522853284494334801","title":"Sperm-Zona Pellucida Binding and Proteoglycan Biosynthesis","description":"The top GO terms center on sperm binding to the zona pellucida and biosynthesis of chondroitin sulfate proteoglycans, pointing to a shared function in gamete adhesion and extracellular matrix composition; additional terms suggest related secretory and membrane processes but are less cohesive, yielding a moderate confidence in this thematic label.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007339","count":2},{"id":"GO:0030206","count":2},{"id":"GO:0006486","count":2},{"id":"GO:0050650","count":2},{"id":"GO:1903480","count":1}]},{"hash":"946133630183083321","title":"Cytokine signaling and ER stress responses","description":"The cluster shows enrichment for immune-related GO terms such as cellular response to transforming growth factor beta stimulus, positive regulation of type II interferon-mediated signaling, and interleukin-4 production, pointing to cytokine signaling as a core theme. Additionally, the positive regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway suggests a linked cellular stress response. Some other terms (developmental processes) appear as outliers, likely reflecting annotations not tightly tied to the main theme. Overall, the dominant signal is immune cytokine signaling with associated stress responses.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":4},{"id":"GO:1902951","count":3},{"id":"GO:0060670","count":3},{"id":"GO:0010863","count":3},{"id":"GO:1902237","count":3}]},{"hash":"548085710239613180","title":"Unknown","description":"The top GO terms span immune-related processes (IgE isotype regulation, germinal center formation, type 2 immune response, pro-T cell differentiation) alongside plant tropisms, placental and pancreatic development, and ubiquitin-related catabolism, revealing no single cohesive function or pathway linking all proteins. With no edges or clear connectivity, a specific functional label is not discernible.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048294","count":2},{"id":"GO:0009958","count":2},{"id":"GO:0042092","count":2},{"id":"GO:0002467","count":2},{"id":"GO:0009638","count":2}]},{"hash":"373763593584958042","title":"DNA replication and cell cycle","description":"The top GO terms are dominated by DNA replication, DNA-templated transcription, mitotic cell cycle, and DNA repair, pointing to nuclear genome maintenance and cell division as the cluster\u2019s core function. Additional terms like neuron axonogenesis and visual perception appear but are less represented, suggesting they are not central to this cluster. Therefore, this cluster is best described as proteins involved in genome replication and cell cycle control.","confidence":"High","size":6,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0006281","count":6},{"id":"GO:0051973","count":5}]},{"hash":"2198584190069133548","title":"mRNA processing and splicing regulation","description":"These proteins cluster around post-transcriptional RNA processing functions: transcription termination coupled to polyadenylation, polyadenylation of mRNA, pre-mRNA cleavage, and notably regulation of mRNA splicing via the spliceosome, plus ncRNA-mediated gene silencing. The shared GO terms point to a theme of RNA processing and splice regulation rather than transcription initiation or translation. Therefore, a label focusing on mRNA processing and splicing regulation is appropriate.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030846","count":3},{"id":"GO:0030847","count":3},{"id":"GO:0006378","count":3},{"id":"GO:0098789","count":3},{"id":"GO:0006364","count":2}]},{"hash":"2040002599555413825","title":"Inner ear mechanosensory synapse and junction proteins","description":"The terms converge on neuroligin-mediated postsynaptic assembly, hair-cell stereocilium organization, planar polarity, and cell-cell junction organization, pointing to proteins that organize mechanosensory hair cell synapses and junctional complexes in the inner ear.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097118","count":3},{"id":"GO:0050973","count":3},{"id":"GO:0060243","count":3},{"id":"GO:0032533","count":3},{"id":"GO:0060489","count":3}]},{"hash":"602444446053828459","title":"Regulated protein signaling and trafficking","description":"Based on the GO terms, this cluster centers on regulation of signaling pathways (negative regulation of kinase activity; glucocorticoid signaling; insulin response) and on intracellular trafficking/processing (Golgi reassembly; protein targeting; export/import from nucleus; protein heterooligomerization). The combination suggests a group of regulatory proteins that coordinate signaling with protein trafficking and assembly, rather than a single concrete pathway.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1900740","count":4},{"id":"GO:0006977","count":4},{"id":"GO:0071901","count":4},{"id":"GO:0090168","count":4},{"id":"GO:0006605","count":4}]},{"hash":"486298649267298811","title":"Developmental signaling and cytoskeletal regulation","description":"The top GO terms point to regulation of GTPase activity, tyrosine phosphorylation, and response to TGF-beta, combined with microtubule-based movement and several development-related terms (skin, spinal cord, skeletal system, gastrulation). This suggests a cluster of proteins involved in developmental signaling pathways that coordinate cytoskeletal dynamics and morphogenesis, rather than a single, narrow function.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0070208","count":3},{"id":"GO:0050731","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0043588","count":3}]},{"hash":"939722272478661910","title":"Developmental Signaling and Organogenesis","description":"The GO terms point to broad developmental roles across multiple tissues (neural, kidney, reproductive organs) and include key signaling pathways (PI3K-AKT, Hedgehog via Smoothened, Roundabout/ROBO) along with apoptosis and T cell signaling. This suggests a theme of development and signaling governing cell fate and organ formation, rather than a single precise function, so a label emphasizing developmental signaling and organogenesis fits best.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0060068","count":3},{"id":"GO:0022008","count":3},{"id":"GO:0045663","count":3},{"id":"GO:0043491","count":3}]},{"hash":"1564215963745374751","title":"Multisystem Development and Differentiation","description":"The top GO terms indicate involvement in developmental differentiation and morphogenesis across multiple tissues (muscle, heart, pancreas, astrocytes, bone/osteoclasts), with related processes in EMT, cell adhesion, and apoptotic regulation. This suggests a general theme of developmental programs and lineage specification rather than a single tissue-specific pathway.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045663","count":6},{"id":"GO:0003199","count":6},{"id":"GO:0042981","count":6},{"id":"GO:0031018","count":6},{"id":"GO:0072049","count":6}]},{"hash":"707069804242655878","title":"Neural crest-driven craniofacial development","description":"The prominent GO terms point to developmental processes, including anterior/posterior pattern specification, nose development, and neural crest cell development, which together suggest a focus on craniofacial morphogenesis and patterning. Some metabolic terms appear incidental and do not clearly define the cluster\u2019s main function. Overall, the cluster is best described as neural crest\u2013driven craniofacial development with patterning emphasis.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0009952","count":6},{"id":"GO:0006678","count":6},{"id":"GO:0043584","count":6},{"id":"GO:0019413","count":6},{"id":"GO:0032180","count":6}]},{"hash":"3230303316543136","title":"Neuronal development and synaptic organization","description":"Most of the represented GO terms are about neural development and synaptic structure/function, notably central nervous system projection neuron axonogenesis, visual perception, and postsynaptic density assembly. The presence of immune signaling and apoptotic terms appears supplementary rather than defining the cluster\u2019s core role, which centers on neurite development and synapse formation. This supports naming the cluster around neuronal connectivity and synaptic organization, with some peripheral stress/immune signals likely incidental to the set. ","confidence":"Medium","size":6,"edges":6,"triangles":1,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021952","count":6},{"id":"GO:0007601","count":6},{"id":"GO:0045819","count":6},{"id":"GO:1901196","count":6},{"id":"GO:0097107","count":6}]},{"hash":"769303123107557768","title":"Sphingolipid and fatty acid biosynthesis","description":"Based on the lipid-related GO terms dominating the top terms (monounsaturated fatty acid biosynthetic process, ceramide biosynthetic process, sphingosine biosynthetic process, and response to fatty acid), the cluster appears to group proteins involved in sphingolipid and fatty acid biosynthesis pathways, despite some unrelated or obsolete terms present. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060821","count":1},{"id":"GO:0070542","count":1},{"id":"GO:0044130","count":1},{"id":"GO:1903966","count":1},{"id":"GO:1903699","count":1}]},{"hash":"1185058022392847338","title":"Viral assembly and host cell cycle processes","description":"This cluster centers on GO terms tied to viral life cycle activities\u2014virion assembly, viral capsid assembly, and viral release\u2014combined with host cell processes such as cell division and mRNA export, chaperone interactions, and mitochondrial protein import. The mixture suggests proteins that participate in or are co-opted by viral replication while also engaging in core cellular functions, making a label around viral assembly with linked host-cell processes most representative.","confidence":"Medium","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045041","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0051131","count":3},{"id":"GO:0006406","count":2},{"id":"GO:0019068","count":2}]},{"hash":"1299245501936121919","title":"Nuclear RNA and ribosome export (Ran-dependent)","description":"The cluster prominently features nuclear export processes (mRNA and ribosomal subunits), along with Ran signaling and hnRNP-related import hints, suggesting a core function in nucleocytoplasmic transport and RNA processing. Additional terms related to transcription regulation and cell-cycle components (kinetochore localization, centrosome duplication) align with nuclear roles during cell growth and division, reinforcing a cohesive nuclear transport/RNA-processing theme.","confidence":"Medium","size":6,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0000055","count":3},{"id":"GO:0042176","count":3},{"id":"GO:0034501","count":3}]},{"hash":"1369393963979641449","title":"Mitochondrial respiration and protein complexes","description":"This cluster is best described by mitochondrial energy metabolism and assembly of multi-subunit protein complexes, as indicated by the top GO terms: aerobic respiration (2) and protein oligomerization (homotetramerization and heterooligomerization) (total of 3). The presence of terms related to ubiquitin recycling and mitochondrial targeting (even if obsolete) further supports a mitochondrial/protein-assembly theme. A few terms (viral process, symbiont entry, bradykinin/insulin catabolism) are less cohesive with the core signal and may reflect pleiotropy or broader metabolic connections. Overall, the strongest, coherent pattern is mitochondria-associated respiration and protein complex formation, with ancillary, less-specific processes. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009060","count":2},{"id":"GO:0051289","count":2},{"id":"GO:0045861","count":1},{"id":"GO:1901143","count":1},{"id":"GO:0046718","count":1}]},{"hash":"1402316786536741569","title":"Unknown","description":"The top GO terms are highly diverse, ranging from Golgi localization and cell polarity to translation, neuromuscular and neural development, heart contraction, and cell cycle, plus an obsolete or unrelated term. There is no single cohesive function or pathway tying these proteins together, suggesting either a mixed set of housekeeping processes or annotation noise rather than a specific biologically meaningful cluster.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000042","count":2},{"id":"GO:0030011","count":1},{"id":"GO:0002181","count":1},{"id":"GO:0050885","count":1},{"id":"GO:0010513","count":1}]},{"hash":"1971117930149312581","title":"Vascular Development and ECM Remodeling","description":"The dominant GO terms point to vascular biology (negative regulation of vascular permeability, glomerulus vasculature development, blood coagulation) and extracellular matrix processes (collagen fibril organization, protein polymerization). Additional signals include tyrosine kinase signaling and peptide hormone secretion, suggesting a broader vascular-ECM signaling module. Some terms are peripheral (triglyceride homeostasis, IL-6 response), but the core theme centers on vascular regulation and ECM remodeling.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043116","count":2},{"id":"GO:0007596","count":1},{"id":"GO:0007171","count":1},{"id":"GO:0072012","count":1},{"id":"GO:0071354","count":1}]},{"hash":"2202216054645183784","title":"Vesicle trafficking and cell cycle control","description":"The top GO terms point to robust intracellular transport along the secretory pathway (ER to Golgi, Golgi to plasma membrane, and general intracellular transport regulation), plus maintenance of cell polarity and cell cycle processes. These together suggest a cluster of proteins coordinating vesicle trafficking with cell division and polarity, with some tissue-specific terms (neuromuscular balance, cortical migration, heart contraction) that may reflect broader roles or secondary associations. ","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0043001","count":3},{"id":"GO:0090316","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0030011","count":2}]},{"hash":"2070831548128254578","title":"Interferon-responsive innate immunity","description":"The GO terms show innate immune response and cellular response to type I interferon as prominent themes, suggesting proteins involved in antiviral signaling and interferon pathways. While other terms exist, the strongest and most recurrent signals are immune/IFN-related, supporting this label as representative of the cluster.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0045087","count":3},{"id":"GO:1903546","count":2},{"id":"GO:1901215","count":2},{"id":"GO:0051291","count":2}]},{"hash":"289903149012725218","title":"Diverse organ development","description":"The Top Terms include visual perception (eye), pancreatic and cerebellar development, limb joint morphogenesis, ureteric bud branching, motor neuron differentiation, and spinal cord patterning. These terms point to developmental processes across multiple organs without a single shared pathway, so a broad label like Diverse organ development best captures the cluster.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":6},{"id":"GO:0035847","count":6},{"id":"GO:0031018","count":6},{"id":"GO:0072095","count":6},{"id":"GO:0021524","count":6}]},{"hash":"2024391187927585955","title":"Multi-Tissue Development","description":"These terms span visual system development, pancreas and limb patterning, spinal cord neuron differentiation, cerebellum development, and skeletal morphogenesis, with no single shared pathway. The common thread is broad developmental programs across multiple tissues, so a general \u201cMulti-Tissue Development\u201d label is appropriate.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":6},{"id":"GO:0035847","count":6},{"id":"GO:0031018","count":6},{"id":"GO:0072095","count":6},{"id":"GO:0021524","count":6}]},{"hash":"1691000640867112568","title":"Drosophila developmental signaling and morphogenesis","description":"These terms point to developmental signaling and morphogenesis in Drosophila, including germ-band extension, BMP signaling, imaginal-disc and sensory-cell (R7) development, Hedgehog pathway regulation via Smoothened, and stem cell differentiation. The cluster appears cohesive around embryonic/larval tissue patterning and organogenesis rather than metabolism or transport, suggesting proteins involved in insect developmental signaling networks.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007377","count":4},{"id":"GO:0045879","count":3},{"id":"GO:0030509","count":3},{"id":"GO:0007486","count":3},{"id":"GO:0048701","count":3}]},{"hash":"2244076309729281519","title":"Unknown","description":"The terms span neural development (forebrain neuron generation, CNS axonogenesis) and embryogenesis, but also cartilage development, lipid metabolism, bile acid signaling, and immune responses. There is no single cohesive function tying all proteins together, so a specific, representative label cannot be supported. ","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2001275","count":6},{"id":"GO:0021952","count":6},{"id":"GO:0003417","count":6},{"id":"GO:0010988","count":6},{"id":"GO:0038185","count":6}]},{"hash":"210289789586185540","title":"Craniofacial and cartilage development regulators","description":"This cluster is enriched for terms like roof of mouth development and cartilage morphogenesis, pointing to craniofacial and cartilage developmental roles. It also includes transcriptional regulation (RNA Pol II) and some RNA processing terms, suggesting these proteins act as regulators of gene expression during development, with broader housekeeping functions in RNA processing.","confidence":"Medium","size":6,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0006366","count":3},{"id":"GO:0060806","count":3},{"id":"GO:1903026","count":3}]},{"hash":"1210279542294286079","title":"Telomere Regulation and RNA Processing","description":"Most frequent terms point to telomere maintenance via telomerase and telomere capping, along with RNA processing/splicing (RNA splicing, regulation of alternative mRNA splicing). This suggests a nuclear function focused on genome stability and RNA maturation; other terms (NOD2 signaling, calcium import) are less central and may reflect annotation noise or multi-function proteins, but the telomere/RNA processing theme dominates.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032212","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0051096","count":2},{"id":"GO:2001275","count":1},{"id":"GO:0070431","count":1}]},{"hash":"1097718400144343440","title":"Neural Signaling and Sensory Processing","description":"The top GO terms largely point to neural signaling and sensory processing: visual and pain perception, dopaminergic synaptic transmission, a behavioral response to cocaine, and activation of ERK signaling and phosphorylation pathways. These indicate a cluster of proteins involved in neural communication and sensory/behavioral responses. A heart development term is an outlier, likely reflecting shared motifs or pleiotropy, but the dominant theme is neuronal signaling and sensory processing.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":4},{"id":"GO:0007601","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0010759","count":3}]},{"hash":"1158104048352026084","title":"Calcium-Driven Signaling and Membrane Repair","description":"The cluster features GO terms tied to calcium signaling (cellular response to calcium ion) and plasma membrane repair, along with signaling events in insulin secretion, B cell receptor signaling, and the reelin pathway. The presence of sphingolipid biosynthesis regulation also suggests membrane remodeling. Collectively, these terms point to a common theme of calcium-dependent signaling linked to membrane maintenance and dynamics, rather than a single isolated pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0001778","count":4},{"id":"GO:1905433","count":4},{"id":"GO:0032024","count":4},{"id":"GO:0038026","count":4},{"id":"GO:0043619","count":4}]},{"hash":"939456831896367513","title":"Transmembrane Ion Transport and pH Regulation","description":"This cluster is dominated by GO terms for transport of ions and small molecules across membranes (bicarbonate, chloride, oxalate, L-aspartate) and related to membrane potential and intracellular pH changes, plus processes like gastric acid secretion and sperm capacitation. The strongest common theme is membrane transport and ion/homeostasis, suggesting the proteins function together in ion equilibrium and pH regulation, with a few terms that are tissue-specific or broader (apoptosis, sensory perception) that may reflect annotation noise. Confidence: Medium","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":2},{"id":"GO:0015701","count":2},{"id":"GO:0042391","count":2},{"id":"GO:0048240","count":2},{"id":"GO:0089712","count":2}]},{"hash":"1607164780079468670","title":"Neural development and synaptic signaling","description":"The top GO terms are dominated by nervous system\u2013related processes: nervous system development, synaptic transmission (GABAergic), and sensory perception of sound, all pointing to neuronal function. Additional terms like SNARE complex disassembly and proteasome regulatory particle assembly fit with neuronal vesicle trafficking and protein turnover, supporting a neural signaling theme. Some terms (keratinization, ossification, T/B cell differentiation) are less aligned and may reflect broader multifunctional annotations, but the central signal remains neural development and synaptic activity.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070682","count":2},{"id":"GO:0035494","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0031424","count":2},{"id":"GO:0007605","count":2}]},{"hash":"2154939467432902818","title":"GTPase Signaling Regulation and Vesicle Exocytosis","description":"The cluster centers on regulation of small GTPase signaling (Ras, Rho) and vesicle-related processes, with terms like synaptic vesicle priming and acrosome reaction, plus negative regulation of neutrophil degranulation and blood vessel remodeling. The presence of immune signaling (B cell receptor) alongside exocytosis-related terms suggests a shared theme of tuning signaling pathways and vesicle trafficking across immune, neuronal, and reproductive contexts. ","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046580","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0060313","count":4},{"id":"GO:0043314","count":4},{"id":"GO:0016082","count":4}]},{"hash":"1054389050866776361","title":"Unknown","description":"The top terms are highly diverse, including plant-specific processes (chlorophyll biosynthesis, stamen formation) and unrelated regulatory processes (proteasome assembly, ubiquitin-dependent protein catabolic process, TNF/NF-kappaB signaling, endosome transport, and ion transport regulation), with no cohesive functional theme and no edges among proteins. Therefore there is no clear single function defining the cluster.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015995","count":1},{"id":"GO:0048455","count":1},{"id":"GO:0043248","count":1},{"id":"GO:0006511","count":1},{"id":"GO:1902072","count":1}]},{"hash":"1218077629206038703","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0007626","count":2},{"id":"GO:0061157","count":1},{"id":"GO:1902416","count":1},{"id":"GO:1900246","count":1}]},{"hash":"295477544169787537","title":"Transcription and Mitosis Regulation","description":"The top GO terms center on DNA-templated transcription and mitotic processes (G2/M transition, spindle pole separation, chromosome condensation), suggesting a cohesive role in coordinating transcription with the cell cycle. While a few terms (e.g., negative regulation of Pol II transcription, mammary gland proliferation, lactation) are more peripheral, the dominant theme points to transcriptional control during mitosis.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0051301","count":2},{"id":"GO:2000775","count":1},{"id":"GO:0000086","count":1},{"id":"GO:0019085","count":1}]},{"hash":"1423944040149542028","title":"Glycosylation and glycosphingolipid biosynthesis","description":"The top GO terms cluster around glycan modification and metabolism: N-glycan processing, N-linked glycosylation, protein sialylation, glycosylceramide metabolism, ganglioside biosynthesis, and oligosaccharide metabolism. A few terms about pollen germination and pollen tube growth hint at a plant reproductive context where glycosylation affects pollen function, but the cohesive theme is glycan/glycolipid biosynthesis and processing.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1990743","count":2},{"id":"GO:0009846","count":2},{"id":"GO:0009311","count":2},{"id":"GO:0006054","count":2},{"id":"GO:0001574","count":2}]},{"hash":"2141246560096265551","title":"Synapse organization and sensory development","description":"The enriched terms point to nervous system connectivity and sensory structures: neuroligin clustering at postsynaptic membranes, regulation of synaptic vesicle clustering, inner ear receptor stereocilium organization, and Purkinje cell/neural development, all signaling neurosensory patterning. A few terms about planar polarity and microvillus-related processes echo broader developmental organization but still align with neurosensory morphogenesis. Overall, the cluster centers on synapse formation and sensory organ development.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0097118","count":1},{"id":"GO:0050973","count":1},{"id":"GO:0060243","count":1},{"id":"GO:0032533","count":1},{"id":"GO:0060489","count":1}]},{"hash":"8737522421470145","title":"Unknown","description":"The top GO terms span diverse functions from calcium-regulated cardiac activity and visual perception to pituitary development, glycogen metabolism, actin crosslinking, astrocyte differentiation, and nuclear import, showing no single cohesive theme to define a specific cluster label.","confidence":"","size":6,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010881","count":2},{"id":"GO:0016061","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0048855","count":2},{"id":"GO:0005980","count":2}]},{"hash":"1123694707542904275","title":"Embryonic Development and Tissue Morphogenesis","description":"The top GO terms center on embryonic development, placenta and endocrine tissue formation, cartilage morphogenesis, EMT in cardiac cushion formation, and left-right patterning, indicating a cluster of proteins involved in developmental differentiation and organ morphogenesis across multiple tissues.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060707","count":3}]},{"hash":"1832083132488043693","title":"Developmental Epigenetic Regulation","description":"The cluster\u2019s top GO terms cluster around DNA-templated transcription, nucleosome assembly, and histone methylation/dimethylation, pointing to chromatin-level control of gene expression. The presence of embryonic morphogenesis and heart development terms (digit morphogenesis, atrial septum morphogenesis) suggests this regulation plays a role in developmental processes, with other terms like hepatocyte homeostasis and endosome size regulation reflecting broader cellular context. Together, this points to chromatin-based transcription regulation during development.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0042733","count":2},{"id":"GO:0031060","count":1},{"id":"GO:0097676","count":1},{"id":"GO:0003290","count":1}]},{"hash":"1462781811074531582","title":"Cyclic Nucleotide Signaling and Hair Cell Ion Transport","description":"The cluster centers on cellular responses to cAMP and cGMP and on ion transport (sodium and potassium), coupled with inner ear development and sensory perception terms, suggesting a theme of cyclic nucleotide signaling modulating ion homeostasis in sensory cells (notably the inner ear) during development. The combination points to a specific functional axis rather than unrelated processes, though a few terms are broader, making the match moderate in certainty.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071320","count":6},{"id":"GO:0010754","count":6},{"id":"GO:0019233","count":6},{"id":"GO:0009454","count":6},{"id":"GO:0071321","count":6}]},{"hash":"1188316509230958227","title":"Angiogenesis-Linked Adhesion and Inflammation","description":"The cluster centers on cell adhesion (matrix, cell-cell, substrate) and sprouting angiogenesis with endothelial migration, plus inflammatory signals (inflammation, response to LPS). A thyroid hormone generation term is present but less connected, so the main theme remains adhesion-driven angiogenesis with immune involvement.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007160","count":5},{"id":"GO:0090050","count":4},{"id":"GO:0007157","count":4},{"id":"GO:0006590","count":4},{"id":"GO:0001867","count":4}]},{"hash":"698553752540650026","title":"Polymer and cell-wall biosynthesis","description":"The GO terms cluster around production of polymers and surface-associated components, including lipopolysaccharide and O antigen, colanic acid, poly-hydroxybutyrate, sporopollenin, and phenylpropanoids, with supporting sugar metabolism (galactose). This suggests a unifying theme of biosynthetic pathways for polymers and cell-wall-related molecules across organisms, even though they span bacteria and plants (chloroplast-related processes). Confidence: Medium","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010020","count":2},{"id":"GO:0009242","count":1},{"id":"GO:0009244","count":1},{"id":"GO:0042619","count":1},{"id":"GO:0080110","count":1}]},{"hash":"631851401989267729","title":"Macrophage activation and inflammatory signaling","description":"The top GO terms emphasize macrophage/myeolloid activation, cytokine production, and inflammatory signaling (regulation of macrophage activation, LPS-mediated signaling, inflammatory response), with arachidonate secretion suggesting eicosanoid-mediated mediators. This points to a coherent function centered on macrophage-driven immune activation and inflammation, despite a few generic terms present. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090238","count":2},{"id":"GO:0033033","count":2},{"id":"GO:0043030","count":2},{"id":"GO:0031666","count":1},{"id":"GO:0061081","count":1}]},{"hash":"1110542567155880729","title":"Unknown","description":"The terms span blood coagulation, visual perception, GPCR signaling, astrocyte chemotaxis, gastric acid secretion, inflammatory response, peptide response, cardiac muscle growth, and serotonin regulation, with no single dominant process tying them together. Because of this lack of a cohesive functional theme, there is no reliable, specific label for the cluster beyond Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":6},{"id":"GO:0007601","count":6},{"id":"GO:0010513","count":6},{"id":"GO:2000458","count":6},{"id":"GO:0001698","count":6}]},{"hash":"577037424367134665","title":"Rac-dependent immune signaling and cytoskeleton remodeling","description":"This cluster centers on immune activation (innate and adaptive) with strong signatures of Rac/Rac-related small GTPase signaling and actin cytoskeleton dynamics (filopodium assembly, actin organization, cell spreading). The presence of IL-4 production, NK T cell differentiation, and B cell maturation points to lymphocyte activation, while Rac signaling ties these processes to cytoskeletal remodeling essential for immune synapse formation and cell migration.","confidence":"High","size":6,"edges":6,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0032633","count":5},{"id":"GO:0001865","count":5},{"id":"GO:0007264","count":5},{"id":"GO:0046847","count":5}]},{"hash":"1934690540140340488","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":2},{"id":"GO:0000712","count":1},{"id":"GO:0034975","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0002181","count":1}]},{"hash":"100488817077259022","title":"Glycan biosynthesis and processing","description":"The proteins in this cluster are linked by glycosylation-related processes: several terms point to N-glycan processing, glycosylceramide and ganglioside metabolism, oligosaccharide metabolism, and sialylation. While a couple of terms pertain to pollen or developmental contexts, the dominant theme is the synthesis, modification, and metabolism of glycans and glycoproteins.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1990743","count":2},{"id":"GO:0009846","count":2},{"id":"GO:0009311","count":2},{"id":"GO:0006054","count":2},{"id":"GO:0001574","count":2}]},{"hash":"99337507665612747","title":"Lipid biosynthesis and mitochondrial lipids","description":"The top GO terms highlight lipid metabolism: triglyceride biosynthesis, ether lipid biosynthesis, cardiolipin remodeling, and platelet activating factor biosynthesis, with mitochondrial ATP synthesis linked to electron transport, suggesting a focus on mitochondrial membrane lipids. Some terms related to immune signaling and development appear but do not define the core theme; overall the cluster centers on lipid biosynthesis and mitochondrial lipid remodeling.","confidence":"Medium","size":6,"edges":10,"triangles":6,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070970","count":5},{"id":"GO:0042775","count":5},{"id":"GO:0019432","count":5},{"id":"GO:0008611","count":5},{"id":"GO:0035965","count":5}]},{"hash":"861406006303544933","title":"Cardiac and skeletal muscle development and regulation","description":"The top terms point to heart development and function (heart looping, regulation of heart rate, regulation of calcium-mediated cardiac contraction) along with skeletal muscle differentiation, indicating a muscle-development/regulatory module. Some chromatin/silencing terms appear but are less cohesive with the main muscle theme, so the core signal is muscle development and cardiac regulation.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0061408","count":2},{"id":"GO:0016479","count":2},{"id":"GO:0001947","count":2},{"id":"GO:0035914","count":2},{"id":"GO:0061188","count":2}]},{"hash":"2056565001477768387","title":"Immune Cytokine Production and T Cell Signaling","description":"The Top Terms show several immune-related processes\u2014T cell cytokine production, innate immune activation, T cell apoptotic process, and cytokine production\u2014suggesting the cluster centers on immune signaling and cytokine regulation. Some terms like protein transport or ER retention are present but less prominent, indicating these proteins may be involved in trafficking or ER-related steps alongside immune signaling. Overall, the dominant theme is immune cytokine generation and T cell\u2013related signaling.","confidence":"Medium","size":6,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006621","count":1},{"id":"GO:0002369","count":1},{"id":"GO:0010204","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0070231","count":1}]},{"hash":"461180805093343989","title":"Chromatin regulation via histone modification","description":"This cluster centers on chromatin-level control of transcription, as reflected by terms for DNA-templated transcription, nucleosome assembly, and histone modifications (H3-K4 methylation, H2A deubiquitination) and ubiquitin turnover. Although several terms are marked obsolete, the recurring theme is histone modification and chromatin remodeling linked to transcription regulation, with supporting signals from ubiquitin-related processes. The connection is cohesive enough to confidently label as chromatin regulation tied to histone modification.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0051568","count":2},{"id":"GO:0035522","count":2},{"id":"GO:0043433","count":2},{"id":"GO:0006334","count":2}]},{"hash":"1349614916066283582","title":"Immune signaling and ubiquitin-mediated regulation","description":"The cluster is dominated by immune-related terms: innate and adaptive immune responses and B cell receptor signaling, plus ubiquitin-dependent protein catabolic processes and regulation of signaling cascades like JNK, pointing to immune signaling intertwined with ubiquitin/proteasome-mediated regulation. A few outlier terms (dosage compensation, histone catabolic processes) are less central but may reflect chromatin/epigenetic aspects in immune contexts. Overall, the theme is immune signaling with ubiquitin-mediated regulation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0002250","count":2}]},{"hash":"518217358826092182","title":"Embryonic DNA Repair and Development","description":"The cluster\u2019s terms center on high-fidelity DNA repair (error-free translesion synthesis, error-free postreplication repair) and meiotic genome processing (DSB formation, reciprocal recombination), with a developmental context indicated by in utero embryonic development and BMP signaling. While a couple of terms (e.g., peroxisomal import, obsolete signaling) are less connected, the dominant signal points to genome integrity during development and meiosis.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0030509","count":5},{"id":"GO:0070987","count":5},{"id":"GO:0042275","count":5},{"id":"GO:0001701","count":5},{"id":"GO:0042138","count":5}]},{"hash":"878086756485580533","title":"Global Regulation of Gene Expression and Signaling","description":"This cluster centers on regulatory roles across diverse cellular processes: transcription regulation by RNA polymerase II, negative control of signaling pathways (TLR3) and gene expression, chromatin modification, deubiquitination, and regulatory aspects of autophagy and cell cycle structures. The common thread is modulation rather than direct catalytic activity, with several GO terms explicitly describing negative regulation. The variety suggests a broad regulatory theme rather than a single pathway, hence a medium level of confidence.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006357","count":4},{"id":"GO:1901097","count":4},{"id":"GO:0030474","count":4},{"id":"GO:0010216","count":4},{"id":"GO:0016579","count":4}]},{"hash":"1263878791495027268","title":"Unknown","description":"The top GO terms are scattered across calcium signaling, bone development, protein quality control, oxidative stress, plant defense, and sensory/taste formation, with no coherent shared function tying all five proteins together. This makes it difficult to assign a meaningful, specific label beyond Unknown.","confidence":"","size":5,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0014808","count":3},{"id":"GO:0060315","count":3},{"id":"GO:0001501","count":2},{"id":"GO:0045668","count":2},{"id":"GO:0070845","count":2}]},{"hash":"90641007746272765","title":"Tissue Development and Differentiation","description":"This cluster's GO terms are mainly about development and differentiation across multiple tissues (retina vasculature, hepatocytes, uterus, prostate, and endothelial adhesion). While there are several metabolism-related terms present, the tissue development/differentiation terms appear to be the central shared theme.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0061298","count":2},{"id":"GO:0019383","count":2},{"id":"GO:0060736","count":2},{"id":"GO:0010164","count":2},{"id":"GO:0010241","count":2}]},{"hash":"1937077413652655952","title":"Embryonic development and differentiation","description":"The top GO terms point to developmental processes across multiple tissues and stages (retinal axon guidance, primitive streak formation, skeletal development, pituitary development, erythrocyte differentiation) with accompanying regulatory processes (transcriptional regulation and apoptosis). While some terms are broad, the shared theme is embryogenesis and lineage specification rather than a single pathway, supporting a label focused on development and differentiation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031290","count":2},{"id":"GO:0048706","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0045617","count":2},{"id":"GO:0021983","count":2}]},{"hash":"1401444706184418651","title":"Muscle and Heart Development Regulation","description":"Top terms cluster around regulation of differentiation in muscle lineages (myoblast/myotube) and cardiac morphogenesis (endocardial cushion to mesenchymal transition), with DNA-templated transcription and integrin-mediated adhesion supporting developmental transcription programs. Despite some broader development terms, the common theme is transcriptional regulation of differentiation and morphogenesis in muscle and heart contexts.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045668","count":5},{"id":"GO:0060766","count":5},{"id":"GO:0010832","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0045663","count":3}]},{"hash":"1874458281572346663","title":"RNA processing and translation machinery","description":"Proteins in this cluster are dominated by RNA processing and protein synthesis functions: translation, ribosome biogenesis, and spliceosome-related activities (snRNP assembly and mRNA splicing). These together suggest core roles in RNA processing and translation, with a few ancillary terms (DNA repair, dexamethasone response) that are less central to the main theme. Overall, the label captures the primary function of the cluster.","confidence":"High","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0006281","count":2},{"id":"GO:0071549","count":2},{"id":"GO:0042254","count":1},{"id":"GO:0006450","count":1}]},{"hash":"1289902174646387022","title":"Ribosome Biogenesis and Translation Regulation","description":"The top GO terms are dominated by translation-related processes (translation, cytoplasmic translation, regulation of translation, translational fidelity) and ribosome biogenesis signals (SSU-rRNA maturation, rRNA methylation), pointing to a cluster involved in ribosome assembly and control of protein synthesis. An outlier neural tube closure term appears but does not override the main theme of translation machinery and its regulation.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0000462","count":2},{"id":"GO:0002181","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0006450","count":1}]},{"hash":"1993756222168123305","title":"Adaptive immune signaling and ubiquitin regulation","description":"Top GO terms point to adaptive immune response and ubiquitin-proteasome\u2013mediated processes (protein ubiquitination, NF-kappaB regulation, RIG-I signaling, T cell proliferation control). This suggests a cluster of proteins involved in immune activation that are modulated by ubiquitin-dependent degradation, with some noise from terms like membrane repair or dosage compensation that are less connected. Overall, the theme is immune signaling linked to protein turnover.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0032436","count":2},{"id":"GO:0048863","count":2}]},{"hash":"197443610045050700","title":"Nucleotide Metabolism and DNA Replication Initiation","description":"The terms are dominated by nucleotide metabolism: AMP salvage, ADP and nucleoside monophosphate phosphorylation, various nucleotide metabolic processes, and purine interconversion, pointing to a core function in purine nucleotide biosynthesis and salvage. The DNA replication initiation term suggests involvement of nucleotide supply for DNA synthesis, aligning with this core theme; the brain- and liver-development terms may reflect broader or tissue-specific roles rather than a separate function of the cluster.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0044209","count":5},{"id":"GO:0001889","count":5},{"id":"GO:0046039","count":5},{"id":"GO:0006172","count":5},{"id":"GO:0046939","count":5}]},{"hash":"1352215849054463122","title":"Unknown","description":"The top GO terms cover diverse areas (glycogen metabolism, calcium-related signaling in muscle and mitochondria, various development processes, and vision). Because there is no single coherent biological theme linking these terms, the cluster cannot be reliably labeled with a specific function.","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0005980","count":2},{"id":"GO:0010881","count":1},{"id":"GO:0016061","count":1},{"id":"GO:0036444","count":1},{"id":"GO:0007601","count":1}]},{"hash":"1343018289101385481","title":"Membrane trafficking and morphogenesis","description":"The top GO terms cluster around membrane dynamics and trafficking, including cilium-localization, endosome-to-lysosome transport, plasma membrane tubulation, and membrane formation during morphogenesis and sporulation. This suggests proteins coordinating membrane organization during cell shape changes and cargo trafficking.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048310","count":2},{"id":"GO:0061512","count":2},{"id":"GO:0048015","count":2},{"id":"GO:0000902","count":2},{"id":"GO:0031139","count":2}]},{"hash":"2105934006690827754","title":"Unknown","description":"The GO terms are highly heterogeneous: unsaturated fatty acid biosynthesis, CNS myelin maintenance, sebaceous gland differentiation, sphingolipid/metabolite processes, nitric oxide biosynthesis, mitochondrial inheritance, nitrate assimilation, ergosterol biosynthesis regulation, ER protein exit regulation, and vacuole organization. There is no single unifying theme across all proteins, so a cohesive, specific function label cannot be assigned.","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006636","count":1},{"id":"GO:0032286","count":1},{"id":"GO:0001949","count":1},{"id":"GO:0006675","count":1},{"id":"GO:0006809","count":1}]},{"hash":"2160238768535417101","title":"Multi-tissue Morphogenesis","description":"This cluster centers on morphogenesis and development across diverse tissues (corticospinal tract, hippocampus, cartilage, palate, pancreas, placenta), suggesting a shared theme of embryonic tissue formation and structural development, with accompanying regulatory processes.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021957","count":3},{"id":"GO:0043507","count":3},{"id":"GO:0060021","count":2},{"id":"GO:0060806","count":2},{"id":"GO:1903026","count":2}]},{"hash":"1498750415744863025","title":"Neural development and signaling","description":"This cluster is dominated by GO terms related to nervous system development, brain cell migration, and axon guidance (Roundabout signaling), with supporting terms for GTPase activity and TOR/MAPK pathway modulation. The overall pattern points to neural development and signaling processes, with an outlier term for T cell receptor signaling that does not detract from the neural theme.","confidence":"High","size":5,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035385","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0032008","count":2}]},{"hash":"1076714589661531248","title":"Signaling regulation and vesicle trafficking","description":"The cluster\u2019s GO terms predominantly involve modulation (positive/negative regulation) of signaling pathways (BMP/TGF-beta/SMAD, NF-kappaB, receptor signaling) and processes related to intracellular transport (nuclear export, vacuole fusion). This points to a common theme of controlling signaling cascades and protein/vesicle localization during development and cellular organization, rather than a single specific pathway. Some terms (e.g., meristem identity, photosystem adjustment) broaden the scope to plant development and organelle regulation, but the overall signal is regulation of signaling and trafficking.","confidence":"Medium","size":5,"edges":7,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0010074","count":3},{"id":"GO:0035970","count":3},{"id":"GO:0046827","count":3},{"id":"GO:0030514","count":3},{"id":"GO:0061191","count":3}]},{"hash":"1995971023656594371","title":"Brain and sensory system development","description":"The top GO terms cluster around neural and sensory development (brain development, inner ear development, visual perception, cerebellar Purkinje cell differentiation, visceral motor neuron differentiation, locomotory behavior), indicating proteins likely involved in nervous system formation and sensory organ function. A few terms about tissue organization or other developmental lines are present but secondary (cell-cell junction organization, endocrine pancreas development), so the dominant theme is neural and sensory system development.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045216","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0007626","count":3},{"id":"GO:0048839","count":3},{"id":"GO:0007601","count":2}]},{"hash":"2259438609207809721","title":"Ubiquitination-driven NF-\u03baB/TNF Signaling Regulators","description":"The cluster centers on ubiquitination-related processes (protein ubiquitination, polyubiquitination, autoubiquitination, sumoylation) and includes terms linking to NF-\u03baB and TNF signaling, with additional hints of transcriptional regulation and apoptosis. This points to a cohesive role in ubiquitin-mediated signaling that modulates transcription and immune-related pathways, justifying a focused label around ubiquitination and NF-\u03baB/TNF signaling.","confidence":"Medium","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0097039","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0051865","count":2}]},{"hash":"214418153801037312","title":"miRNA and siRNA processing","description":"The top terms show strong signals for miRNA processing (GO:0035196) and siRNA processing (GO:0030422), with regulation of miRNA metabolic process (GO:2000628) also present. This points to involvement of RNA interference / small RNA processing pathways as the cluster\u2019s core function. While there are some viral interaction and stress-related terms in the list, the dominant theme is RNA silencing machinery, making a miRNA/siRNA processing label appropriate and specific.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0046726","count":1},{"id":"GO:0009636","count":1},{"id":"GO:0097049","count":1},{"id":"GO:2000628","count":1}]},{"hash":"983599567709206856","title":"Unknown","description":"The GO terms show a mix of bone development, spermatogenesis, transcription regulation, immune-related processes, coagulation, and toxin transport, with no single shared pathway tying all proteins together. While development/reproduction terms exist (bone development, spermatogenesis, male germ cell proliferation, activin signaling), many terms are unrelated, suggesting a heterogeneous cluster rather than a cohesive function.","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":2},{"id":"GO:0006368","count":1},{"id":"GO:0048096","count":1},{"id":"GO:0007283","count":1},{"id":"GO:0007596","count":1}]},{"hash":"1022295615196130024","title":"Embryonic Morphogenesis and BMP/TGF-\u03b2 Signaling","description":"The terms cluster around development and shaping of tissues and organs (face, digestive tract, atrial septum, endocardium) with key signaling players BMP and TGF-\u03b2 guiding morphogenesis. While a few terms touch on immune roles or pancreas development, the dominant theme is morphogenesis guided by BMP/TGF-\u03b2 signaling, making this a coherent cluster label. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060325","count":4},{"id":"GO:0071560","count":4},{"id":"GO:0048546","count":2},{"id":"GO:0043966","count":2},{"id":"GO:0003290","count":2}]},{"hash":"1220080095282717813","title":"Immune signaling and lipoprotein metabolism","description":"This cluster shows enrichment for inflammatory signaling terms (NF-kappaB regulation, IL-8 production) along with lipoprotein metabolism terms (HDL clearance, cholesterol efflux, reverse cholesterol transport), suggesting a link between immune signaling and lipid transport functions across these proteins.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":2},{"id":"GO:0048536","count":2},{"id":"GO:0042628","count":2},{"id":"GO:1902042","count":2},{"id":"GO:0032757","count":2}]},{"hash":"98120056024880700","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030324","count":1},{"id":"GO:0006606","count":1},{"id":"GO:0007030","count":1},{"id":"GO:0034605","count":1},{"id":"GO:0070121","count":1}]},{"hash":"904864618742175971","title":"Innate antiviral defense and autophagy","description":"This cluster centers on antiviral innate immunity and autophagy. Top GO terms point to innate immune response, defense against virus, suppression of viral release by host, and autophagy, indicating a common role in restricting viral infection. A few terms about LPS signaling or general transcription regulation are peripheral and likely related to broader immune signaling, but the dominant signal remains antiviral defense and autophagy.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0031664","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0051607","count":3},{"id":"GO:1902187","count":3},{"id":"GO:0006914","count":3}]},{"hash":"972057113237804366","title":"Ubiquitin Regulation and Intracellular Transport","description":"The top GO terms cluster around ubiquitination and regulation of ubiquitin ligase activity, with strong signals for vesicle transport (Golgi to ER) and nuclear pore localization, suggesting a module tied to protein turnover and intracellular trafficking. Hypoxia response and developmental terms appear as broader associations rather than defining the core function of this cluster.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":3},{"id":"GO:0071456","count":3},{"id":"GO:0000132","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0001501","count":2}]},{"hash":"637958452352807207","title":"TGF-\u03b2/BMP signaling regulators in development","description":"Proteins in this cluster are enriched for negative regulation of TGF-\u03b2 receptor signaling and BMP signaling, cellular response to TGF-\u03b2 stimulus, and related dephosphorylation activities, all pointing to modulators of growth factor signaling. The inclusion of \"maintenance of meristem identity\" suggests a developmental context, possibly plant development, where these pathways guide tissue specification. Overall, the cluster appears to center on regulators that tune crucial signaling pathways during development.","confidence":"Medium","size":5,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030512","count":2},{"id":"GO:0042347","count":2},{"id":"GO:0000173","count":2},{"id":"GO:0010074","count":2},{"id":"GO:0071560","count":2}]},{"hash":"1700719874206437882","title":"Keratinization proteins","description":"The only top GO term is keratinization, indicating these proteins are involved in epidermal keratinocyte differentiation and keratin filament formation. The network shows strong interconnectivity among a small set of proteins, consistent with a structural, keratin-related cluster. Therefore, labeling it as keratinization proteins is appropriate and representative.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":4}]},{"hash":"1762405294288919853","title":"Potassium Transport and Cardiac Development","description":"The top GO terms cluster around potassium ion transport and cardiac electrophysiology, including potassium transport/import, regulation of atrial cardiac muscle cell membrane depolarization, and outflow tract morphogenesis. This suggests a cohesive theme of potassium-handling processes in heart development and function, with a few peripheral terms, but the core signal supports a cardiac potassium transport theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":5},{"id":"GO:0046886","count":3},{"id":"GO:0060371","count":3},{"id":"GO:0021502","count":3},{"id":"GO:0003031","count":3}]},{"hash":"1907735656302734874","title":"Unknown","description":"This cluster's top GO terms span very disparate processes (muscle development regulation, mRNA splicing, spermatogenesis, chromosome condensation, coagulation, vision, lipid signaling regulation, astrocyte chemotaxis, gastric acid secretion, and inflammatory response). The lack of a single coherent biological theme, along with only one edge and mixed annotations, suggests the proteins do not share a unified function in this cluster. Therefore a cohesive, descriptive label cannot be assigned.","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045843","count":3},{"id":"GO:0006376","count":3},{"id":"GO:0007283","count":1},{"id":"GO:0030261","count":1},{"id":"GO:0007596","count":1}]},{"hash":"811308771757871816","title":"Neural development and synaptic signaling","description":"The terms point to neuronal development and synaptic function, with retinal ganglion cell axon guidance, glutamatergic transmission, synapse assembly, neurotransmitter secretion, and learning forming a coherent neural theme; eye morphogenesis and Wnt signaling appear as related contexts, while a couple of non-neural terms are present but do not dominate.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031290","count":2},{"id":"GO:0033628","count":2},{"id":"GO:0051968","count":2},{"id":"GO:0016055","count":2},{"id":"GO:0071372","count":2}]},{"hash":"1246304413036392876","title":"TGF-beta/Nodal Signaling in Development","description":"The top terms cluster around transforming growth factor beta receptor signaling, SMAD complex assembly, nodal signaling, and paraxial mesoderm morphogenesis, with positive regulation of TGF-beta receptor signaling also present. This points to a cohesive theme of TGFB signaling pathways driving developmental patterning, particularly mesoderm formation and related developmental cues. Some unrelated terms (antibiotic biosynthetic process, L-alanine catabolic process, tRNA methylation) appear as noise, but the core signals strongly suggest TGFB/Nodal signaling involvement.","confidence":"Medium","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007183","count":2},{"id":"GO:0007179","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0042853","count":2},{"id":"GO:0030488","count":2}]},{"hash":"445858114173456361","title":"Ion transport and calcium homeostasis","description":"The proteins are enriched for transmembrane ion transport terms, especially calcium handling in cellular compartments (calcium import into the sarcoplasmic reticulum and Golgi calcium homeostasis), along with other ions (proton, potassium, zinc). A couple terms about testosterone response and serine biosynthesis seem incidental; overall the theme is membrane ion transport with a focus on calcium regulation.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":5},{"id":"GO:1990036","count":3},{"id":"GO:0097755","count":3},{"id":"GO:0033574","count":3},{"id":"GO:0032468","count":3}]},{"hash":"280970275317429541","title":"Glycosylation and ER Quality Control","description":"This cluster centers on secretory pathway processing, with top GO terms for protein N-linked glycosylation, carbohydrate metabolism, and cellular/ER stress responses (unfolded protein response, ER-to-cytosol retrograde transport). A few development terms appear, likely reflecting tissue-specific roles of secreted glycoproteins, but the common thread is glycoprotein processing and ER quality control. ","confidence":"Medium","size":5,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006487","count":2},{"id":"GO:0005975","count":2},{"id":"GO:0035311","count":1},{"id":"GO:0048515","count":1},{"id":"GO:0042676","count":1}]},{"hash":"2137174744630860984","title":"Neural development and synaptic plasticity","description":"The terms cluster around brain development and synaptic regulation (hippocampus development, nervous system development, dendrite morphogenesis, synapse structural plasticity, ephrin receptor signaling), indicating roles in neural wiring and synaptic dynamics. A single T cell receptor signaling term appears but does not define the cluster\u2019s theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021766","count":4},{"id":"GO:0048013","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0046330","count":4},{"id":"GO:0043552","count":4}]},{"hash":"1746590843761006378","title":"Translational control and mRNA turnover","description":"This cluster is dominated by GO terms related to translation (terminology and fidelity) and mRNA turnover, including mitochondrial translation and deadenylation-dependent decay, suggesting a shared theme around gene expression at the RNA and protein synthesis level. Some developmental terms appear but are likely broader contextual signals rather than core hallmarks. Overall, the strongest link is to translation regulation and mRNA decay. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903575","count":2},{"id":"GO:0006415","count":1},{"id":"GO:1902802","count":1},{"id":"GO:0045903","count":1},{"id":"GO:0000349","count":1}]},{"hash":"622607673124140516","title":"Bacterial Cell Cycle and Envelope Biosynthesis","description":"The cluster is dominated by GO terms for chromosome segregation, plasmid partitioning, and cell cycle control, pointing to a cell division/dna dynamics theme. Contributing terms about lipopolysaccharide and extracellular polysaccharide biosynthesis (envelope components) suggest a link to cell envelope assembly in bacteria. Fe-S cluster assembly and tyrosine phosphorylation add supportive roles in metabolic and signaling pathways connected to these processes. Overall, the data point to a cohesive theme around bacterial cell division processes with envelope biosynthesis aspects.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0045226","count":4},{"id":"GO:0030541","count":4},{"id":"GO:0051782","count":4},{"id":"GO:0007059","count":4},{"id":"GO:0016226","count":4}]},{"hash":"499217476174721948","title":"Cell Cycle and Antiviral Innate Response","description":"This cluster shows a mix of mitosis-related terms (cell division, mitotic cell cycle) and innate antiviral signaling (cellular response to dsRNA, innate immune response, cellular response to type I interferon), suggesting proteins involved in both cell cycle regulation and antiviral responses. Some reproductive or signaling terms appear likely as annotation noise or multifunctionality in different contexts.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0071360","count":3},{"id":"GO:0030850","count":3},{"id":"GO:0046661","count":3},{"id":"GO:0051348","count":3}]},{"hash":"1346222711179403165","title":"Cell Polarity and Migration","description":"This cluster is driven by GO terms centered on cell polarity maintenance, various forms of cell migration (including amoeboid and neuronal cortex migration), and cytoskeletal/mitotic processes (mitotic spindle assembly and cell cycle). The presence of phosphatidylinositol biosynthesis regulation suggests membrane signaling tied to polarity and movement, supporting a cohesive theme of cytoskeletal organization and directionality across cell types.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030011","count":5},{"id":"GO:0050885","count":5},{"id":"GO:0010513","count":5},{"id":"GO:0021799","count":5},{"id":"GO:0060047","count":5}]},{"hash":"191458756686307745","title":"Neural development and synapse formation","description":"The terms point to CNS neuron development and connectivity: axonogenesis, axon guidance, and corticospinal tract morphogenesis, plus postsynaptic density assembly, all core to neural development and synapse formation. Calcium signaling terms (store-operated calcium channel activity/entry) further support neuronal activity and maturation. Some terms (prostatic bud formation, keratinocyte proliferation) seem outliers, but they do not override the dominant neural theme. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032237","count":2},{"id":"GO:0021952","count":2},{"id":"GO:0060513","count":2},{"id":"GO:0097107","count":2},{"id":"GO:0002115","count":2}]},{"hash":"947123338893204531","title":"Vertebrate organogenesis","description":"The top GO terms cluster around development of multiple organs and tissues (palate, pancreas, cerebellum, uterine epithelium, ureteric bud/branching, and limb patterning) along with general transcriptional activity and sensory development, suggesting a broad developmental/progenitor program that patterns organ formation across systems. This points to a theme of embryonic organogenesis rather than a single tissue-specific function.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":3},{"id":"GO:0006366","count":3},{"id":"GO:0007601","count":2},{"id":"GO:0035847","count":2},{"id":"GO:0031018","count":2}]},{"hash":"1591612906586688968","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006458","count":1},{"id":"GO:0060347","count":1},{"id":"GO:0032925","count":1},{"id":"GO:1990000","count":1},{"id":"GO:1902991","count":1}]},{"hash":"649276693725963788","title":"Unknown","description":"The GO terms for this cluster are highly diverse (visual perception, pituitary development, vagus motor nucleus development, calcium-regulated cardiac contraction, cholesterol metabolism, peroxisome autophagy, glycogen catabolism, secretory granule localization, etc.), with no single unifying function or pathway that ties all proteins together. This suggests there isn\u2019t a coherent, specific theme for a meaningful, concise label.","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010881","count":3},{"id":"GO:0090181","count":3},{"id":"GO:0016061","count":3},{"id":"GO:0007601","count":3},{"id":"GO:2000353","count":3}]},{"hash":"1850166958944121107","title":"Actin polymerization and spine morphogenesis","description":"The cluster is dominated by GO terms for actin dynamics (actin filament polymerization, Arp2/3-mediated nucleation, actin nucleation, barbed-end capping) and neural development (brain development, dendritic spine morphogenesis, multicellular organism development). This points to actin cytoskeleton remodeling driving spine formation and neural maturation, with vesicle transport terms likely reflecting cytoskeletal transport roles. Confidence reflects a coherent, specific theme around actin-driven morphogenesis.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":3},{"id":"GO:2000601","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0007275","count":2}]},{"hash":"176917093994550756","title":"One-carbon folate metabolism and nucleic acid processing","description":"The overall terms mix folate/one-carbon metabolism (tetrahydrofolate interconversion, folic acid biosynthesis/catabolic processes, formate metabolism) with nucleic acid\u2013related processes (DNA repair, mRNA processing), suggesting a theme centered on folate-dependent nucleotide synthesis and handling. Some ubiquitin/vacuole-related terms appear but do not dominate, so the core signal fits one-carbon folate metabolism linked to nucleic acid processing.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0015942","count":1},{"id":"GO:0009396","count":1},{"id":"GO:0035999","count":1}]},{"hash":"1002214497000831299","title":"Mitotic progression and spindle/cytokinesis control","description":"Based on the top GO terms, the cluster centers on mitosis regulation: negative regulation of CDK activity, kinetochore localization, mitotic cytokinesis checkpoint signaling, regulation of spindle elongation, and exit from mitosis. These point to coordinated control of mitotic entry/exit, chromosome segregation, and cytokinesis, with a few peripheral terms like osmotic stress response and VEGF signaling that may reflect broader signaling roles or annotation noise. Overall, the dominant theme is mitotic control and spindle/cytokinesis dynamics.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045736","count":4},{"id":"GO:0034501","count":4},{"id":"GO:0044878","count":3},{"id":"GO:1902846","count":3},{"id":"GO:0031031","count":3}]},{"hash":"38300911911027343","title":"Chondrocyte development and cartilage proteoglycan biosynthesis","description":"Proteins in this cluster are tied to chondrocyte development and cartilage formation, with multiple GO terms for chondroitin/dermatan sulfate proteoglycan biosynthesis and related UDP-sugar metabolism. The Hedgehog pathway component (smoothened signaling) and bone morphogenesis terms further anchor this to skeletal development and cartilage extracellular matrix production, despite some obsolete GO terms. This suggests a cohesive function in cartilage proteoglycan synthesis and chondrogenesis.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":3},{"id":"GO:0019276","count":3},{"id":"GO:0060349","count":3},{"id":"GO:0002063","count":3},{"id":"GO:0045880","count":3}]},{"hash":"1648466455284267181","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006747","count":1},{"id":"GO:1990966","count":1},{"id":"GO:0019350","count":1},{"id":"GO:0046444","count":1},{"id":"GO:0009611","count":1}]},{"hash":"860041319799442549","title":"Unknown","description":"The GO terms are scattered across stress responses (antibiotic, light, ethanol), a metabolic process (L-serine biosynthesis), and DNA repair (nucleotide-excision repair, DNA recombination), with no clear common function tying the proteins together. With no interactions (Edges: 0) to reinforce a shared pathway, there isn\u2019t a coherent theme to label this cluster beyond Unknown. ","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006564","count":2},{"id":"GO:1901291","count":1},{"id":"GO:0045471","count":1}]},{"hash":"1997680111412936938","title":"ER-Golgi Trafficking and Protein Retention","description":"Most of the top GO terms describe ER-to-Golgi transport, COPI-coated vesicles, and retention of proteins in the ER, pointing to a cohesive secretory pathway module focused on ER-Golgi trafficking and protein retention. Other terms like Wnt secretion and transcription regulation are less central and may reflect broader roles or annotation noise, but do not override the trafficking signal.","confidence":"High","size":5,"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:0061357","count":1},{"id":"GO:0006888","count":1}]},{"hash":"562220539078576484","title":"Developmental Signal Transduction","description":"The top GO terms point to regulation of signaling pathways (T cell receptor signaling, JNK cascade, serine phosphorylation) and developmental processes (axon extension, hippocampus development, beta selection), along with cytoskeletal and focal adhesion regulation. This suggests the proteins act as regulators of signaling that steer development and cell dynamics across immune and nervous system contexts.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":4},{"id":"GO:0045773","count":4},{"id":"GO:0046330","count":4},{"id":"GO:0031647","count":4},{"id":"GO:0031532","count":4}]},{"hash":"1433187022149739794","title":"Vestibular mechanosensation and synaptic organization","description":"The terms cluster around inner ear mechanosensation (equilibrium detection, stereocilium organization) and synaptic architecture (neuroligin clustering, synaptic vesicle clustering), with planar polarity context. This suggests proteins involved in vestibular hair cell function and neural synapse organization, justifying a combined label focused on vestibular mechanosensation and synaptic organization.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0097118","count":4},{"id":"GO:0050973","count":4},{"id":"GO:0060243","count":4},{"id":"GO:0032533","count":4},{"id":"GO:0060489","count":4}]},{"hash":"711721854094161156","title":"Neuronal adhesion and synapse assembly","description":"The top GO terms cluster around cell\u2013cell adhesion (homophilic and heterophilic) and synapse organization, including positive regulation of synapse assembly and neuroligin clustering at the postsynaptic membrane. This points to proteins involved in neuronal adhesion and postsynaptic organization, fitting nervous system development themes (e.g., Purkinje cell development). Some terms are broader or tangential, but the dominant signal is neuronal adhesion and synapse formation.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0051965","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0097118","count":1}]},{"hash":"2241415101276694173","title":"Plant metabolism and strigolactone signaling","description":"This cluster centers on plant-specific metabolic processes (biotin and methionine biosynthesis, lipid metabolism) and hormone-related responses, notably the cellular response to strigolactone and secondary shoot formation. While some terms are obsolete, the recurring plant metabolism and strigolactone signaling theme suggests a cohesive functional core tied to metabolism and hormone-regulated shoot development.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0009102","count":2},{"id":"GO:0097755","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0009086","count":2},{"id":"GO:0055114","count":2}]},{"hash":"833785831891889342","title":"Atrial cardiomyocyte electrophysiology and ion transport","description":"This cluster is dominated by GO terms related to atrial cardiac muscle cell membrane depolarization, resting membrane potential, and action potential regulation, plus ion transport (calcium and potassium) and cAMP signaling, pointing to electrophysiology and ion homeostasis in atrial cardiomyocytes. Some terms (e.g., outflow tract morphogenesis, CO2 detection) are less central but do not override the main theme of atrial electrophysiology and ion transport.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060371","count":5},{"id":"GO:0003031","count":5},{"id":"GO:0071651","count":5},{"id":"GO:1990573","count":5},{"id":"GO:0003151","count":5}]},{"hash":"562668416320270488","title":"Retinal neuron axon guidance and visual perception","description":"This cluster is dominated by GO terms related to the visual system and neural wiring, including retinal ganglion cell axon guidance, CNS projection neuron axonogenesis, and visual perception. Although a couple of terms (e.g., angiogenesis) are less directly tied, the strongest signals point to retinal/visual neuron development and axon pathfinding.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001525","count":5},{"id":"GO:0021952","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0045819","count":4},{"id":"GO:1901196","count":4}]},{"hash":"264635546176232856","title":"Nucleolar RNA Processing and Ribosome Export","description":"This set centers on nucleolar RNA processing and ribosome biogenesis, with terms for snoRNA processing, mRNA decay, and nuclear export of the ribosomal large subunit. Some unrelated terms (maltose transport, ER organization) may be noise or multifunctionality, but the core pattern fits nucleolar RNA metabolism and ribosome assembly.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015768","count":1},{"id":"GO:1904751","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0007029","count":1},{"id":"GO:0070370","count":1}]},{"hash":"1280993445126082758","title":"Calcium signaling and immune modulation","description":"The top GO terms cluster around calcium-dependent signaling (store-operated calcium channel activation, PLC activity) and immune modulation (mast cell activation, type I interferon production, IgE isotype switching), suggesting the proteins participate in calcium-mediated signaling that shapes immune responses. A few terms touch on development, indicating these proteins may have broader signaling roles beyond a single pathway.","confidence":"Medium","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032237","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0048295","count":5},{"id":"GO:1902951","count":5},{"id":"GO:0045931","count":5}]},{"hash":"1151644290587251600","title":"Unknown","description":"The top GO terms cover many unrelated domains: blood coagulation, visual perception, GPCR signaling, gastric acid secretion, astrocyte chemotaxis, inflammatory response, peptide response, cardiac morphogenesis, and serotonin regulation. There's no obvious unifying process or molecular function tying these proteins together, and with only 5 proteins and no observed interactions, it's not possible to assign a more specific label.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0010513","count":4},{"id":"GO:2000458","count":4},{"id":"GO:0001698","count":4}]},{"hash":"619364619052506605","title":"Unknown","description":"The top GO terms span a disjoint mix of sensory perception (pain, visual), secretion (saliva, gastric acid), thermogenesis/temperature response, coagulation, astrocyte chemotaxis, and inflammatory signaling, with no single cohesive function linking them. Given the lack of shared pathway or interaction signals (Edges: 0), this cluster does not map to a common biological theme.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":4},{"id":"GO:0002024","count":4},{"id":"GO:0046541","count":4},{"id":"GO:0071502","count":4},{"id":"GO:0007596","count":3}]},{"hash":"377077550346296043","title":"Nucleotide Metabolism and Biosynthesis","description":"The top GO terms span nucleotide turnover (purine catabolic and adenosine metabolism) and various biosynthetic pathways (melanin, very long-chain fatty acids, tetrahydrobiopterin, acetoin), plus phosphorylation/dephosphorylation. The lack of interactions suggests these proteins are involved in broad metabolic processes rather than a single, cohesive pathway, so a general metabolism-based label is most representative.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006195","count":2},{"id":"GO:0016311","count":2},{"id":"GO:0046085","count":2},{"id":"GO:0016310","count":2},{"id":"GO:0045150","count":1}]},{"hash":"1932343409425426165","title":"Ribosome Biogenesis and SSU Maturation","description":"The cluster is dominated by GO terms for ribosomal small subunit assembly, translation, and SSU-rRNA maturation/biogenesis, indicating proteins primarily participate in ribosome production and protein synthesis. A few terms related to development or transcription regulation appear but do not override the ribosome-focused signal.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000028","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0008283","count":1},{"id":"GO:0030154","count":1}]},{"hash":"855815975335199039","title":"Unknown","description":"The proteins show a mix of unrelated GO terms (mRNA processing, NOD2 signaling, calcium transport, endothelial proliferation, cardiac depolarization, meiotic recombination, etc.) with no shared, dominant function and no connections between them. This makes it impossible to assign a cohesive, representative label beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:2001275","count":1},{"id":"GO:0070431","count":1},{"id":"GO:0071651","count":1},{"id":"GO:0010845","count":1}]},{"hash":"273720163234747657","title":"MVB-mediated vesicle sorting to vacuole","description":"These proteins cluster around endosomal trafficking, multivesicular body assembly, and ubiquitin-dependent degradation via the MVB/vacuolar pathway, including endosome-to-vacuole transport and related recycling/exosomal processes. The core theme is endomembrane sorting and vacuolar degradation, with a few ancillary terms that are less central. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061635","count":2},{"id":"GO:0000742","count":2},{"id":"GO:0090351","count":2},{"id":"GO:0043328","count":2},{"id":"GO:0032456","count":2}]},{"hash":"1204656758842123200","title":"Neurodevelopment and Imaginal Wing Morphogenesis","description":"This cluster is driven by neural development signals (neurogenesis, neuron remodeling) and wing imaginal disc morphogenesis terms (wing disc development, imaginal disc-derived wing morphogenesis), with supporting cytoskeletal and trafficking processes (microtubule anchoring, nuclear migration along microtubules, ER-to-Golgi transport). Some terms like apoptotic process and spermatogenesis are less central, but the core theme appears to be neural development linked to wing morphogenesis.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0022008","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0007283","count":2},{"id":"GO:0006888","count":2},{"id":"GO:1900740","count":2}]},{"hash":"2260753123356846005","title":"Redox balance and stress signaling","description":"The GO terms cluster around redox regulation and stress responses, including glutathione metabolic process, glutathionylation, cell redox homeostasis, response to toxic substances, response to starvation, and L-ascorbic acid metabolism, suggesting a common theme of maintaining redox balance under stress. Additional terms related to calcium signaling and muscle contraction hint at coordinated cellular signaling under oxidative conditions, while DNA repair and platelet aggregation may reflect broader stress-associated processes. Overall, the dominant theme is redox homeostasis with connected stress-response pathways.","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":3},{"id":"GO:0042594","count":3},{"id":"GO:0019852","count":3},{"id":"GO:0014810","count":3},{"id":"GO:0006289","count":3}]},{"hash":"765021629820764713","title":"Developmental gene regulation and morphogenesis","description":"The GO terms point to developmental processes across tissues (blastocyst development, heart valve formation, goblet cell differentiation, and blood vessel morphogenesis) combined with transcriptional and chromatin regulation (histone acetylation/deacetylation, RNA Pol II\u2013mediated transcription, and miRNA transcription). This suggests a cluster of proteins involved in coordinating development via chromatin remodeling and transcriptional control, with a vascular/epithelial morphogenesis emphasis.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001824","count":4},{"id":"GO:0090241","count":4},{"id":"GO:0003199","count":4},{"id":"GO:0035155","count":4},{"id":"GO:1902262","count":4}]},{"hash":"1721108479660970545","title":"Ubiquitin-Dependent Protein Degradation","description":"The dominant GO terms are ubiquitin-dependent protein catabolic processes and protein ubiquitination, including ERAD, which together point to ubiquitin-proteasome\u2013mediated proteolysis. The other terms (regulation of JNK, I-kappaB phosphorylation, apoptosis, histone and Wnt receptor catabolism) fit within substrate turnover and signaling control typically governed by ubiquitination.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0016567","count":2},{"id":"GO:0046328","count":2},{"id":"GO:1903762","count":2}]},{"hash":"425925592144059083","title":"Nuclear signaling and cell-cycle control","description":"The top terms cluster around nucleus-focused regulation (nuclear receptor signaling, regulation of protein localization to nucleus, histone modification, rRNA processing) and growth control pathways (cell cycle, Hippo signaling, contact inhibition), with development-related terms also appearing. This suggests a nucleus-centered regulatory module coordinating gene expression, chromatin state, and proliferation; mitophagy adds some context but is not central to the main theme.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042921","count":4},{"id":"GO:1900180","count":4},{"id":"GO:0061734","count":4},{"id":"GO:2000232","count":4},{"id":"GO:0007049","count":4}]},{"hash":"1662711021729017477","title":"Epigenetic transcription regulation and ubiquitin processing","description":"This cluster centers on DNA-templated transcription and histone modification/deubiquitination signals, including K11- and K63-linked deubiquitination and ubiquitin recycling, suggesting a link between chromatin state and ubiquitin-mediated control of transcription and protein turnover.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0034729","count":4},{"id":"GO:0051568","count":4},{"id":"GO:0035871","count":2},{"id":"GO:1904293","count":2}]},{"hash":"589974347824281625","title":"Unknown","description":"The four proteins show a highly heterogeneous set of GO terms, including mitochondrial intermembrane space protein import, immune cytokine regulation (TNF and IL-6), Cajal body RNA localization, chaperone-related folding, ATP response, protein stabilization, and cell cycle. There is no single cohesive function or pathway that ties these terms together, so a specific functional label cannot be assigned beyond Unknown.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045041","count":4},{"id":"GO:1904469","count":4},{"id":"GO:0051086","count":4},{"id":"GO:0002842","count":4},{"id":"GO:0090666","count":4}]},{"hash":"937795287215471679","title":"Oxidative Stress Response Proteins","description":"The cluster\u2019s top GO terms indicate a shared emphasis on responding to hydrogen peroxide, redox/oxidation-reduction processes, and oxidative protein modifications, plus links to mitochondrial cytochrome complex assembly. Despite one term related to spermatogenesis, the predominant pattern points to redox biology and stress response, justifying a label centered on oxidative stress response.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0070301","count":4},{"id":"GO:0007283","count":3},{"id":"GO:0034101","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0018171","count":3}]},{"hash":"2232674337441890336","title":"Proteolysis and Protein Processing","description":"The cluster is dominated by GO terms for proteolysis (GO:0006508) and protein autoprocessing (GO:0016540), with digestion (GO:0007586) reinforcing a proteolytic theme. While other terms touch on hormone signaling or development, these proteolytic functions appear to be the most representative shared activity among the proteins. Confidence: Medium","confidence":"","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007586","count":2},{"id":"GO:0016540","count":2},{"id":"GO:0002018","count":2},{"id":"GO:0009627","count":2},{"id":"GO:0009755","count":2}]},{"hash":"1540738034348142396","title":"Neuronal development and synaptic organization","description":"The top GO terms point to neural development (axonogenesis, larval locomotory behavior, terminal button organization) and synaptic function (AMPA receptor clustering, synaptic transmission, cholinergic signaling), with additional RNA processing terms that support neuronal gene expression. This suggests a coherent theme around neural development and synapse formation/ regulation, despite some auxiliary processes. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048936","count":1},{"id":"GO:0033120","count":1},{"id":"GO:0006397","count":1},{"id":"GO:0008345","count":1},{"id":"GO:0007019","count":1}]},{"hash":"1859358875474376347","title":"Nucleotide and cofactor biosynthesis","description":"The GO terms cluster around nucleotide salvage/phosphorylation (AMP salvage, ADP/monophosphate phosphorylation, purine interconversion) and cofactor biosynthesis (NAD+, CoA), pointing to nucleotide metabolism and cofactor production as the shared function. Tissue development terms (liver/brain) seem incidental to the core metabolic theme.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0044209","count":3},{"id":"GO:0001889","count":3},{"id":"GO:0009435","count":3},{"id":"GO:0046041","count":3},{"id":"GO:0006172","count":3}]},{"hash":"2164278563223920881","title":"Mitotic Transcription Regulation in Mammary Development","description":"The GO terms point to transcriptional control (DNA-templated transcription, RNA Pol II regulation) together with clear mitotic cell cycle signals (G2/M transition, histone H3-S10 phosphorylation, spindle pole separation), plus developmental/lactation roles specific to mammary tissue (mammary gland development, alveolus formation, lactation, epithelial differentiation). This mix suggests proteins coordinating transcription with cell division in mammary development, rather than a single pathway; the outlier viral transcription term is less consistent but does not override the dominant theme. ","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:2000775","count":3},{"id":"GO:0000086","count":3},{"id":"GO:0019085","count":3},{"id":"GO:0000122","count":3}]},{"hash":"965964467091446619","title":"Nuclear signaling and cell-cycle regulation","description":"This cluster is dominated by nuclear-related processes: nuclear receptor-mediated glucocorticoid signaling, regulation of protein localization to the nucleus, rRNA processing, and chromatin-related modification, with additional terms pointing to cell proliferation and growth control such as cell cycle, Hippo signaling, and contact inhibition. Developmental and morphogenesis terms (placenta morphogenesis, bud elongation) suggest broader growth regulation, while mitophagy adds a cellular quality-control angle. Overall, the terms cohere around nucleus-centric signaling and regulation of growth and division.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0042921","count":4},{"id":"GO:1900180","count":4},{"id":"GO:0061734","count":4},{"id":"GO:2000232","count":4},{"id":"GO:0007049","count":4}]},{"hash":"1291720273784809310","title":"Calcium-Regulated Cardiac Contraction","description":"The top GO terms point to regulation of cardiac muscle contraction via calcium release and mitochondrial calcium import, indicating a theme of calcium signaling controlling heart muscle function. Additional terms related to cytoskeletal organization and heart morphogenesis support the structural and developmental aspects but do not overturn the central calcium-contraction focus. Some terms appear peripheral or less specific, such as visual perception, which may reflect broader or misannotated associations.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010881","count":4},{"id":"GO:0016061","count":4},{"id":"GO:0036444","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0048855","count":4}]},{"hash":"772084136422985203","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0048568","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0042273","count":2},{"id":"GO:0000398","count":2}]},{"hash":"1460352692587562892","title":"Immune activation and leukocyte adhesion","description":"These proteins show a clear pattern of innate immune and inflammatory functions: terms for leukocyte tethering/rolling, phagocytosis recognition, and regulation of immune cell activities (NK cell chemotaxis, arachidonate secretion, platelet activation, and responses to fungal molecules). A few kidney development terms appear but do not override the dominant immune-related signals, suggesting the cluster mainly reflects immune activation and leukocyte-platelet interactions.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090238","count":3},{"id":"GO:2000502","count":3},{"id":"GO:0060355","count":3},{"id":"GO:0010572","count":3},{"id":"GO:0050901","count":3}]},{"hash":"2192404033052039948","title":"Neural development and axon guidance","description":"The top GO terms center on neural development and axon guidance, including CNS projection neuron axonogenesis, retinal ganglion cell axon guidance, and visual perception, suggesting a shared function in neural pathway formation. Some terms about placenta/thymus development appear, but the strongest consistent theme is neural development and axon guidance.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000187","count":4},{"id":"GO:0001890","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0048538","count":4},{"id":"GO:0021952","count":3}]},{"hash":"1178676600759095616","title":"Sensory-neural morphogenesis and mechanosensation","description":"Based on GO terms, the proteins cluster around formation and organization of sensory and neural structures and mechanosensory detection: inner ear stereocilium organization, equilibrium detection, neuroligin clustering at postsynaptic membranes, corticospinal tract morphogenesis, and semicircular canal morphogenesis. A few terms about heart and follicle cell microvilli are present but do not override the dominant sensory-neural theme.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021957","count":3},{"id":"GO:0048752","count":2},{"id":"GO:0097118","count":2},{"id":"GO:0050973","count":2},{"id":"GO:0060243","count":2}]},{"hash":"336280825060376373","title":"Unknown","description":"The top GO terms are highly diverse, ranging from mitochondrial calcium transport to visual perception and various developmental processes, with no single biological theme that ties the proteins together. Also, there are no edges, so there is no network structure to support a shared function.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036444","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0048855","count":2},{"id":"GO:0032925","count":2},{"id":"GO:0051764","count":2}]},{"hash":"241401987414457541","title":"Ribosome Biogenesis and Translation","description":"These proteins are clustered around ribosome production and protein synthesis: the top GO terms are ribosome biogenesis, translation, ribosomal small subunit biogenesis/assembly, and nucleolus organization, all pointing to ribosome assembly and function. A few unrelated terms (Notch signaling, monocyte chemotaxis, respiratory burst regulation) appear sparsely and likely reflect annotation noise rather than core cluster function. Overall, the dominant theme is ribosome biogenesis and translation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0007000","count":1},{"id":"GO:0042274","count":1},{"id":"GO:0060265","count":1}]},{"hash":"269743319646438690","title":"Plant Flavonoid Biosynthesis","description":"Based on the top GO terms, two entries denote biosynthesis of flavonoid glucosides (cyanidin 3-O-glucoside and kaempferol O-glucoside), which are hallmark steps in plant flavonoid production. The inclusion of terms like cellular response to genistein and cell wall organization supports a plant-context functional grouping, while other metabolism terms align with general cellular processes that accompany secondary metabolite pathways. Overall, the proteins appear to co-cluster around flavonoid biosynthesis and related plant growth processes.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033485","count":2},{"id":"GO:0006711","count":2},{"id":"GO:0033330","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0016999","count":2}]},{"hash":"1339639143542778213","title":"Actin Cytoskeleton Remodeling and PDGF Signaling","description":"The strongest terms point to actin filament polymerization and crosslink formation, indicating cytoskeletal dynamics, with a PDGF receptor signaling pathway term suggesting growth-factor\u2013driven remodeling. This combination supports a label centered on actin remodeling regulated by signaling pathways, reflecting the cluster's likely functional theme.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030041","count":4},{"id":"GO:1903764","count":4},{"id":"GO:1902951","count":4},{"id":"GO:0060670","count":4},{"id":"GO:0010863","count":4}]},{"hash":"194928152214420616","title":"RNA metabolism and translation","description":"The cluster is enriched for translation (GO:0006412) and RNA processing terms (rRNA and tRNA processing), with additional transcription-related GO terms, suggesting a cohesive role in RNA metabolism and general gene expression. Some terms may reflect annotation noise, but the dominant themes point to RNA processing and protein synthesis regulation.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0097394","count":2},{"id":"GO:0031564","count":2},{"id":"GO:0006367","count":2},{"id":"GO:2000676","count":2}]},{"hash":"804947149683391646","title":"Nuclear transport and cell-cycle regulation in development","description":"The terms center on nuclear import and nuclear-associated processes (NLS-bearing protein import into nucleus, nucleus-vacuole junction), cell-cycle regulation, and several developmental morphogenesis terms (embryonic limb joint morphogenesis, metanephros morphogenesis, oocyte localization). This suggests a theme of nuclear signaling linked to developmental regulation and cell-cycle control.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032471","count":4},{"id":"GO:0070602","count":4},{"id":"GO:0006607","count":4},{"id":"GO:0061324","count":4},{"id":"GO:0036023","count":4}]},{"hash":"2110275772120104532","title":"Developmental Regulation and Stress Signaling","description":"The cluster is enriched for developmental GO terms (skeletal system development, neural tube closure, forebrain and multicellular development) and core regulatory processes (DNA-templated transcription, mitotic cell cycle, GTPase signaling), with additional stress-related terms (ER stress\u2013induced apoptosis, cadmium response, defense to Gram-positive bacteria), pointing to developmental regulators with broad signaling and stress-response roles.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001501","count":4},{"id":"GO:0001843","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0050830","count":4}]},{"hash":"1302439691759075625","title":"Heart and vascular development","description":"The GO terms cluster around endothelial differentiation, coronary vasculature development, and cardiac morphogenesis (venous endothelial differentiation; cardiac right atrium morphogenesis; coronary vasculature development). Regulators of heart formation such as Notch signaling in cardiac progenitors and BMP signaling are present, supporting a cardiovascular developmental theme. Actin cytoskeleton dynamics (Arp2/3 nucleation; actin cortical patch assembly) align with morphogenesis and cell movement seen in heart/vessel formation. Some terms (mitochondrion inheritance, growth plate/cartilage development) are less directly tied but may reflect broader developmental processes co-occurring with tissue morphogenesis. Confidence: Medium","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060843","count":2},{"id":"GO:0003270","count":2},{"id":"GO:0003213","count":2},{"id":"GO:0000001","count":1},{"id":"GO:0000147","count":1}]},{"hash":"1963615496552860585","title":"Unknown","description":"The GO terms are highly diverse, spanning development (skeletal system development, gastrulation), chromatin modification, nuclear transport, cilium assembly, apoptosis, splicing, and cell division regulation, with no single unifying function for these proteins. Therefore it's not possible to assign a cohesive, intuitive label to this cluster.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":1},{"id":"GO:0043966","count":1},{"id":"GO:0007369","count":1},{"id":"GO:1904668","count":1},{"id":"GO:0031081","count":1}]},{"hash":"1588944279015163509","title":"Unknown","description":"The GO terms are broad and inconsistent, spanning glucose import regulation, NOD2 signaling, CCL5 production, mitotic cohesion, NF-kappaB sequestration, actin assembly, ubiquitination, muscle stretch response, chloroplast protein import, and ADP-ribosylation, with no clear shared pathway. With no edges connecting the proteins and only heterogeneous terms, there isn\u2019t a defensible, specific label for this cluster.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001275","count":2},{"id":"GO:0070431","count":2},{"id":"GO:0071651","count":2},{"id":"GO:1904908","count":2},{"id":"GO:0007253","count":2}]},{"hash":"122279249851998412","title":"Ectodermal and neural development","description":"The top GO terms cluster around development of nervous system and ectoderm-derived structures (nervous system development, retina morphogenesis, placode and epidermal-related processes, cortical cell migration, keratinocyte proliferation), suggesting a cohesive role in embryonic ectodermal and neural morphogenesis. While some terms pertain to broader embryonic patterning, the dominant theme centers on neural/epidermal lineage development and morphogenesis.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0060513","count":2},{"id":"GO:0048864","count":2},{"id":"GO:0060059","count":2},{"id":"GO:0071696","count":2}]},{"hash":"1362646280472907591","title":"Wnt-Driven Development and Cell Polarity","description":"The top GO terms show a clear emphasis on canonical Wnt signaling and developmental regulation, with related processes such as neuron migration/survival, heart contraction, neuromuscular balance, and maintenance of cell polarity. This suggests the proteins act as a cohesive module coordinating signaling pathways that drive development and tissue organization, despite some broader processes also appearing. ","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0010796","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0043524","count":4},{"id":"GO:0043525","count":4}]},{"hash":"569155622261842884","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050709","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0051036","count":4},{"id":"GO:0031291","count":4},{"id":"GO:1905608","count":4}]},{"hash":"865302429109522578","title":"Nuclear import and chromatin organization","description":"The top GO terms strongly point to nuclear transport (NLS-bearing and ribosomal protein import into the nucleus, and an obsolete import term) and chromatin-related processes (meiotic sister chromatid cohesion, centromeric). Although some terms relate to apoptosis or lipid metabolism, the clearest shared function among the prominent terms is nuclear transport coupled with chromatin organization, making this a concise, representative label for the cluster. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051754","count":3},{"id":"GO:0097711","count":2},{"id":"GO:0060561","count":2},{"id":"GO:0006607","count":2},{"id":"GO:0006610","count":2}]},{"hash":"97475067397531407","title":"RNA silencing and translational regulation","description":"The dominant GO terms point to post-transcriptional control of gene expression, including miRNA/ncRNA\u2013mediated silencing, regulation of mRNA splicing, mRNA stabilization, and various steps in translation initiation and reinitiation.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0035278","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0048025","count":3},{"id":"GO:0000381","count":3}]},{"hash":"406708998174961700","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046825","count":2},{"id":"GO:0007175","count":2},{"id":"GO:0000077","count":2},{"id":"GO:0034975","count":1},{"id":"GO:0006260","count":1}]},{"hash":"1126416243503332904","title":"Leukocyte chemotaxis and NF-\u03baB signaling","description":"This cluster shows strong signals for immune cell movement and inflammatory signaling, with GO terms for neutrophil and eosinophil chemotaxis, mononuclear cell migration, and NF-\u03baB pathway regulation. While a few terms pertain to differentiation in other lineages (myoblast, adipocyte) or stress responses, the dominant pattern points to leukocyte trafficking and inflammatory signaling, suggesting roles in immune cell recruitment and activation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045445","count":4},{"id":"GO:0030593","count":4},{"id":"GO:0002667","count":3},{"id":"GO:0046598","count":3},{"id":"GO:0071677","count":3}]},{"hash":"1976693438860817106","title":"DNA replication and chromatin organization","description":"The cluster shows strong representation of DNA replication terms (mitotic, premeiotic, DNA replication) and chromatin-related processes (subtelomeric heterochromatin formation, silent mating-type cassette heterochromatin formation), suggesting a core theme around genome replication and chromatin maintenance. Some terms (cilium movement, gas vesicle organization, root meristem growth) are less directly connected, likely reflecting broader annotations, but the dominant signal supports a replication/chromatin function.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":3},{"id":"GO:0003341","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006279","count":2},{"id":"GO:0007307","count":2}]},{"hash":"1968074448346279669","title":"Immune signaling and lymphocyte differentiation","description":"These proteins are linked to immune cell signaling and development. The top GO terms include ephrin receptor signaling and T cell receptor signaling, along with B cell differentiation and hemopoiesis, pointing to immune cell signaling and maturation. While some terms (Wnt, Hippo) are broader developmental pathways, their association here likely reflects coordination with immune signaling and lymphocyte differentiation, supported by endocytosis and actin remodeling terms that facilitate receptor signaling. Confidence in this label is High.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048013","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0072584","count":2}]},{"hash":"838968532949890021","title":"Carboxylate metabolism and CO2 fixation pathways","description":"These proteins are primarily linked to organic acid metabolism: two terms for carnitine and oxalate catabolism and a carbon fixation pathway via the 3-hydroxypropionate cycle. This points to a metabolic cluster centered on degradation and assimilation of carboxylates and CO2 rather than signaling or developmental processes, though some unrelated GO terms appear sporadically as noise. ","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042413","count":2},{"id":"GO:0043427","count":2},{"id":"GO:0033611","count":2},{"id":"GO:2001269","count":1},{"id":"GO:0001700","count":1}]},{"hash":"56264898248087741","title":"Unknown","description":"Top terms include steroid hormone response, immune and inflammatory responses, reproduction-related processes, and tissue-specific functions with no clear unity; thus no singular, representative label can be assigned to this cluster.","confidence":"","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1903496","count":3},{"id":"GO:1903494","count":3},{"id":"GO:0019730","count":3},{"id":"GO:0005989","count":3},{"id":"GO:0006954","count":3}]},{"hash":"1541513814260304431","title":"Unknown","description":"The GO terms span diverse categories: metabolism (biotin biosynthesis, amino acid catabolic and oxaloacetate metabolic processes, fatty acid transport), transcription (DNA-templated transcription), and regulatory signaling/defense (Notch signaling, systemic acquired resistance via salicylic acid). There isn\u2019t a clear, single biological theme that ties these terms together for this small protein set, suggesting the cluster does not have a cohesive, well-defined function label.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009102","count":2},{"id":"GO:0042853","count":2},{"id":"GO:0006107","count":2},{"id":"GO:0015908","count":2},{"id":"GO:0019441","count":2}]},{"hash":"2274083162007997708","title":"Innate immune signaling regulation","description":"The terms point mainly to regulation of innate immune responses, including cellular response to lipopolysaccharide and negative regulation of TLR signaling, IL-8, IFN-\u03b2, TNF, and NF-\u03baB activity, suggesting a cluster of proteins that modulate inflammatory signaling and immune cell development (hemocyte differentiation). The presence of a spliceosome-related term hints at possible multifunctional roles, but the dominant theme is suppression or fine-tuning of innate immune pathways.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0042386","count":1},{"id":"GO:0031665","count":1},{"id":"GO:0034122","count":1}]},{"hash":"1441447642097222442","title":"Membrane Ion Transport","description":"The Top Terms are dominated by ion transport across membranes (protons, potassium, zinc), indicating a shared function as membrane ion transporters. Other terms (testosterone response, serine biosynthesis, etc.) are less directly connected and could reflect secondary roles or annotation noise. Overall, a membrane ion transport theme best represents the cluster.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":3},{"id":"GO:0097755","count":2},{"id":"GO:0033574","count":2},{"id":"GO:0097623","count":2},{"id":"GO:1990573","count":2}]},{"hash":"1596143406324257611","title":"Ubiquitin-Dependent Proteolysis","description":"Most terms describe ubiquitination and ubiquitin-dependent protein turnover (autoubiquitination, K48-linked ubiquitination, and ubiquitin-dependent proteolysis), along with ubiquitin-driven degradation pathways (ERAD-related). While there are a few outliers referencing Wnt receptor turnover and ethanol response, the recurring motif is ubiquitin tagging leading to proteasomal degradation, with incidental references to peroxisomal import and organ growth. Overall, the cluster centers on ubiquitin-mediated proteolysis.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045471","count":3},{"id":"GO:0038018","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0042787","count":3},{"id":"GO:1900095","count":3}]},{"hash":"2082520411174170247","title":"Membrane Ion Transport","description":"The GO terms show a clear focus on transporting ions across membranes, including potassium (export/import across the plasma membrane), zinc (transmembrane transport), and copper export, pointing to ion gradient maintenance by transporter proteins. Additional terms about ATP biosynthesis and serine biosynthesis suggest accompanying metabolic roles, while a few items (e.g., testosterone response, obsolete terms) appear less connected. Overall, the cluster appears best described as membrane ion transport with supportive metabolic context.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097755","count":4},{"id":"GO:0033574","count":4},{"id":"GO:0097623","count":4},{"id":"GO:1990573","count":4},{"id":"GO:1903249","count":4}]},{"hash":"105057378036218742","title":"Actin-driven morphogenesis","description":"The Top Terms cluster around actin cytoskeleton dynamics (filament polymerization, nucleation, and movement) and developmental morphogenetic processes (neural tube closure, head involution, germ-band shortening), indicating a cohesive theme of actin-mediated cellular remodeling during development. A few outliers (e.g., regulation of T cell antigen processing) appear incidental, but the dominant signal is actin-driven morphogenesis.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0002625","count":2},{"id":"GO:0048875","count":2},{"id":"GO:1903526","count":2}]},{"hash":"2160627712937427770","title":"Glycosylation and sugar metabolism","description":"The top GO terms emphasize GPI anchor biosynthesis and protein glycosylation, plus several carbohydrate metabolic processes (glucose, glycogen, sucrose) and related biosynthesis steps, pointing to glycoprotein processing and sugar metabolism as the core theme. Some terms like feeding behavior or response to flooding may reflect annotation noise, but the dominant pattern supports glycosylation and carbohydrate metabolism as the cluster's function.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007631","count":2},{"id":"GO:0009413","count":2},{"id":"GO:0006506","count":2},{"id":"GO:0097502","count":2},{"id":"GO:0005978","count":2}]},{"hash":"1897333373899155362","title":"Apoptosis and Innate Immune Regulation","description":"GO terms point to regulation of apoptotic processes (extrinsic and intrinsic) and innate immune signaling (innate immunity, LPS-mediated pathways), with additional notes on immune regulation (e.g., T cell proliferation) and organ growth. A few terms relate to chromatin/DNA regulation (X chromosome inactivation, histone turnover), which are less central but may reflect nuclear roles of these proteins. Overall, the cluster centers on apoptosis control and immune signaling.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042981","count":1},{"id":"GO:0046007","count":1},{"id":"GO:0009048","count":1},{"id":"GO:0036205","count":1},{"id":"GO:1900095","count":1}]},{"hash":"1618180642640003595","title":"RNA processing and RNA silencing regulators","description":"The dominant GO terms point to RNA processing activities, including siRNA and miRNA processing, suggesting members of RNA interference machinery. Ubiquitination-related terms imply post-translational regulation of these factors, and the negative regulation of RIG-I signaling aligns with RNA sensing and immune-modulatory roles. A few terms (adaptive immune response, Wnt signaling) are less representative. Overall, the cluster seems to group RNA processing and RNA silencing regulators, with ubiquitin-mediated regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":1},{"id":"GO:0039536","count":1},{"id":"GO:0051865","count":1},{"id":"GO:0090263","count":1},{"id":"GO:0002250","count":1}]},{"hash":"2293707139924523842","title":"Antiviral host response and antigen presentation","description":"The top GO terms point to host-virus interactions and immune-related processes: regulation of viral entry and intracellular viral transport, protein regulation via autoubiquitination, MHC class I biosynthesis, and NF-kappaB signaling, all of which are central to antiviral responses and antigen presentation. While some terms are obsolete or tangential (e.g., circadian entrainment, SMAD phosphorylation), the dominant theme is host defense and immune communication in the context of viral processes.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:1903762","count":4},{"id":"GO:0051865","count":4},{"id":"GO:1901253","count":4},{"id":"GO:0046598","count":3},{"id":"GO:0001778","count":3}]},{"hash":"436167799977670596","title":"Neural development and sensory perception","description":"The terms cluster around nervous system development and sensory functions (peripheral nervous system neuron development, cerebellum development, visceral motor neuron differentiation, visual perception), with some broader embryonic development annotations. This suggests a cohesive theme of neurodevelopment and sensory processes, despite some less-specific terms.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0090009","count":4},{"id":"GO:0048935","count":4},{"id":"GO:0007601","count":3},{"id":"GO:0035847","count":3}]},{"hash":"1510860508225574617","title":"Chromatin-based transcriptional repression","description":"The top GO terms cluster around chromatin organization, nucleosome assembly, and negative regulation of transcription by RNA polymerase II, pointing to a set of proteins involved in chromatin remodeling and suppression of gene expression. A few other terms appear less related or obsolete, but the dominant theme supports chromatin-mediated transcriptional control.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0010216","count":2},{"id":"GO:1901536","count":2},{"id":"GO:0006334","count":2},{"id":"GO:0007289","count":1}]},{"hash":"2013758111369263647","title":"Immune-vascular adhesion and development","description":"These proteins show enrichment for immune-related (complement activation) and vascular/hemostatic (blood coagulation, VEGF signaling regulation, LDL clearance) terms, along with cell\u2013cell adhesion and junction assembly. The common thread appears to be immune\u2013vascular interfaces and barrier-associated adhesion, with some developmental terms (eye morphogenesis, brown fat differentiation) likely reflecting broader roles in development. Overall, they cluster around immune-vascular adhesion and integrity.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":2},{"id":"GO:0090528","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0034383","count":1},{"id":"GO:0007596","count":1}]},{"hash":"1934021360984497020","title":"Multi-Tissue Organogenesis","description":"The GO terms are all about development across various tissues and organs (palate, pancreas, cerebellum, uterus, retina, limb patterning, etc.), rather than a single, unified function. This suggests the proteins in this cluster broadly participate in embryonic tissue and organ formation across multiple lineages, rather than a specific pathway. ","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":2},{"id":"GO:0007601","count":1},{"id":"GO:0035847","count":1},{"id":"GO:0031018","count":1},{"id":"GO:0072095","count":1}]},{"hash":"1631283122841105705","title":"Unknown","description":"The terms include vitellogenesis, blastocyst development, heart valve morphogenesis, transcriptional regulation, histone modification, inflammatory response, and miRNA transcription, with no single shared function evident across the four proteins.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007296","count":2},{"id":"GO:0001824","count":1},{"id":"GO:0090241","count":1},{"id":"GO:0003199","count":1},{"id":"GO:1902262","count":1}]},{"hash":"2270083760379056222","title":"Embryonic heart and vascular development","description":"The top GO terms cluster around developmental and morphogenetic processes in the embryo, especially heart-related development (blastocyst development, endocardial cushion to mesenchymal transition for heart valve formation) and blood vessel morphogenesis, with associated regulation of transcription and inflammatory responses. Though the set includes regulatory and inflammatory terms, the dominant theme is embryonic development and cardiovascular morphogenesis, justifying a label focused on heart and vascular development. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001824","count":3},{"id":"GO:0090241","count":3},{"id":"GO:0003199","count":3},{"id":"GO:1902262","count":3},{"id":"GO:0035155","count":3}]},{"hash":"406936655442938993","title":"Embryonic Development Across Tissues","description":"The GO terms indicate developmental roles across multiple tissues (muscle, gland, immune, glial, cartilage, placenta, endocrine organs), pointing to a general tissue differentiation/organogenesis theme rather than a single pathway.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045662","count":2},{"id":"GO:0061153","count":2},{"id":"GO:0048298","count":2},{"id":"GO:0014009","count":2},{"id":"GO:0060536","count":1}]},{"hash":"1525884433133621337","title":"RNA processing and transcriptional regulation","description":"This cluster centers on RNA maturation and transcription control, with GO terms for rRNA processing, tRNA methylation, protein methylation, and negative regulation of transcription by RNA polymerase II. While some developmental terms appear, the core signals point to regulation of gene expression at RNA processing and transcriptional levels, suggesting a cohesive theme among the proteins.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006364","count":2},{"id":"GO:0009236","count":2},{"id":"GO:0006479","count":2},{"id":"GO:0030488","count":2},{"id":"GO:0001824","count":2}]},{"hash":"1244424243520385789","title":"Embryonic and organ morphogenesis","description":"The GO terms point to morphogenesis and development across multiple tissues (heart, eye, hindlimb, placenta, gonads, muscle, prostate) rather than a single tissue-specific function, indicating a broad developmental/morphogenetic role for this cluster.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0003148","count":3},{"id":"GO:0043010","count":3},{"id":"GO:0021986","count":3},{"id":"GO:0001890","count":3},{"id":"GO:0008584","count":3}]},{"hash":"1370925073729944653","title":"N-terminal peptide methylation","description":"Most top GO terms are about methylation of the N-terminus (N-terminal peptidyl-alanine/serine/glycine methylation, including dimethylation and trimethylation). This points to a shared function related to N-terminal methylation or methyltransferase activity, despite other unrelated biosynthetic terms appearing in the list. Therefore, the cluster is best described as N-terminal peptide methylation. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032259","count":1},{"id":"GO:0018012","count":1},{"id":"GO:1901771","count":1},{"id":"GO:0018013","count":1},{"id":"GO:0035573","count":1}]},{"hash":"1257421706478512957","title":"RNA and protein methylation","description":"The GO terms center on methylation processes across RNA species (rRNA, tRNA, mRNA capping) and protein methylation events (peptidyl-arginine, N-terminal methylation), indicating a cohesive theme of methylation/modification. While a few terms relate to biosynthesis or stress responses, the dominant pattern supports a methylation-focused function.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006744","count":1},{"id":"GO:0009102","count":1},{"id":"GO:0070476","count":1},{"id":"GO:0006370","count":1},{"id":"GO:0009877","count":1}]},{"hash":"2302225257595054928","title":"Unknown","description":"The top GO terms span redox homeostasis, signaling, xenobiotic response, apoptosis, DNA recombination, and mRNA stability, with no clear, shared biological process tying the four proteins together; several terms are also obsolete, indicating a lack of a coherent functional theme to assign a specific label. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":3},{"id":"GO:2001153","count":2},{"id":"GO:0014912","count":2},{"id":"GO:1903507","count":2},{"id":"GO:0071320","count":2}]},{"hash":"11703244026229240","title":"Unknown","description":"The top GO terms span diverse, unrelated processes (Wnt signaling, blood coagulation, digestion, transcriptional regulation, chemokine/IL-8 regulation, defense against fungi, fibrinolysis) with no clear single function linking all four proteins. The lack of inter-protein connections (edges/triangles) also supports an inability to define a cohesive, representative function for this cluster.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":4},{"id":"GO:0007596","count":3},{"id":"GO:0007586","count":3},{"id":"GO:0070684","count":3},{"id":"GO:0000122","count":3}]},{"hash":"1611634687483306478","title":"Carbohydrate catabolic pathways","description":"This cluster centers on multiple sugar- and sugar-acid catabolic processes (D-gluconate, glucuronate, arabinose, fucose, glycerol, xylulose, rhamnose) and carbohydrate phosphorylation, pointing to enzymes involved in carbohydrate degradation. A couple terms (quorum sensing, IL-13 response) seem peripheral or noisy relative to the dominant sugar-catabolism theme, but the core signal supports a carbohydrate catabolic label.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019521","count":1},{"id":"GO:0009372","count":1},{"id":"GO:0019640","count":1},{"id":"GO:0019569","count":1},{"id":"GO:0046835","count":1}]},{"hash":"881235518180609381","title":"Cofactor and Vitamin Metabolism","description":"These proteins show GO terms related to biosynthesis and metabolism of cofactors and vitamins (thiamine, pantothenate/CoA, tetrahydromethanopterin, nicotinamide nucleotides), with additional terms like mRNA decapping, sporulation, and nitric oxide signaling that may reflect broader roles or annotation noise.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1901285","count":1},{"id":"GO:0015941","count":1},{"id":"GO:0015937","count":1},{"id":"GO:0030435","count":1},{"id":"GO:0046496","count":1}]},{"hash":"1867559065601593977","title":"Nervous System Sensory Perception and Development","description":"The top GO terms point to neural functions, with sensory perception (pain and vision) and CNS neuron axonogenesis suggesting a neural development theme. While immune-related terms appear (macrophage activation, T cell homeostasis), they are less represented, so the dominant signal seems to be nervous system-related functions rather than immunity. The label aims to reflect this primary theme, acknowledging some noise from broader developmental and structural terms.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0043029","count":4},{"id":"GO:0021952","count":2}]},{"hash":"2269456609883752742","title":"Cerebellar glial development and innate immune signaling","description":"This cluster centers on glial lineage genes, with terms like Bergmann glial cell differentiation and oligodendrocyte progenitor proliferation indicating cerebellar glia development. Additional terms point to innate immune pathways (TLR9 signaling and interferon-beta production) and other growth factor signaling (PDGF and HGF receptor pathways), suggesting a link between glial maturation and CNS immune signaling.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2001275","count":4},{"id":"GO:0071225","count":4},{"id":"GO:1902237","count":4},{"id":"GO:1902202","count":4},{"id":"GO:0035791","count":4}]},{"hash":"1175882722929664231","title":"DNA Replication and Repair","description":"These proteins cluster around core genome maintenance processes: nucleotide-excision repair, translesion synthesis (both error-prone and error-free), DNA replication and primer synthesis, UV-response, and even gene conversion in immunoglobulins. Despite zero network edges in this cluster, the shared GO terms point to a common theme of DNA damage response and replication fidelity.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006297","count":1},{"id":"GO:0042276","count":1},{"id":"GO:0002206","count":1},{"id":"GO:0071494","count":1},{"id":"GO:0070987","count":1}]},{"hash":"593760590585786777","title":"Mitochondrial dynamics and vesicle trafficking","description":"This cluster centers on mitochondrial remodeling (fragmentation, membrane organization, cytochrome c regulation) and vesicle trafficking processes (clathrin-mediated endocytosis, synaptic vesicle recycling, Golgi regulation), suggesting a theme of intracellular membrane dynamics that links mitochondria with endocytic and secretory pathways.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0043653","count":3},{"id":"GO:0002181","count":3},{"id":"GO:1903423","count":3},{"id":"GO:1903358","count":3},{"id":"GO:0070584","count":3}]},{"hash":"124503950686418050","title":"Actin Cytoskeleton Remodeling and Adhesion","description":"This cluster centers on actin cytoskeleton dynamics and cell\u2013substrate interactions, with GO terms for actin crosslinking, filopodium and ruffle assembly, and positive regulation of cell spreading. It also involves small GTPase\u2013mediated signaling and regulation, which coordinate actin remodeling and adhesion; the heart development term hints at tissue-specific roles but does not override the shared theme of actin-driven morphogenesis and adhesion. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051764","count":3},{"id":"GO:0046847","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0097178","count":3},{"id":"GO:0007507","count":3}]},{"hash":"429338720051965571","title":"Ribosome Large Subunit Biogenesis","description":"The GO terms cluster around maturation of the LSU rRNA, large subunit assembly and preribosome export, indicating a core function in ribosome biogenesis, despite a few unrelated terms present. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000463","count":1},{"id":"GO:0000466","count":1},{"id":"GO:0000027","count":1},{"id":"GO:1902626","count":1},{"id":"GO:0000055","count":1}]},{"hash":"1318144703448259004","title":"Cytoskeleton organization and cell polarity","description":"This cluster centers on cytoskeletal remodeling and cell-shape control, as reflected by terms like actin cytoskeleton regulation, Rho signaling, spindle assembly, and establishment/maintenance of cell polarity. The inclusion of pathways such as Wnt and thrombin receptor signaling suggests broader signaling crosstalk that ties cytoskeletal dynamics to division and morphology. The presence of endocytic regulation also aligns with cytoskeletal involvement in membrane traffic, reinforcing a cohesive theme around cytoskeletal dynamics and cell polarity.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035508","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0070493","count":2},{"id":"GO:0035023","count":2}]},{"hash":"203802298416779058","title":"ER-Golgi-Endosome vesicle trafficking","description":"This cluster centers on intracellular vesicle trafficking within the endomembrane system, with frequent GO terms for vesicle docking and fusion, endocytic recycling, retrograde transport from endosomes to the Golgi, Golgi organization, and ER targeting. These terms together point to coordinated transport among the ER, Golgi, and endosomes.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048278","count":1},{"id":"GO:0006906","count":1},{"id":"GO:0032456","count":1},{"id":"GO:0042147","count":1},{"id":"GO:0006886","count":1}]},{"hash":"455365555388751973","title":"Neuronal differentiation and axonogenesis","description":"The Top Terms are dominated by neural development processes\u2014axonogenesis, neuron differentiation, interneuron specification, and Purkinje cell differentiation\u2014along with actomyosin structure organization that supports neurite outgrowth. A couple of terms touch non-neural tissues (uterine epithelium development, pole plasm localization), but the strongest and most frequent signals point to neuronal development and axon formation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031032","count":2},{"id":"GO:0048936","count":2},{"id":"GO:0032458","count":2},{"id":"GO:0021526","count":2},{"id":"GO:0021521","count":2}]},{"hash":"1249297426867302198","title":"ER-Golgi trafficking and Wnt secretion","description":"The top GO terms cluster around ER-to-Golgi transport, COPI coating, ER lumen retention, and regulation of ER exit, with a notable term for Wnt protein secretion. This points to a shared function in handling Wnt cargo through the early secretory pathway, influencing secretion and signaling. The developmental axis terms likely reflect contexts where Wnt signaling governs embryonic patterning, but the core theme remains ER-Golgi trafficking and secretion regulation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061357","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0048205","count":1},{"id":"GO:0032525","count":1},{"id":"GO:0006621","count":1}]},{"hash":"1667558201054239940","title":"Intramembranous ossification and cartilage formation","description":"This cluster is dominated by GO terms related to skeletal development, notably cartilage condensation and intramembranous ossification, with supportive terms like myoblast differentiation, suggesting a mesodermal lineage involved in skeletal tissue formation. While other terms (glucose import, lipoprotein clearance, coagulation) appear, the bone-related terms are most representative of the cluster\u2019s function.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001502","count":2},{"id":"GO:0046326","count":2},{"id":"GO:0001957","count":2},{"id":"GO:0045445","count":2},{"id":"GO:0034383","count":1}]},{"hash":"428291145126469071","title":"Unknown","description":"The Top Terms span BMP signaling, lipid/platelet/bone remodeling processes, melanocyte differentiation, learning, and related responses with no single cohesive function or interaction linking the proteins, and there are no edges to suggest a connected module.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0071773","count":3},{"id":"GO:0010573","count":3},{"id":"GO:0045636","count":3},{"id":"GO:0071404","count":3},{"id":"GO:0070527","count":3}]},{"hash":"581694252464168928","title":"Nuclear transport and spindle dynamics","description":"The terms cluster around spindle assembly, centrosome cycle, and cytokinesis, plus nuclear pore organization and mRNA export, suggesting coordination between nuclear transport and mitotic processes. Additional terms on desumoylation regulation and spindle checkpoint signaling reinforce a mitotic control theme, while unrelated terms like olfactory learning and synapse plasticity appear as outliers. Overall, the cluster most strongly reflects nuclear transport intertwined with cell division regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051225","count":1},{"id":"GO:0007098","count":1},{"id":"GO:0000911","count":1},{"id":"GO:0060188","count":1},{"id":"GO:0006607","count":1}]},{"hash":"133766066660693791","title":"Diverse Signaling and Sensory Responses","description":"These proteins appear linked by broad signaling and sensory/response processes rather than a single pathway: multiple terms point to GPCR signaling modulation, responses to peptides, and neural-related activities (astrocyte chemotaxis, locomotory and visual behavior), with additional terms touching secretion, inflammation, and tissue development. The common thread is diverse signaling and sensory responsiveness across tissues.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007626","count":4},{"id":"GO:0007596","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0010513","count":3},{"id":"GO:2000458","count":3}]},{"hash":"1337144004112255068","title":"B and T cell receptor signaling and activation","description":"The proteins are enriched for adaptive immune functions, with strong representation of B cell receptor signaling, T cell receptor signaling, B cell activation, and related processes (costimulation, affinity maturation). Additional terms for phagocytosis and interferon signaling suggest a broader immune defense context, but the dominant theme is lymphocyte receptor signaling and activation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006910","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0071226","count":2},{"id":"GO:0050852","count":2},{"id":"GO:0006911","count":2}]},{"hash":"884882601994267744","title":"Mitochondrial respiration and Complex IV assembly","description":"The GO terms point to proton transmembrane transport and ATP synthesis coupled electron transport, core features of mitochondrial oxidative phosphorylation. The explicit mention of mitochondrial respiratory chain complex IV assembly further ties the proteins to the assembly of cytochrome c oxidase, suggesting these proteins function in mitochondrial energy metabolism and electron transport chain assembly. Confidence in this name is High.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042774","count":1},{"id":"GO:1902600","count":1},{"id":"GO:0033617","count":1}]},{"hash":"319108277493320126","title":"Embryonic neural and organ development","description":"The top GO terms point to broad developmental processes, especially neural projection development, skeletal system development, lens fiber differentiation, and gastrulation, indicating a developmental program with emphasis on neural and organ formation during embryogenesis. Some terms reference chromatin and nuclear transport, but the dominant signal is embryonic development and tissue differentiation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":3},{"id":"GO:0031175","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0070306","count":3},{"id":"GO:0043966","count":2}]},{"hash":"450278632717978584","title":"Small-molecule membrane transport","description":"The GO terms point to diverse membrane transport activities\u2014carbohydrate derivatives, vitamins, methionine, daunorubicin, phytochelatin import into vacuoles, and cytosol-to-ER trafficking\u2014indicating a shared theme of transporting various small molecules across membranes, with cargoes spanning nutrients to drugs and detoxification processes. A standout outlier is the endoribonuclease regulation term, but the dominant signal is transport, supporting this label. ","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1901264","count":1},{"id":"GO:0048240","count":1},{"id":"GO:0035461","count":1},{"id":"GO:1902943","count":1},{"id":"GO:0036246","count":1}]},{"hash":"691417960456743592","title":"Rho/Rac GTPase\u2013driven cytoskeleton remodeling","description":"The cluster is enriched for small GTPase signaling (Rho, Rac) and actin remodeling processes (lamellipodium assembly, cell spreading) with regulation of Rho/Rac pathways, plus terms related to endothelial barrier formation and heart development, indicating a role in cytoskeleton dynamics linked to tissue morphogenesis.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032287","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0035020","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0008286","count":3}]},{"hash":"686046117850779358","title":"Phototransduction and Visual Perception","description":"The cluster is dominated by GO terms for visual perception and phototransduction, indicating light-detection signaling. Additional terms related to GPCR signaling via cGMP and detection of chemical stimuli reinforce a broader sensory-densing theme, though a few outliers exist.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":4},{"id":"GO:0007602","count":4},{"id":"GO:0060048","count":4},{"id":"GO:0034609","count":3},{"id":"GO:0007199","count":3}]},{"hash":"615288111805120154","title":"Diverse Biosynthetic Pathways","description":"These proteins appear tied to various biosynthetic and metabolic processes (NAD+ biosynthesis, lipoprotein biosynthesis, polyamine biosynthesis, oxaloacetate metabolism), indicating a cluster centered on general biosynthetic/metabolic roles. A few stress/regulatory terms are present but not dominant, so the overarching theme is diverse biosynthesis rather than a single pathway.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009435","count":1},{"id":"GO:0042158","count":1},{"id":"GO:0006596","count":1},{"id":"GO:0006107","count":1},{"id":"GO:0046686","count":1}]},{"hash":"1483575369021329046","title":"Shikimate and amino acid metabolism","description":"The top GO terms cluster around the shikimate pathway and several amino acid biosynthesis/catabolism processes (valine, serine, alanine, methionine cycle), suggesting a cohesive theme of amino acid metabolism and aromatic amino acid biosynthesis. A couple of outliers (e.g., entry of bacterium into host cell, obsolete redox) may be incidental. Confidence: Medium","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019632","count":1},{"id":"GO:0009099","count":1},{"id":"GO:0001887","count":1},{"id":"GO:0035635","count":1},{"id":"GO:0055114","count":1}]},{"hash":"714643265105274783","title":"Ubiquitin-Proteasome Regulation","description":"The proteins appear linked to ubiquitin-proteasome system components: SCF-dependent ubiquitin-proteolysis, deubiquitination, proteasome core complex assembly, APC-dependent catabolic processes, and ubiquitin-independent proteolysis. Signaling pathway terms (T cell receptor signaling, Wnt, and NF-kappaB) may be downstream effects or regulatory connections. Overall, this cluster centers on UPS-mediated protein turnover and its control.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0016579","count":1},{"id":"GO:0080129","count":1},{"id":"GO:0090263","count":1}]},{"hash":"1261881061958975319","title":"Nuclear transport and pore organization","description":"This cluster centers on nucleocytoplasmic transport processes, including regulation of protein import into the nucleus, NLS-bearing protein import, tRNA export from the nucleus, and nuclear pore organization, with additional notes on mitotic nuclear envelope dynamics and virus intracellular transport, suggesting a shared involvement in NPC-related transport and regulation.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010827","count":3},{"id":"GO:0042306","count":3},{"id":"GO:0075733","count":3},{"id":"GO:0070208","count":3},{"id":"GO:0007077","count":3}]},{"hash":"1859599953710122639","title":"NF-kappaB/JNK stress signaling and apoptosis regulation","description":"These proteins show enriched terms around stress-activated signaling and cell fate decisions: regulation of the JNK cascade, canonical NF-kappaB signaling with I-kappaB phosphorylation, and regulation of apoptotic processes. While a few terms touch less-connected processes (miRNA processing, vesicle transport, X chromosome inactivation), the core theme is signaling and transcriptional control in response to cellular stress and survival decisions.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":2},{"id":"GO:1903762","count":2},{"id":"GO:0042981","count":2},{"id":"GO:1903721","count":2},{"id":"GO:0090419","count":2}]},{"hash":"590945724488352816","title":"Proteostasis and genome maintenance","description":"The terms cluster around cellular maintenance: multiple entries relate to protein processing and turnover (ER-Golgi transport, mitochondrial import, proteasome assembly, inclusion body assembly) alongside genome maintenance processes (DNA replication, UV repair, translesion synthesis, RNA quality control). This suggests a general theme of preserving cellular proteostasis while safeguarding genome integrity, rather than a single specific pathway.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001824","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0045041","count":3},{"id":"GO:0034551","count":3},{"id":"GO:0070682","count":3}]},{"hash":"513225057243931308","title":"Ribosome Biogenesis","description":"Based on the top GO terms, the cluster is enriched for ribosome biogenesis, particularly ribosomal small subunit biogenesis and ribosome biogenesis, suggesting these proteins participate in ribosome assembly and production. The other terms (neuron development and visual perception) appear only once and are likely incidental annotations for some members. The dominant ribosome-related terms support a cohesive function label.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042274","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0021952","count":1},{"id":"GO:0007601","count":1},{"id":"GO:0045856","count":1}]},{"hash":"1223255177019115307","title":"Actin cytoskeleton remodeling and muscle regulation","description":"This cluster is most strongly characterized by GO terms related to actin dynamics and muscle function, such as formin-nucleated actin cable assembly, actin filament network formation, muscle attachment, and regulation of skeletal muscle contraction via calcium release. While there are also immune-related terms present (dsRNA response, interferon production), the dominant signal points to cytoskeletal organization and muscle signaling. The small size and some annotation noise temper the certainty, but the actin/muscle theme is the best-supported interpretation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016203","count":3},{"id":"GO:0021629","count":3},{"id":"GO:2000009","count":3},{"id":"GO:0014809","count":3},{"id":"GO:0070649","count":2}]},{"hash":"509854711837931936","title":"Neural development and synaptic signaling","description":"The cluster is enriched for brain development and neural signaling terms (e.g., brain development, reelin-mediated signaling, retrograde trans-synaptic signaling by neuropeptide), along with regulators of GTPase activity, pointing to neuronal development and synaptic communication as the shared theme. Some peripheral terms (glucocorticoid signaling, insulin secretion, immune signaling) appear but are less prominent, making the neural theme the strongest signal.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0001778","count":2},{"id":"GO:1905433","count":2},{"id":"GO:0042921","count":2}]},{"hash":"1123556772678011139","title":"Unknown","description":"The top GO terms are scattered across unrelated biological areas (immune signaling like B cell receptor signaling and germinal center formation, plus plant phototropism and skeletal muscle development), with no consistent functional theme and zero edges among the proteins. This makes it difficult to assign a cohesive, representative function to the cluster, so I label it Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990390","count":2},{"id":"GO:0050853","count":2},{"id":"GO:1900477","count":2},{"id":"GO:0043380","count":2},{"id":"GO:0032764","count":2}]},{"hash":"1508864820964759385","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008615","count":3},{"id":"GO:0035606","count":3},{"id":"GO:0006006","count":3},{"id":"GO:0006096","count":3},{"id":"GO:0055114","count":3}]},{"hash":"1185916817908190223","title":"Retina and Brain Development","description":"The top GO terms cluster around neural and ocular development, including retina development, retinal ganglion cell axon guidance, forebrain and brain development, and general multicellular organism development. While a few terms reference other processes (e.g., actin depolymerization, keratinocyte differentiation), the strongest signal is neural/retinal development, so this name captures the dominant theme without overreaching.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031290","count":3},{"id":"GO:0045617","count":3},{"id":"GO:0060041","count":3},{"id":"GO:0030579","count":3},{"id":"GO:0007420","count":3}]},{"hash":"624894180118084300","title":"Cellular regulatory processes","description":"The top GO terms point to regulation across diverse cellular processes (transcription, signaling, autophagy, gene expression, and protein modification), suggesting a general theme of regulatory control rather than a single pathway.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006357","count":3},{"id":"GO:1901097","count":3},{"id":"GO:0030474","count":3},{"id":"GO:0010216","count":3},{"id":"GO:0016579","count":3}]},{"hash":"1205828969979778616","title":"Meiosis and germ cell development","description":"The Top Terms cluster around meiotic processes: meiotic cell cycle, synaptonemal complex assembly, chiasma formation, recombination intermediates resolution, gene conversion, chromosome segregation during meiosis, and related germline events such as gonad development and fertilization. Although only 3 proteins are listed and there are no edges, the shared GO annotations strongly point to a cohesive meiosis/germ cell function.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":1},{"id":"GO:0000712","count":1},{"id":"GO:0051026","count":1},{"id":"GO:0051321","count":1},{"id":"GO:0090173","count":1}]},{"hash":"1153929238144528117","title":"Cytoskeletal dynamics and centrosome localization","description":"This cluster\u2019s GO terms cluster around actin nucleation and filament formation (formin-nucleated actin cables, actin nucleation, actin filament network formation) and microtubule-associated processes (protein localization to microtubules, establishment of centrosome localization), with additional links to chromosome movement toward spindle poles and gamete formation. The dominant theme is cytoskeletal organization and centrosome/microtubule dynamics during cell division.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051660","count":2},{"id":"GO:0070649","count":1},{"id":"GO:0051639","count":1},{"id":"GO:0071420","count":1},{"id":"GO:0045010","count":1}]},{"hash":"1826849644129837862","title":"Myoblast Differentiation with Adhesion and Cytoskeleton Signaling","description":"The top GO terms point to myoblast differentiation and the regulation of myoblast fusion, coupled with positive regulation of cell-cell adhesion (integrin-mediated and calcium-independent) and cytoskeleton organization, with supporting signals related to VEGF production and nitric oxide\u2014together forming a coherent muscle development and cell-adhesion remodeling theme (with some broader immune-signaling terms likely incidental). ","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045663","count":2},{"id":"GO:0071731","count":2},{"id":"GO:1901740","count":2},{"id":"GO:0051041","count":2},{"id":"GO:0010574","count":2}]},{"hash":"1362308923265392282","title":"Leukocyte adhesion and phagocytosis signaling","description":"The GO terms cluster around immune cell recruitment and interaction (leukocyte tethering/rolling, cell adhesion molecule production), activation (platelet activation) and phagocytosis (recognition), with inflammatory lipid signaling (arachidonate secretion). A few kidney development terms appear unrelated to the core immune theme, likely reflecting multifunctional proteins; overall, the dominant pattern points to leukocyte adhesion/activation and phagocytic processes.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090238","count":1},{"id":"GO:2000502","count":1},{"id":"GO:0060355","count":1},{"id":"GO:0010572","count":1},{"id":"GO:0050901","count":1}]},{"hash":"10292478560913923","title":"Unknown","description":"The GO terms are highly diverse (mitophagy, thiamine biosynthesis, brain development, innate immune signaling, transcription regulation, fungal defense, cell cycle, sumoylation), giving no single cohesive function to unite the cluster. This suggests no reliable, interpretable label beyond Unknown.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000422","count":3},{"id":"GO:0061504","count":2},{"id":"GO:0021764","count":2},{"id":"GO:0045892","count":2},{"id":"GO:0050832","count":2}]},{"hash":"2174517527190291514","title":"UV-induced DNA repair and development regulation","description":"Top GO terms show a clear emphasis on UV response and nucleotide-excision repair (including transcription-coupled NER and pyrimidine dimer repair), pointing to a core UV-induced DNA damage repair theme. Additional terms touch on transcriptional regulation, cell cycle control, and development/eye morphogenesis, suggesting broader links between DNA damage response and developmental processes. Overall, the cluster appears to center on UV-driven DNA repair with related developmental regulation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0040034","count":2},{"id":"GO:0010225","count":2},{"id":"GO:0010224","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0061178","count":2}]},{"hash":"1883421479446200504","title":"Ubiquitin-regulated immune signaling","description":"The cluster shows enrichment for protein ubiquitination and ubiquitin-dependent protein catabolic processes, together with immune-related terms such as adaptive immune response, NF-kappaB signaling, and RIG-I pathway, plus regulation of T cell proliferation and apoptosis. This pattern suggests a coherent theme of ubiquitin-mediated control of immune signaling and cell fate, rather than a single isolated function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0001778","count":1}]},{"hash":"809736318693333057","title":"Translation initiation and preinitiation complex formation","description":"Based on the top GO terms, especially translation reinitiation and formation of translation preinitiation complex, the cluster is best characterized by proteins involved in initiating translation. Other terms present (nuclear pore localization, ubiquitin ligase regulation, development processes) appear ancillary and do not define a single cohesive function as strongly as initiation of translation does. The small cluster size with no edges suggests this labeling is based on functional hints from GO annotations rather than network structure.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0001501","count":2},{"id":"GO:0043966","count":2}]},{"hash":"1070950912681703952","title":"Neural differentiation and actin remodeling","description":"This cluster centers on neural development, with GO terms for Purkinje cell differentiation and visceral motor neuron differentiation, suggesting roles in neuronal lineage specification. It also includes actin filament polymerization, pointing to cytoskeletal remodeling as a common mechanism supporting neuronal morphology and connectivity, despite some more divergent terms present.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":1},{"id":"GO:1903764","count":1},{"id":"GO:1902951","count":1},{"id":"GO:0060670","count":1},{"id":"GO:0010863","count":1}]},{"hash":"1779988548606793815","title":"TNF/NOD2 immune signaling","description":"This cluster is dominated by GO terms for TNF-mediated signaling and NOD2 signaling, plus associated positive regulation of T cell proliferation and chemokine production, pointing to inflammatory/immune activation. Other terms (developmental and chromatin-related) are likely ancillary or noise, with ubiquitin-related regulation appearing as a supporting theme.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0001501","count":2},{"id":"GO:0043966","count":2},{"id":"GO:0070431","count":2}]},{"hash":"1555175534030107468","title":"Cytoplasmic Translation","description":"Based on the top GO terms, the cluster is dominated by translation-related functions (GO:0006412, GO:0002181), indicating proteins involved in cytoplasmic protein synthesis. The other terms (DNA repair, dexamethasone response) are less represented and may reflect multifunctional annotations or noise, but do not override the main signal of translation activity.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0071549","count":2},{"id":"GO:0001576","count":1},{"id":"GO:0002181","count":1}]},{"hash":"405578041802364228","title":"Immune activation and calcium signaling","description":"The cluster's GO terms center on immune signaling (interferon production, mast cell regulation, IgE isotype switching) and store-operated calcium channel activity, which together point to calcium-dependent activation in immune cells. While a few terms are obsolete or relate to neuronal processes, the dominant theme is immune response regulation with calcium signaling as a common mechanism.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032237","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0048295","count":3},{"id":"GO:1902951","count":3},{"id":"GO:0045931","count":3}]},{"hash":"21843798868971613","title":"Cell Cycle and DNA Replication Regulators","description":"The top GO terms highlight DNA replication, centrosome/mitotic cycle, and chromatid cohesion, pointing to roles in cell cycle progression and replication. Developmental proliferation terms and minor translational notes appear but are less central. Overall, the cluster seems dominated by proteins involved in cell cycle regulation and DNA replication.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010571","count":2},{"id":"GO:0007098","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0048701","count":2},{"id":"GO:0014009","count":1}]},{"hash":"419656061213713999","title":"RNA Pol II transcription regulation","description":"The top GO terms are dominated by DNA-templated transcription and negative regulation of transcription by RNA polymerase II, suggesting the proteins in this cluster mainly participate in transcriptional control. Obsolete terms are present but do not override the core signal of transcription regulation. Peripheral terms touch on related processes like translational initiation and cellular stress, but the primary theme remains RNA Pol II\u2013mediated transcription regulation.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007576","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0070895","count":2},{"id":"GO:0010729","count":2}]},{"hash":"1885642610854185488","title":"Nuclear gene expression and cell cycle","description":"The most represented terms cluster around nuclear processes: cell division, mRNA export from the nucleus, and regulation of transcription, suggesting a shared role in coordinating gene expression with the cell cycle. Other terms (mitochondrial protein import, ER folding, signaling) are less central to this theme, making nuclear transcription and cell-cycle coordination the best overall label.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0045041","count":1},{"id":"GO:2001275","count":1}]},{"hash":"2181692151342482537","title":"Unknown","description":"The top terms span autophagy, tRNA modification, transcription regulation, metabolism, development, and defense, with no single unifying function evident for all three proteins. This scattered set of GO terms suggests either multiple separate roles or annotation noise, so a specific, representative label cannot be confidently assigned.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0061504","count":2},{"id":"GO:0021764","count":2},{"id":"GO:0045892","count":2},{"id":"GO:0050832","count":2},{"id":"GO:0007113","count":2}]},{"hash":"2033651399118017125","title":"G-protein signaling in development","description":"This cluster centers on heterotrimeric G protein assembly, regulation of GTPase activity, and phosphorylation signaling, with multiple terms tied to development (multicellular development, gastrulation, skeletal system development) and cell-cycle processes, suggesting a cohesive theme of GPCR/G-protein\u2013mediated signaling influencing development.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":2},{"id":"GO:0050731","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0007275","count":2}]},{"hash":"854332208065681348","title":"Neuronal axon guidance and differentiation","description":"The proteins cluster around neural development, especially axonogenesis and axon guidance in CNS and retinal neurons, with terms like central nervous system projection neuron axonogenesis, retinal ganglion cell axon guidance, and fasciculation of sensory neuron axon. They also involve neuron cell-cell adhesion and photoreceptor differentiation signals, and the PI3K/Akt pathway contributing to neuronal growth/survival. This suggests a cohesive theme of neural differentiation and axon pathfinding.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045663","count":3},{"id":"GO:0021952","count":3},{"id":"GO:0060168","count":3},{"id":"GO:0043491","count":3},{"id":"GO:0031290","count":3}]},{"hash":"1435485699431164240","title":"RNA processing and ribosome biogenesis","description":"The top GO terms cluster around RNA metabolism and ribosome assembly\u2014mRNA splicing via the spliceosome, mitochondrial mRNA polyadenylation, ribosomal small subunit biogenesis, and rRNA export\u2014suggesting a core function in RNA processing and ribosome biogenesis. Some other terms (viral RNA perturbation, TNF response, forebrain proliferation) are less coherent with this theme and likely incidental. Overall, the dominant signal supports RNA processing/ribosome biogenesis as the cluster\u2019s theme, with medium confidence.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0097222","count":2},{"id":"GO:0044830","count":2},{"id":"GO:0033129","count":2},{"id":"GO:0022013","count":2}]},{"hash":"3723972230639047","title":"Cell Polarity and Migration","description":"The terms cluster around maintaining cell polarity and various modes of cell movement (ameboidal, neuronal cortical migration), with related cytoskeletal and signaling processes and some links to cell-cycle/spindle functions, suggesting a core theme of polarity-guided migration possibly coupled to division machinery.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030011","count":3},{"id":"GO:0050885","count":3},{"id":"GO:0010513","count":3},{"id":"GO:0021799","count":3},{"id":"GO:0060047","count":3}]},{"hash":"1486172386211939033","title":"Developmental gene expression and cell division","description":"The top GO terms cluster around developmental processes (skeletal system development, neural tube closure, multicellular organism development) and core cellular activities (DNA-templated transcription, mitotic cell cycle, cell division), suggesting a developmental program tied to proliferation. Peripheral terms like ER stress\u2013induced apoptosis and defense responses appear less central but may reflect stress-related modulation within developmental contexts. Overall, a coherent theme is development with associated cell-cycle activity.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0071276","count":2}]},{"hash":"489057124834412990","title":"Neuronal development and synaptic organization","description":"The terms are dominated by nervous system development, neurogenesis, synapse organization, transmission of nerve impulse, and axon paranode localization, all pointing to neural differentiation and synaptic connectivity. A peripheral GO term about myoblast differentiation appears but does not redefine the main theme.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045663","count":2},{"id":"GO:0050808","count":2},{"id":"GO:0070106","count":2},{"id":"GO:0042517","count":2},{"id":"GO:0045162","count":2}]},{"hash":"1796318198068361113","title":"Unknown","description":"The top GO terms span immune response to lipopolysaccharide, lipid/cholesterol metabolism, and diverse developmental processes (neuronal, embryonic, and reproductive), with no single cohesive function tying the proteins together. The terms are too heterogeneous to define a specific cluster function, so a generic Unknown label is appropriate.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":3},{"id":"GO:0042632","count":3},{"id":"GO:0060068","count":3},{"id":"GO:2001275","count":2},{"id":"GO:0021952","count":2}]},{"hash":"659775219980706068","title":"Sphingolipid-regulated cell cycle and apoptosis","description":"The top GO terms point to cell cycle, negative regulation of execution phase of apoptosis, and intracellular sphingolipid homeostasis, suggesting a theme where sphingolipid signaling modulates cell fate decisions including proliferation and apoptotic control.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":1},{"id":"GO:1900118","count":1},{"id":"GO:0090156","count":1}]},{"hash":"673940761556327314","title":"Unknown","description":"GO terms span several unrelated processes (cell polarity, mitosis exit, septum assembly, translation, pigment organelle transport, neuromuscular activity, and energy-sensing signaling), with no clear unifying function tying the proteins together, so the cluster is best labeled Unknown.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000186","count":3},{"id":"GO:0030011","count":2},{"id":"GO:0045792","count":2},{"id":"GO:0002181","count":2},{"id":"GO:0032402","count":2}]},{"hash":"70201200898959989","title":"Muscle and heart development regulators","description":"These proteins show enriched terms for muscle and heart morphogenesis, including positive regulation of myoblast and skeletal muscle fiber development and endocardial cushion EMT involved in heart valve formation. Additional terms about cell adhesion, apoptotic regulation, and broader differentiation processes suggest a role in coordinating tissue development rather than a single pathway, making the muscle/heart development theme plausible but not exclusive. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045663","count":3},{"id":"GO:0003199","count":3},{"id":"GO:0042981","count":3},{"id":"GO:0031018","count":3},{"id":"GO:0072049","count":3}]},{"hash":"1871159140838769093","title":"RNA Splicing and Translational Regulation","description":"The terms cluster around post-transcriptional control: regulation of alternative mRNA splicing via the spliceosome and its negative regulation, RNA silencing by ncRNA and miRNA, and multiple aspects of translation initiation and reinitiation (including IRES-dependent viral initiation and preinitiation complex formation) as well as mRNA stabilization. This implies a coherent theme of RNA processing and translational regulation rather than any single enzymatic activity, justifying a label focused on RNA splicing and translation control.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":3},{"id":"GO:0035278","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0048025","count":2}]},{"hash":"742933505992075514","title":"Chromatin remodeling and gene silencing","description":"This cluster shows a coherent emphasis on chromatin dynamics and transcription control, with GO terms like regulatory ncRNA-mediated post-transcriptional gene silencing, nucleosome mobilization, histone acetylation/exchange, and subtelomeric heterochromatin formation, plus transcription initiation at RNA Pol II. These collectively point to proteins involved in chromatin structure modulation and regulation of gene expression, with some development-context terms that may be secondary. The label captures the main functional theme without overfitting to a single term.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016246","count":2},{"id":"GO:0007379","count":2},{"id":"GO:0042766","count":2},{"id":"GO:0043981","count":2},{"id":"GO:0048510","count":2}]},{"hash":"69650917029446142","title":"Unknown","description":"The GO terms span reproduction, coagulation, various transports, and signaling regulation with no single cohesive function tying the proteins together.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007283","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0035461","count":2},{"id":"GO:0002787","count":2},{"id":"GO:1905431","count":2}]},{"hash":"1508315794125149956","title":"Neural projection and axon guidance","description":"This cluster is dominated by neural development and connectivity terms: CNS projection neuron axonogenesis, retinal ganglion cell axon guidance, and fasciculation of sensory neuron axons, with a supporting signal from visual perception. These point to a cohesive theme of axon pathfinding and neural circuit formation, making the label well representative. ","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021952","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0045819","count":3},{"id":"GO:1901196","count":3},{"id":"GO:1990803","count":3}]},{"hash":"466115393529563295","title":"JNK/TNF Signaling and Apoptosis Regulation","description":"The proteins show enrichment for stress-related signaling and cell fate decisions, including regulation of the JNK cascade, TNF-mediated signaling, and regulation of apoptotic processes, as well as ubiquitin-related protein turnover (autoubiquitination and ubiquitin-dependent proteolysis) and I-kappaB phosphorylation. This suggests a coherent theme of how cells respond to stress by activating signaling pathways that control apoptosis, often mediated through ubiquitin-proteasome mechanisms. Some terms (dosage compensation, histone catabolic process) are less clearly connected and may reflect broader regulation or annotation noise. Overall, the cluster appears to comprise regulators of stress-induced signaling and apoptosis. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":3},{"id":"GO:1903762","count":3},{"id":"GO:0042981","count":3},{"id":"GO:1903721","count":3},{"id":"GO:0009048","count":3}]},{"hash":"2036508422013893612","title":"Innate immune recognition and leukocyte recruitment","description":"The top GO terms cluster around innate immune responses to fungal molecules (cellular response to molecule of fungal origin) and immune cell interactions (leukocyte tethering/rolling, phagocytosis recognition, platelet activation, and regulation of inflammatory mediators). This points to a shared function in detecting fungal signals and recruiting/activating leukocytes. Some development-related terms are present but appear peripheral to the main immune-focused theme. ","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":3},{"id":"GO:0090238","count":2},{"id":"GO:2000502","count":2},{"id":"GO:0060355","count":2},{"id":"GO:0010572","count":2}]},{"hash":"1994281676791150531","title":"Innate Immunity and Immune Regulation","description":"The top GO terms cluster around innate immune response, type II interferon production, and negative regulation of T cell proliferation, plus related processes like ubiquitin-dependent protein catabolism and apoptosis regulation. While a couple terms touch on development/ossification, the dominant signal is immune-related, suggesting proteins that participate in immune signaling and its restraint.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0046007","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0072643","count":2}]},{"hash":"82376196426633616","title":"Mitosis and vesicle trafficking","description":"The GO terms show a clear emphasis on cell division (mitotic cell cycle, cell division) alongside intracellular transport processes (vesicle-mediated transport, clathrin coat assembly, intracellular protein transport) with autophagy as a related vesicle-based process, suggesting these proteins coordinate mitosis with membrane trafficking and vesicle dynamics.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0016192","count":1},{"id":"GO:0006886","count":1},{"id":"GO:0006914","count":1},{"id":"GO:1900126","count":1}]},{"hash":"1471635653962704167","title":"Neuronal vesicle transport and development","description":"This cluster combines neural development terms (photoreceptor cell development, interneuron migration, cilium localization) with intracellular trafficking activities (ER-to-Golgi transport, protein transport, exocytosis regulation), suggesting a theme of neuronal differentiation linked to vesicle trafficking and ciliogenesis. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":1},{"id":"GO:0007612","count":1},{"id":"GO:0045956","count":1},{"id":"GO:0042461","count":1},{"id":"GO:0031584","count":1}]},{"hash":"672783653270435515","title":"Chromatin Organization and Histone Modification","description":"These proteins cluster around core chromatin biology: nucleosome assembly, heterochromatin organization, and histone modification marks (H3-K27 and H3-K4 trimethylation) as well as localization to chromatin. Although a couple of unrelated terms appear (nucleus size regulation, growth-factor related), the dominant signals point to chromatin structure and regulation of gene expression.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016584","count":2},{"id":"GO:0098532","count":2},{"id":"GO:0071169","count":2},{"id":"GO:0080182","count":2},{"id":"GO:0070828","count":2}]},{"hash":"1438926979643678231","title":"Mammary gland development and lactation","description":"The top GO terms include lactation, mammary gland alveolus development, and mammary gland epithelial cell proliferation, which strongly point to mammary gland biology. While there are some general transcription and cell cycle terms present, the mammary-related terms are the most cohesive and representative of the cluster\u2019s likely function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:2000775","count":1},{"id":"GO:0000086","count":1},{"id":"GO:0001174","count":1},{"id":"GO:0019085","count":1}]},{"hash":"174152272890150238","title":"Embryonic organogenesis","description":"The top GO terms cluster around morphogenesis and development across several organs during embryogenesis (heart, eye, hindlimb, placenta, gonads, habenula, etc.), suggesting a broad role in organ formation rather than a single tissue-specific function.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003148","count":3},{"id":"GO:0021986","count":3},{"id":"GO:0001890","count":3},{"id":"GO:0008584","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1526969592143839098","title":"Multi-lineage differentiation and development","description":"The terms center on differentiation across blood lineages (erythrocyte, granulocyte), heart/valve development, neural guidance, and early embryonic development, with some transcriptional regulation and inflammatory signaling. This points to a general theme of developmental differentiation across multiple lineages rather than a single pathway. Therefore the label \"Multi-lineage differentiation and development\" is appropriate.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045648","count":2},{"id":"GO:0008045","count":2},{"id":"GO:0030851","count":2},{"id":"GO:0001824","count":1},{"id":"GO:0090241","count":1}]},{"hash":"821462786138162950","title":"Mitochondrial tRNA aminoacylation and translation","description":"The top GO terms cluster around mitochondrial-specific tRNA charging (aminoacylation) for several tRNAs (gly, ser, thr, pro) and general translation, indicating a group of proteins involved in mitochondrial protein synthesis and aminoacyl-tRNA synthetase activity. Additional terms about translational fidelity and selenocysteine biosynthesis reinforce the link to translation machinery operating in the mitochondrion. Overall, the theme is mitochondrial translation and charging of tRNAs.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006433","count":2},{"id":"GO:0006450","count":2},{"id":"GO:0016260","count":2},{"id":"GO:0070150","count":2},{"id":"GO:0070158","count":2}]},{"hash":"418445847365858927","title":"Embryonic Development and Morphogenesis","description":"The top GO terms cluster around developmental processes across tissues: cartilage morphogenesis; placental and endocrine system development; epithelial-to-mesenchymal transition in heart cushion formation; left-right patterning; and regulation of Hedgehog, Wnt, and VEGF signaling. Together these terms point to a group of proteins whose functions center on guiding embryogenesis and tissue morphogenesis via signaling pathways.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060536","count":1},{"id":"GO:0060806","count":1},{"id":"GO:0003198","count":1},{"id":"GO:0060707","count":1},{"id":"GO:0003323","count":1}]},{"hash":"735530464114652914","title":"Regulation of apoptosis, necroptosis, and immune signaling","description":"These proteins appear to regulate key signaling pathways rather than act as structural components, with GO terms centered on suppression or modulation of apoptotic and necroptotic pathways, innate immune signaling (TLR), transcription by RNA Pol II, and protein ubiquitination. The presence of focal adhesion regulation and vascular-related terms (coronary vasculature development, blood coagulation) suggests a context where these regulators influence cell survival and immune responses in vascular tissues. Overall, the cluster likely represents regulators of cell fate and immune signaling in a vascular/inflammatory setting.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051894","count":2},{"id":"GO:0000122","count":1},{"id":"GO:0043066","count":1},{"id":"GO:0060544","count":1},{"id":"GO:0034121","count":1}]},{"hash":"2183189147411058679","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0000289","count":1},{"id":"GO:0006281","count":1},{"id":"GO:0000738","count":1}]},{"hash":"2203963935682045401","title":"Mitochondrial metabolite and ion transport","description":"The three proteins repeatedly show GO terms tied to transport of metabolites and ions across mitochondrial membranes (NAD, citrate, phosphate, manganese, magnesium, deoxynucleotides) and to processes like the malate-aspartate shuttle, all signaling mitochondrial metabolism and membrane transport. The insulin and amino acid starvation responses further support a mitochondrial metabolic regulatory theme. This cohesive pattern justifies a label focused on mitochondrial transport/metabolic roles.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030302","count":1},{"id":"GO:1990616","count":1},{"id":"GO:0090152","count":1},{"id":"GO:0032869","count":1},{"id":"GO:0006828","count":1}]},{"hash":"21511920213036817","title":"Unknown","description":"The GO terms span very diverse processes (blood coagulation; eye morphogenesis; dendrite/nerve regeneration; collagen biosynthesis; lipoprotein clearance; various regulatory steps in development and differentiation). With no clear unifying function and no network connectivity among proteins, there isn\u2019t a coherent label beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":1},{"id":"GO:0031104","count":1},{"id":"GO:0048593","count":1},{"id":"GO:0060355","count":1},{"id":"GO:0070208","count":1}]},{"hash":"1840132712028612184","title":"Neuronal development and synaptic signaling","description":"The dominant terms revolve around neuron remodeling, synaptic transmission regulation, and visual perception, all pointing to neuronal development and signaling. Other terms like mitochondrial membrane organization and phosphatidylinositol biosynthesis support neuronal metabolism and signaling, while a few terms are broader developmental or behavioral references that don\u2019t override the neuronal theme.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":2},{"id":"GO:0042711","count":2},{"id":"GO:0050805","count":2},{"id":"GO:0010513","count":2},{"id":"GO:0070208","count":2}]},{"hash":"359259077679375112","title":"Unknown","description":"The terms span hormone response, neurotransmission, development, pigment dynamics, ion transport, nervous and cardiac processes, dsRNA response, and BMP signaling, with no single coherent function dominating. Because there is no clear shared theme tying these proteins to a specific biological pathway or process, \"Unknown\" best represents this cluster.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"nervous system process","top_go_terms":[{"id":"GO:0033574","count":3},{"id":"GO:0051935","count":3},{"id":"GO:0035220","count":3},{"id":"GO:0051877","count":3},{"id":"GO:1990573","count":3}]},{"hash":"663230661423032563","title":"Endocytosis and vesicular trafficking regulator","description":"This cluster is dominated by GO terms related to endocytosis and vesicle transport (clathrin-dependent endocytosis, early-to-late endosome transport, phagocytosis, Golgi localization, LDL clearance) and includes links to receptor signaling modulation (TGF-beta, Notch). These suggest a core function in regulating vesicle trafficking that can influence multiple signaling and immune processes, with some development-related terms likely reflecting downstream effects. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000311","count":1},{"id":"GO:2000370","count":1},{"id":"GO:2000643","count":1},{"id":"GO:0034383","count":1},{"id":"GO:0006911","count":1}]},{"hash":"908298970548282030","title":"Coagulation, fibrinolysis, and ECM remodeling","description":"The top GO terms are centered on blood coagulation, fibrinolysis, and bradykinin catabolic processes, with additional terms around regulation of fibrinolysis and extracellular matrix component secretion, pointing to a hemostasis and tissue-remodeling theme. Some terms (liver regeneration, Purkinje cell differentiation) are less directly connected and may reflect broader regulatory roles or annotation noise, but the dominant signal is coagulation/fibrinolysis in the context of ECM remodeling.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":2},{"id":"GO:0035609","count":2},{"id":"GO:0003331","count":2},{"id":"GO:2000346","count":2},{"id":"GO:0042730","count":2}]},{"hash":"1794491716885417967","title":"Developmental Gene Expression Regulation","description":"This cluster's terms center on regulation of transcription and translation, proteasomal protein turnover, and differentiation/development processes (embryogenesis, stem cell differentiation, meiosis). The common thread is coordinating gene expression and protein turnover during development, despite some terms spanning broader or specific contexts. Therefore, a Developmental Gene Expression Regulation label fits, with Medium confidence due to limited connectivity among only a few proteins.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032436","count":1},{"id":"GO:0090054","count":1},{"id":"GO:0007127","count":1},{"id":"GO:0000122","count":1},{"id":"GO:0035914","count":1}]},{"hash":"528528405927792082","title":"Cell-Cell Adhesion and Immune Regulation","description":"The top GO terms cluster around intercellular adhesion (homophilic/heterophilic) and signals that modulate immune cell activity (macrophage, NK, T cells) and synapse assembly, with actin cytoskeleton regulation linked to adhesion. A few terms touch host cell entry and cardiac excitability, but the dominant theme is adhesive interactions governing immune communication and synapse-like processes.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":2},{"id":"GO:0043031","count":2},{"id":"GO:0086072","count":2},{"id":"GO:0090138","count":2},{"id":"GO:0002859","count":2}]},{"hash":"1218655152734450820","title":"Retinal phototransduction and calcium signaling","description":"Top terms are dominated by visual perception and phototransduction (GO:0007601, GO:0007602) with calcium ion response (GO:0051592) and depolarization regulation, suggesting a retina/vision-focused cluster. A few non-vision terms appear but are less represented, so the primary theme is vision-related phototransduction.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:0007602","count":3},{"id":"GO:0051592","count":3},{"id":"GO:1903244","count":3},{"id":"GO:0060371","count":2}]},{"hash":"77734863034991307","title":"Unknown","description":"The top GO terms span diverse processes including immune degranulation, multiple metabolic pathways, transport, and extracellular matrix organization. There isn\u2019t a single coherent function linking these terms, so a confident, specific label isn\u2019t supported.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043312","count":2},{"id":"GO:0019428","count":1},{"id":"GO:0001560","count":1},{"id":"GO:0042572","count":1},{"id":"GO:0030198","count":1}]},{"hash":"1956722968588728083","title":"Zinc Ion Transport and Homeostasis","description":"This cluster is defined by multiple zinc-related GO terms, including zinc ion import across the plasma membrane, intracellular zinc ion homeostasis, detoxification of zinc ion, and response to zinc ion starvation, indicating a coherent zinc uptake and homeostasis module. A few non-specific terms (limb development, aerobic respiration) appear but are likely incidental.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070574","count":1},{"id":"GO:0034224","count":1},{"id":"GO:0006882","count":1},{"id":"GO:0006831","count":1},{"id":"GO:0010312","count":1}]},{"hash":"1427497712865468451","title":"Unknown","description":"The GO terms are very diverse and span multiple, unrelated processes (such as various biosynthetic and catabolic pathways, development, antibiotic response, and sporulation). There is no clear, shared function tying the proteins together, so a cohesive label is not possible.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0045150","count":1},{"id":"GO:0009710","count":1},{"id":"GO:0042761","count":1},{"id":"GO:0006729","count":1}]},{"hash":"362086208594592479","title":"Calcium-Dependent Membrane Signaling and Secretion","description":"The GO terms point to membrane-associated signaling events and calcium-responsive processes, including plasma membrane repair, cellular response to calcium, insulin secretion (Ca2+-triggered exocytosis), reelin-mediated signaling, and various membrane-associated signaling pathways (B cell receptor signaling, sphingolipid biosynthesis). While diverse, they share a membrane signaling context modulated by calcium and secretory mechanisms, suggesting a cluster centered on calcium-dependent signaling at the plasma membrane and related secretion processes. ","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001778","count":1},{"id":"GO:1905433","count":1},{"id":"GO:0032024","count":1},{"id":"GO:0038026","count":1},{"id":"GO:0043619","count":1}]},{"hash":"1348000558772633263","title":"Unknown","description":"The three proteins have GO annotations spanning glucose regulation, NOD2 signaling, chemokine production, meiosis, calcium transport, mitotic cohesion, heat-stress transcription, endothelial angiogenesis, cardiac action potential, and the cell cycle, with no clear common function linking them. ","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001275","count":3},{"id":"GO:0070431","count":3},{"id":"GO:0071651","count":3},{"id":"GO:0010845","count":3},{"id":"GO:0098703","count":3}]},{"hash":"1905284810885652307","title":"Multisubstrate membrane transporters","description":"The GO terms show transmembrane transport across diverse substrates (sodium, galactose, nitrate/nitrite, phosphate, xenobiotics, vitamins, and aromatic compounds), suggesting these proteins function as broad-spectrum membrane transporters rather than a single-substrate transporter.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":3},{"id":"GO:0006004","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0042891","count":3}]}]