[{"hash":"556336561122811241","title":"Spliceosome-regulated mRNA processing","description":"The dominant terms point to regulation of mRNA splicing via the spliceosome, along with processes related to mRNA stability, export, and modification, indicating this cluster centers on spliceosome-mediated mRNA processing and transport, with ncRNA-mediated silencing as a regulatory layer.","confidence":"High","size":29,"edges":406,"triangles":3654,"max_degree":28,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":25},{"id":"GO:0000381","count":19},{"id":"GO:0031047","count":18},{"id":"GO:0048026","count":18},{"id":"GO:0006378","count":18}]},{"hash":"1832125733465384546","title":"Spliceosome-Driven mRNA Processing and Export","description":"These proteins are strongly enriched for spliceosome-related terms, including mRNA splicing (including alternative splicing), regulation of splicing, mRNA export, and mRNA modification/stability, pointing to a cohesive role in post-transcriptional mRNA processing and regulation, particularly under stress.","confidence":"High","size":29,"edges":383,"triangles":3114,"max_degree":28,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":26},{"id":"GO:0048025","count":25},{"id":"GO:0045292","count":25},{"id":"GO:0000381","count":23},{"id":"GO:1905663","count":23}]},{"hash":"998076879330453115","title":"Dopaminergic Synaptic Signaling and Pain Modulation","description":"The strongest signals are dopaminergic synaptic transmission, morphine response, and pain perception, supported by GO terms for GPCR-adenylate cyclase signaling and ERK cascade regulation. Autonomic-related terms (blood pressure, heart development) likely reflect broader GPCR-AC signaling in autonomic neurons, but the core theme centers on neural signaling and pain modulation via dopamine pathways.","confidence":"High","size":29,"edges":9,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":19},{"id":"GO:0045777","count":19},{"id":"GO:0010579","count":19},{"id":"GO:0022900","count":19},{"id":"GO:0019233","count":18}]},{"hash":"1596501344336097708","title":"Neural development and organogenesis","description":"This cluster is enriched for developmental and patterning terms: multiple entries point to neural differentiation (midbrain dopaminergic neurons, ventral spinal cord interneurons, motor neuron migration) and ectoderm formation, while others indicate organogenesis processes (nephron/neuronal development, nephric duct elongation) and regulatory pathways like Hippo signaling. A common theme is embryonic tissue patterning and differentiation across neural and non-neural organs, supported by a general transcriptional process (RNA Pol II). Confidence: Medium","confidence":"","size":29,"edges":273,"triangles":1297,"max_degree":27,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042789","count":19},{"id":"GO:0035331","count":19},{"id":"GO:1904948","count":19},{"id":"GO:0035849","count":19},{"id":"GO:0021521","count":19}]},{"hash":"235178151490439351","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by GO terms related to translation, ribosome biogenesis, rRNA processing and rRNA modification (pseudouridine synthesis and SSU maturation), indicating a cohesive module of ribosome assembly and protein synthesis. The presence of translational initiation and rRNA maturation terms supports a shared functional theme around ribosome production and function, with a few peripheral terms that are less central to this core process.","confidence":"High","size":29,"edges":404,"triangles":3601,"max_degree":28,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":24},{"id":"GO:0042254","count":9},{"id":"GO:0000462","count":8},{"id":"GO:0042273","count":4},{"id":"GO:0031120","count":3}]},{"hash":"909818507362579585","title":"Auditory Neuron Signaling and Junctions","description":"The cluster shows strong enrichment for terms tied to hearing-related mechanosensation (detection of mechanical stimulus in sound), nerve impulse transmission, and paranodal junction assembly, plus cell\u2013cell adhesion and modulation of signaling pathways. Together these point to proteins involved in auditory neuron signaling and the assembly/maintenance of neuronal junctions essential for rapid nerve conduction. Some terms are labeled obsolete, but the core theme remains neuronal signaling and junction architecture in the auditory system.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050910","count":8},{"id":"GO:0030913","count":7},{"id":"GO:0000187","count":5},{"id":"GO:0014068","count":5},{"id":"GO:0019226","count":5}]},{"hash":"1879371902912374517","title":"Central Energy Metabolism and Lipid Synthesis","description":"Predominant GO terms cluster around core energy metabolism (TCA cycle, glycolysis) and biosynthesis of lipids (long-chain fatty acids, malonyl-CoA), with several amino-acid catabolic/biosynthetic processes also present. A Notch signaling term and sodium transport appear as less central annotations, suggesting metabolism as the main theme. Thus the label fits the dominant functions of the cluster.","confidence":"High","size":29,"edges":406,"triangles":3654,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006099","count":11},{"id":"GO:0019878","count":10},{"id":"GO:0033512","count":9},{"id":"GO:0007219","count":8},{"id":"GO:0042853","count":8}]},{"hash":"623937121476310658","title":"Cardiovascular Development and Stress Signaling","description":"This cluster prominently features heart development and regulation of cardiac muscle proliferation, along with endothelial cell migration, indicating a cardiovascular development theme. It also includes terms related to cell cycle processes, ER stress-induced apoptotic signaling, and osmotic/osmosensory signaling, suggesting integration of stress responses with cardiovascular-related signaling. The combination points to a module where cardiovascular development is linked with cellular stress and signaling pathways.","confidence":"Medium","size":29,"edges":363,"triangles":2730,"max_degree":28,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060044","count":29},{"id":"GO:0007100","count":29},{"id":"GO:1901319","count":29},{"id":"GO:0007070","count":29},{"id":"GO:0043536","count":29}]},{"hash":"2194019847226861457","title":"Cerebellar neuron and glial development","description":"The cluster is dominated by GO terms for cerebellar cortex formation, Bergmann glial cell differentiation, and neuron development, with also contributions from axon regeneration regulation and insulin signaling, pointing to cerebellar maturation and neural-glial differentiation as the core theme. Some terms related to proteasomal regulation and nuclear transport may reflect general developmental regulation rather than cerebellum-specific functions.","confidence":"High","size":29,"edges":88,"triangles":69,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048666","count":21},{"id":"GO:0032435","count":21},{"id":"GO:0008286","count":20},{"id":"GO:0008285","count":20},{"id":"GO:0050852","count":20}]},{"hash":"39308679900987690","title":"GPCR-cGMP Signaling in Stimulus Responses","description":"The top terms point to GPCR- and cGMP-mediated signaling across diverse stimulus responses, including epinephrine, GM-CSF signaling, vascular permeability, and cardiac muscle relaxation, with olfactory signaling also present. This suggests a coherent theme of stimulus-evoked signaling involving guanylyl cyclase/cGMP pathways and related response processes.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0097011","count":9},{"id":"GO:0001824","count":9},{"id":"GO:0007608","count":8},{"id":"GO:0071321","count":8},{"id":"GO:0010754","count":8}]},{"hash":"342290993908325647","title":"Unknown","description":"The GO terms include bone mineralization, bone morphogenesis, neuromuscular posture control, insulin-stimulated glucose transport, and interferon-related responses, alongside general biotic-stimulus signaling and a few obsolete terms. This wide mix shows no single, shared function tying all 29 proteins together.","confidence":"","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035307","count":3},{"id":"GO:0010867","count":2},{"id":"GO:0009607","count":2},{"id":"GO:0030282","count":2},{"id":"GO:0035456","count":2}]},{"hash":"1368393121610352763","title":"Craniofacial development and embryogenesis with chromatin remodeling","description":"Dominant terms include cranial skeletal system development, embryonic morphogenesis, organ identity maintenance, and glial cell fate specification, along with papilla formation, indicating a developmental/craniofacial/neural program; additional terms on chromatin remodeling and GTPase regulation point to transcriptional control of these processes.","confidence":"Medium","size":29,"edges":389,"triangles":3235,"max_degree":28,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0015991","count":16},{"id":"GO:0007050","count":16},{"id":"GO:0080034","count":15},{"id":"GO:1904888","count":15},{"id":"GO:0010172","count":15}]},{"hash":"598680837719115470","title":"Metabolic Biosynthesis and Drug Response","description":"The terms are dominated by diverse biosynthetic and catabolic metabolic processes (poly-hydroxybutyrate, very long-chain fatty acids, retinal, melanin, acetoin) and by responses to antibiotics and chemotherapeutic agents (antibiotic, methotrexate). This suggests a cluster centered on general metabolism with concurrent xenobiotic/drug response activity, rather than a single tight pathway, justifying a broad label that captures both metabolism and drug response.","confidence":"Medium","size":29,"edges":240,"triangles":912,"max_degree":27,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":26},{"id":"GO:0042619","count":25},{"id":"GO:0006710","count":24},{"id":"GO:0008209","count":24},{"id":"GO:0046677","count":24}]},{"hash":"352345076929827549","title":"Apoptosis signaling and cell death processes","description":"Most top GO terms are apoptotic\u2014extrinsic death receptor signaling, cytochrome c release, and hepatocyte/glial cell apoptosis\u2014suggesting the cluster represents apoptosis pathways; a few terms touch glycosylation and signaling, but the dominant theme is apoptosis.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":4},{"id":"GO:0006919","count":3},{"id":"GO:0008625","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0032464","count":3}]},{"hash":"1182310590892801115","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":45,"triangles":1,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":3},{"id":"GO:0031426","count":2},{"id":"GO:0090617","count":2},{"id":"GO:1905639","count":2},{"id":"GO:0009793","count":2}]},{"hash":"1469525985080496624","title":"Neuronal ion channels and synaptic signaling","description":"This cluster centers on ion transport across membranes (K+, Na+, Ca2+) and diverse synaptic signaling (excitatory postsynaptic potentials, GABA, dopaminergic). The presence of behavioral terms like locomotory behavior, startle response, conditioned taste aversion, and circadian sleep regulation suggests neural circuits controlling behavior and arousal, making the label a good fit for both molecular and behavioral themes.","confidence":"High","size":29,"edges":29,"triangles":2,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":24},{"id":"GO:0035725","count":23},{"id":"GO:0060079","count":22},{"id":"GO:0001661","count":22},{"id":"GO:0007214","count":22}]},{"hash":"307806213047790710","title":"Yeast meiosis and sporulation processes","description":"Explanation: The cluster is dominated by terms like meiotic cell cycle, ascospore formation, and pseudohyphal growth, which are hallmark fungal sporulation and morphogenesis events (yeast-like fungi). Supporting terms such as DNA replication, G1/S transition, and vesicle transport fit into the broader cell-cycle and secretory changes that accompany sporulation. A few neural-related terms seem noisy relative to the main fungal-focused terms. Overall, the theme is fungal meiosis/sporulation and related cell-cycle processes.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051321","count":5},{"id":"GO:0070940","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0051533","count":4},{"id":"GO:0060079","count":3}]},{"hash":"1069464951319020183","title":"Cell Adhesion and Neural Development Cluster","description":"This cluster is dominated by GO terms for cell\u2013cell adhesion (heterophilic and homophilic) with strong signals for nervous system development and synapse assembly, pointing to adhesion molecules involved in neural connectivity. The presence of heart-conduction-specific adhesion, as well as immune-regulatory and ossification-related terms, suggests broader roles, but the unifying theme appears to be cell\u2013cell adhesion-driven signaling in neural development and intercellular communication.","confidence":"Medium","size":29,"edges":190,"triangles":234,"max_degree":18,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":16},{"id":"GO:0007156","count":15},{"id":"GO:0043931","count":14},{"id":"GO:0007399","count":12},{"id":"GO:0051965","count":11}]},{"hash":"631950718079609438","title":"Transcription and ribosome biogenesis","description":"The top GO terms are dominated by transcription-related processes (DNA-templated transcription, RNA Pol II promoter clearance, transcription regulation) and ribosome biogenesis, pointing to a set of proteins involved in nuclear gene expression and ribosome assembly. Some unrelated or obsolete terms appear, but the core signal ties to transcription machinery and ribosome production. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0001938","count":2}]},{"hash":"1973384356633630229","title":"Neuronal development and synaptic plasticity","description":"This cluster centers on neural development and synaptic function, with terms like dendrite morphogenesis, long-term potentiation, and neuron-related signaling (peptidyl-tyrosine autophosphorylation, prostaglandin response). A few terms (heart development, B cell affinity maturation) appear as noise or broader developmental annotations. Overall, the theme fits neuronal development and synaptic regulation, with moderate confidence due to some outlier terms.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904780","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0006397","count":4},{"id":"GO:0048813","count":4}]},{"hash":"381482774226929708","title":"Ubiquitin-Proteasome Regulation & Antiviral Immunity","description":"The top GO terms emphasize ubiquitin-dependent protein degradation and ubiquitination, with multiple immune-related terms (innate/adaptive immune response, defense against virus) suggesting these proteins function at the intersection of protein turnover and antiviral signaling. This label captures the core theme of ubiquitin-mediated regulation linked to immune responses.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0016567","count":12},{"id":"GO:0033280","count":11},{"id":"GO:0039536","count":9},{"id":"GO:0002250","count":9}]},{"hash":"1238302962040854838","title":"Unknown","description":"The top GO terms are highly diverse (kidney ion absorption, heart development, sensory perception, insulin signaling, GPCR pathways, lipid biosynthesis, GTPase regulation, and mitotic processes), with no single cohesive function tying the 29 proteins together; plus there are no edges or interactions evident, so a unified role cannot be inferred.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070294","count":3},{"id":"GO:0003281","count":2},{"id":"GO:0051262","count":2},{"id":"GO:0008595","count":2},{"id":"GO:0007605","count":2}]},{"hash":"1655226547621129456","title":"Endocytic trafficking and actin cytoskeleton dynamics","description":"The terms show a cohesive focus on intracellular transport, clathrin-dependent endocytosis, synaptic vesicle coating, and actin-based remodeling (microvilli, terminal web). While a few terms relate to cell cycle or muscle development, the dominant pattern is vesicle trafficking plus cytoskeletal dynamics, spanning neurons and muscle contexts.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":3},{"id":"GO:0016183","count":3},{"id":"GO:0072583","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0043524","count":2}]},{"hash":"1499136593606765864","title":"Musculoskeletal and nervous system development","description":"This cluster is driven by broad developmental terms across tissues (multicellular organism development, skeletal system and heart development, nervous system development) plus neuron projection development and sarcomere organization, with a theme of cytoskeletal remodeling via Rho signaling. An outlier term for B cell receptor signaling is present but does not override the main developmental/cytoskeletal signal. ","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":11},{"id":"GO:0001501","count":9},{"id":"GO:0035023","count":9},{"id":"GO:0031175","count":8},{"id":"GO:0007507","count":8}]},{"hash":"394109275842796888","title":"Embryonic Development and Tissue Morphogenesis","description":"The set is enriched for prenatal developmental processes across multiple tissues (neural tube closure, in utero development, roof of the mouth, thymus epithelium morphogenesis, pancreatic development) and includes general transcription/chromatin terms (DNA-templated transcription, nucleosome assembly), pointing to a group of proteins involved in developmental regulation and organ morphogenesis.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001843","count":4},{"id":"GO:0007338","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0006334","count":3}]},{"hash":"343656541467847817","title":"Cell Cycle and Developmental Signaling Regulators","description":"The top GO terms point to core cell cycle and cytoskeletal processes (GTPase regulation, microtubule movement, sister chromatid cohesion, double-strand break repair) alongside developmental signaling pathways (Wnt, ephrin signaling) and vascular development (endothelial tube formation), suggesting a cluster of proteins that coordinate cell division, cytoskeleton dynamics, and developmental signaling.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0000724","count":3},{"id":"GO:0007064","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0007018","count":3}]},{"hash":"2204579522286669801","title":"Actin cytoskeleton regulation and cell polarity","description":"The cluster\u2019s top GO terms are centered on actin cytoskeleton dynamics and signaling that govern cell shape and polarity (negative regulation of Rac/Rho pathways, stress fiber assembly, actin cortex localization, and maintenance of cell polarity). Additional terms like endothelial lumen formation and apoptotic processes may reflect broader morphogenesis roles tied to cytoskeletal remodeling, but the dominant theme is cytoskeleton regulation and polarity. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0051262","count":3},{"id":"GO:0051497","count":3},{"id":"GO:0035021","count":3}]},{"hash":"2088197611987523466","title":"Oocyte Meiosis and Chromosome Segregation","description":"The top GO terms are dominated by meiotic processes in oocytes (regulation of meiotic cell cycle in oocyte maturation, female meiotic nuclear division, meiotic spindle elongation, and sister chromatid cohesion/separation), indicating a cluster focused on oocyte meiosis and chromosome segregation. Some outliers (mRNA transport, extrinsic apoptotic signaling) are present but do not define the main theme. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:1903538","count":5},{"id":"GO:0070262","count":5},{"id":"GO:0007143","count":5},{"id":"GO:0051232","count":5},{"id":"GO:0051306","count":5}]},{"hash":"617570805251422066","title":"Excitatory synaptic signaling and ion transport","description":"The cluster is enriched for neuronal membrane activities: excitatory postsynaptic potential, sodium and potassium ion transmembrane transport, and membrane depolarization, indicating membrane excitability and synaptic transmission. The ER-to-Golgi vesicle transport term supports secretory pathway involvement common in neurons, while nuclear envelope and TGF-beta pathway terms appear less central to the core theme. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0051899","count":3}]},{"hash":"265340361902268602","title":"Angiogenesis and organ development signaling","description":"The top GO terms cluster around regulation of angiogenesis (positive and negative), BMP and ERK signaling, collagen fibril organization, and development of lung and heart, suggesting a common theme of vascular-driven organ morphogenesis with ECM remodeling. While defense-related terms appear, the dominant pattern points to signaling networks guiding angiogenesis and organ (lung/heart) development.","confidence":"Medium","size":29,"edges":20,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0030513","count":4},{"id":"GO:0016525","count":4}]},{"hash":"2171443916956072109","title":"Developmental Transcription and Morphogenesis","description":"Top GO terms emphasize DNA-templated transcription and regulation of histone modifications, together with embryonic morphogenesis processes (cranial skeleton, trigeminal nerve, lens differentiation, BMP signaling). This suggests the cluster comprises proteins involved in controlling gene expression during embryonic development and tissue morphogenesis.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051571","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0048701","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0021740","count":3}]},{"hash":"979885235384167080","title":"Embryonic Development and Patterning","description":"The top GO terms cluster around embryogenesis and tissue morphogenesis across multiple lineages, including mesoderm development, heart-related endocardial cushion formation, cartilage and facial structure formation, placenta-related differentiation, left-right patterning, and endocrine system development, indicating a group of proteins involved in early development and organ patterning rather than a single tissue-specific function.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":26},{"id":"GO:0060536","count":26},{"id":"GO:0003323","count":26},{"id":"GO:0060707","count":26},{"id":"GO:0060806","count":26}]},{"hash":"671731697003809349","title":"Lipid and Carbohydrate Metabolism with Fermentation","description":"The top GO terms cluster around metabolic processes: fatty acid biosynthesis (lipids), fructose biosynthesis and sorbitol catabolic processes (carbohydrates), retinol/retinoic acid metabolic processes (retinoids), and pyruvate fermentation to ethanol and related amino acid catabolic pathways (energy production and alcohol metabolism). There is also a general oxidative-reduction process term, which aligns with metabolic redox balance. Taken together, these terms point to a cohesive theme of diverse metabolic pathways and energy-yielding processes rather than signaling or structural roles, justifying a label centered on metabolism with emphasis on lipid and carbohydrate pathways and fermentation.","confidence":"High","size":28,"edges":377,"triangles":3250,"max_degree":27,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0006633","count":22},{"id":"GO:0046370","count":15},{"id":"GO:0042572","count":15},{"id":"GO:0055114","count":13},{"id":"GO:0032496","count":12}]},{"hash":"1149245733307852490","title":"Calcium signaling and muscle contraction","description":"The cluster\u2019s top GO terms cluster around calcium mobilization and signaling pathways that drive muscle activity, including release of sequestered calcium, PLC-linked serotonin receptor signaling, and regulation of cardiac and smooth muscle contraction. Additional terms hint at tissue-wide calcium-dependent signaling (temperature response, immune cell signaling, urine regulation). Taken together, the dominant pattern points to calcium-mediated signaling coordinating muscle function across tissues, justifying this label.","confidence":"High","size":28,"edges":322,"triangles":2076,"max_degree":27,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":27},{"id":"GO:0007208","count":27},{"id":"GO:0055117","count":27},{"id":"GO:0007497","count":27},{"id":"GO:0048245","count":27}]},{"hash":"1477015020416993335","title":"Amino acid biosynthesis and mitochondrial translation","description":"Top terms indicate broad amino acid biosynthetic pathways (lysine via different routes, arginine via ornithine, proline, alanine catabolism) as well as cofactor and heme biosynthesis (biotin, protoporphyrinogen IX) and mitochondrial translation. This suggests a cluster centered on amino acid/cofactor metabolism with a mitochondrial protein synthesis context; peripheral terms like GABA catabolism and cocaine-related behavior may reflect broader metabolic or neuronal links. Confidence reflects a plausible, cohesive theme but some terms are peripheral, so Medium.","confidence":"Medium","size":28,"edges":18,"triangles":7,"max_degree":4,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0009089","count":7},{"id":"GO:0019878","count":7},{"id":"GO:0042450","count":6},{"id":"GO:0032543","count":6},{"id":"GO:0019481","count":5}]},{"hash":"1896247483270795111","title":"RNA Processing and Translation Regulation","description":"This cluster is enriched for translation-related terms (preinitiation complex formation, translation reinitiation, regulation of translational initiation, IRES-dependent initiation) alongside RNA processing terms (spliceosome-mediated splicing, regulatory ncRNA-mediated gene silencing, rRNA maturation), suggesting a cohesive module coordinating RNA processing with translation control.","confidence":"High","size":28,"edges":9,"triangles":1,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":13},{"id":"GO:0002188","count":13},{"id":"GO:0048026","count":12},{"id":"GO:0031047","count":11},{"id":"GO:0006378","count":10}]},{"hash":"1562154970023639055","title":"DNA Replication and Cell Cycle","description":"Most top GO terms point to nuclear DNA processes (DNA-templated transcription, DNA replication, G1/S transition of mitotic cell cycle, meiotic cell cycle, kinetochore localization), suggesting a cluster enriched for cell-cycle and DNA maintenance functions. Some terms appear neuronal or fungal (excitatory postsynaptic potential, Schwann cell development, ascospore formation), likely noise, but the core theme centers on DNA and cell division.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0060079","count":7},{"id":"GO:0014044","count":7},{"id":"GO:0006260","count":7},{"id":"GO:0000082","count":6}]},{"hash":"1884394855233422566","title":"Lens fiber differentiation and integrin-cytoskeleton signaling","description":"Most terms cluster around lens biology and cell adhesion: lens fiber cell differentiation (GO:0070306) alongside regulation of cell polarity and integrin-mediated signaling, and regulation of actin cytoskeleton dynamics (stress fiber assembly, cytoskeleton reorganization). The emphasis on integrin-dependent cell adhesion and signal complex assembly suggests a pathway where differentiation cues are coordinated with cytoskeletal remodeling via integrin signaling, consistent with lens cell maturation and adhesion processes.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0070306","count":6},{"id":"GO:2000114","count":6},{"id":"GO:0007229","count":6},{"id":"GO:0032092","count":6},{"id":"GO:0031532","count":6}]},{"hash":"1927674047495723737","title":"Proteostasis and organelle quality control","description":"The cluster is dominated by ubiquitin-related and proteostasis processes (protein deubiquitination, ERAD, sumoylation, aggresome formation) along with organelle quality-control pathways (mitophagy, mitochondrial fusion regulation), suggesting a coherent protein turnover and damaged-organelle clearance theme, despite a few peripheral terms.","confidence":"High","size":28,"edges":367,"triangles":3014,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":11},{"id":"GO:0030433","count":10},{"id":"GO:0016925","count":9},{"id":"GO:0045648","count":8},{"id":"GO:1904378","count":8}]},{"hash":"1307961999514286143","title":"Chromatin remodeling and transcription regulation","description":"Top GO terms indicate a strong emphasis on chromatin remodeling and DNA-templated transcription, with supporting signals from transcriptional regulation by RNA polymerase II. Although a few terms touch on other processes, the dominant theme is nuclear gene expression control, justifying the label as a chromatin/transcription regulation cluster.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043044","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0045654","count":6},{"id":"GO:0043046","count":6},{"id":"GO:0030042","count":5}]},{"hash":"145996873463366228","title":"Nervous system development and myelination","description":"The cluster features multiple GO terms centered on neural development, axonal fasciculation, synapse assembly, and myelination, plus cell adhesion, indicating a neural development module. Some terms about bone formation and innate immunity are less central, likely background or pleiotropic annotations.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0014068","count":11},{"id":"GO:0007157","count":9},{"id":"GO:0007413","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0051965","count":9}]},{"hash":"743246719419948971","title":"Embryonic development and secretory pathway","description":"These proteins appear linked to early development (axis formation, placenta development, somite patterning) and to the secretory pathway (ER-Golgi trafficking and Wnt secretion via COPI vesicles), suggesting a function in processing and trafficking signaling components during embryogenesis. A noisy term about aggressive behavior is likely incidental.","confidence":"Medium","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":3},{"id":"GO:0001893","count":3},{"id":"GO:0007311","count":3},{"id":"GO:0035964","count":3},{"id":"GO:0070863","count":3}]},{"hash":"469742284802561265","title":"Innate Immune Activation and Inflammatory Cytokine Production","description":"This cluster is dominated by GO terms for innate immune response, TLR4 signaling, pyroptotic inflammatory response, apoptotic processes, and production of IL-1\u03b2 and IL-18, along with MHC class I biosynthesis and protein ubiquitination. These terms together point to inflammasome- and cytokine-mediated innate immune signaling. The mitotic spindle assembly term appears as a less representative outlier; the core theme appears to be inflammatory immunity rather than cell division. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090307","count":10},{"id":"GO:0045087","count":9},{"id":"GO:0016567","count":9},{"id":"GO:0034142","count":8},{"id":"GO:0070269","count":8}]},{"hash":"775412460165113419","title":"Collagen ECM and Angiogenesis","description":"The top GO terms are dominated by collagen biosynthesis and fibril organization, integrin-mediated signaling, and endothelial/angiogenic pathways (VEGF signaling and endothelial tube morphogenesis), suggesting a theme of extracellular matrix assembly/remodeling coupled with vascular development. The presence of BMP signaling and Notch-related processing further supports a developmental, ECM-rich context in which these processes operate. While a few terms are less directly connected (e.g., fertilization), the central motif centers on collagen-rich extracellular matrix and angiogenic signaling.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032964","count":12},{"id":"GO:1900748","count":12},{"id":"GO:0030199","count":12},{"id":"GO:0007229","count":12},{"id":"GO:0071773","count":12}]},{"hash":"49559454512167581","title":"Mitotic Chromosome Assembly and Segregation","description":"The cluster is strongly enriched for mitosis-related terms (mitotic cell cycle, cell division, mitotic sister chromatid segregation) and centromere-associated chromatin assembly (CENP-A containing chromatin assembly), suggesting proteins coordinating chromosome condensation/segregation during cell division. Some histone acetylation terms and transcription-related terms appear, but the dominant theme remains mitosis and chromatin organization.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":10},{"id":"GO:0043981","count":10},{"id":"GO:0043966","count":10},{"id":"GO:0043982","count":10},{"id":"GO:0006351","count":9}]},{"hash":"2211626393669954115","title":"Stress-Response and Apoptosis","description":"The cluster contains GO terms for xenobiotic and lipopolysaccharide responses, cytolysis, and apoptotic processes, indicating a theme of cellular stress and programmed cell death; some terms appear incidental (embryonic development, D-serine catabolic process) but overall the pattern supports stress- and apoptosis-related function.","confidence":"Medium","size":28,"edges":2,"triangles":0,"max_degree":2,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0042493","count":5},{"id":"GO:0019835","count":5},{"id":"GO:0032496","count":4},{"id":"GO:0010044","count":4}]},{"hash":"263592331913238954","title":"Embryonic morphogenesis and craniofacial development","description":"The cluster shows a strong bias toward developmental and morphogenetic processes, notably embryonic body morphogenesis and cranial skeletal system development, with additional terms for papilla formation. Complementing this, GO terms for cell migration, regulation of GTPase and Wnt signaling, apoptosis, and proliferation regulation point to coordinated tissue patterning and growth control during development. A few terms also hint at host\u2013symbiont interactions, but the dominant theme remains embryonic morphogenesis and craniofacial/taste structure formation.","confidence":"High","size":28,"edges":93,"triangles":125,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016477","count":13},{"id":"GO:0043547","count":12},{"id":"GO:0006607","count":12},{"id":"GO:0090090","count":12},{"id":"GO:0043065","count":12}]},{"hash":"1539146866433343698","title":"DNA Damage Response and Cell Cycle Control","description":"This cluster shows a cohesive theme of genome maintenance and stress response: base-excision repair, DNA recombination, and DNA catabolic processes point to DNA repair and processing; apoptotic process indicates cell fate decisions after damage; and positive regulation of G1/S transition suggests coordinated cell-cycle control in response to genomic stress, along with responses to xenobiotic and peptide hormone signals.","confidence":"High","size":28,"edges":82,"triangles":104,"max_degree":17,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:1900087","count":9},{"id":"GO:0007568","count":9},{"id":"GO:0006284","count":9},{"id":"GO:0042493","count":8},{"id":"GO:0006310","count":8}]},{"hash":"2127532558077879568","title":"Rab-GPCR vesicle trafficking and signaling","description":"This cluster centers on Rab-dependent signal transduction and GPCR signaling, with a strong emphasis on vesicle transport from Golgi to ER, exosomal secretion, and downstream ERK cascade regulation. The presence of exosome secretion, retrograde Golgi-to-ER transport, and ERK modulation, alongside GPCR and Rab signaling terms, points to a cohesive module linking receptor signaling with intracellular trafficking and vesicle dynamics.","confidence":"High","size":28,"edges":238,"triangles":1028,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032482","count":27},{"id":"GO:0007186","count":27},{"id":"GO:0006890","count":27},{"id":"GO:0070374","count":27},{"id":"GO:0090324","count":27}]},{"hash":"1896084477109408328","title":"Eye development and dopaminergic signaling","description":"The top GO terms center on retina/eye development and visual perception, with supporting neural signaling processes such as dopaminergic synaptic transmission, ERK/GTPase regulation, and calcium release, suggesting proteins involved in visual system development and associated neuronal signaling. Although some terms (like heart development) are broader or less specific, the core theme is retinal/eye development linked to neural signaling pathways. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":20},{"id":"GO:0007601","count":20},{"id":"GO:0060041","count":20},{"id":"GO:0051209","count":19},{"id":"GO:0070374","count":19}]},{"hash":"1032960959355240099","title":"Cardiac Development and Signaling Regulation","description":"Top GO terms show strong representation for heart development and cardiac muscle contraction, with accompanying signals in angiogenesis regulation and insulin signaling pathways, as well as broader regulation of Ras/Rho and kinase activities. This combination points to a cluster of proteins coordinating cardiovascular development and signaling networks that control heart function and metabolic signaling.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007507","count":8},{"id":"GO:0016525","count":8},{"id":"GO:0060048","count":8},{"id":"GO:2001275","count":7},{"id":"GO:0046580","count":7}]},{"hash":"1888059167540339607","title":"Unknown","description":"The GO terms associated with these proteins cover RNA stability regulation, cell migration, apoptosis in hepatocytes and myeloid cells, epithelial polarity, calcium signaling, SNARE complex regulation, NF-kappaB sequestration, and dendritic cell differentiation. This diverse mix lacks a single coherent function or pathway linking the proteins, so no meaningful unifying label can be assigned.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043488","count":12},{"id":"GO:0016477","count":12},{"id":"GO:0097284","count":12},{"id":"GO:0033028","count":12},{"id":"GO:0090162","count":12}]},{"hash":"826364946948661446","title":"Neurodevelopment and Eye Morphogenesis","description":"This cluster centers on developmental processes, especially neural and sensory organ formation. Strong signals include embryonic and camera-type eye development, habenula and hypothalamus differentiation, and motor neuron axon guidance, with transcriptional regulation as a supporting mechanism. The terms together suggest genes involved in early neural patterning and eye morphogenesis.","confidence":"Medium","size":28,"edges":23,"triangles":0,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":15},{"id":"GO:0008045","count":10},{"id":"GO:0048048","count":10},{"id":"GO:0006366","count":10},{"id":"GO:0008584","count":9}]},{"hash":"1661699363670144492","title":"Ubiquitin-Proteostasis and Autophagy Regulation","description":"This cluster centers on ubiquitin-mediated protein quality control, including deubiquitination and ERAD, and extends to regulation of autophagy-related processes (aggrephagy, autophagosome maturation) and related trafficking pathways (endocytosis). These themes suggest a coherent function in protein degradation and autophagy control across the proteins.","confidence":"High","size":28,"edges":377,"triangles":3250,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":11},{"id":"GO:0030433","count":11},{"id":"GO:0034140","count":10},{"id":"GO:1901097","count":10},{"id":"GO:0010216","count":9}]},{"hash":"668964415474991366","title":"Organ Development and Transcription Regulation","description":"This cluster is characterized by strong signals for transcriptional regulation (negative regulation of transcription by RNA Pol II; DNA-templated transcription) together with diverse organ development terms (inner ear, pituitary, endocrine pancreas, heart, hypothalamus, cerebellum, dopaminergic neurons). This points to proteins involved in controlling transcription during multiple organogenesis and neuroendocrine development rather than a single tissue-specific function.","confidence":"Medium","size":28,"edges":9,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":15},{"id":"GO:0006351","count":8},{"id":"GO:0048839","count":8},{"id":"GO:0021983","count":7},{"id":"GO:0031018","count":7}]},{"hash":"1144191650619403560","title":"Neural development and RNA processing","description":"Enriched for nervous system development and calcium-dependent exocytosis, plus RNA processing and transcription regulation terms, indicating a cluster of proteins involved in neural development and gene expression control; immune-related terms likely reflect broader regulatory roles but do not dominate the theme.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0007399","count":5},{"id":"GO:0045956","count":5},{"id":"GO:0006370","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0048026","count":4}]},{"hash":"146268516396963388","title":"Unknown","description":"This group lists terms from renal physiology (renal sodium absorption, distal tubule morphogenesis), muscle development, immune signaling (germinal center formation, B cell receptor signaling), circadian rhythm, and ubiquitination, with no single shared function. The lack of a unifying theme and no network edges suggest the cluster is heterogeneous, so Unknown with no confidence.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070294","count":5},{"id":"GO:0002467","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0031397","count":4},{"id":"GO:2000312","count":4}]},{"hash":"1408675877888633413","title":"Sarcomere organization and actin dynamics","description":"This cluster is enriched for sarcomere organization, actin filament-based movement, and regulation of skeletal muscle contraction, pointing to roles in cytoskeletal organization and motor activity. Additional terms touch on Rho signaling, cell spreading, and microtubule minus-end localization, suggesting broader cytoskeletal remodeling that supports muscle contraction and cell adhesion. The prominence of sarcomere and actin-related terms makes this label descriptive and specific.","confidence":"High","size":28,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0045214","count":4},{"id":"GO:2000009","count":3},{"id":"GO:0007182","count":2}]},{"hash":"763484237247750333","title":"Immune signaling and migration via Ras/Rac GTPases","description":"The top GO terms point to regulation of Ras and Rac GTPase signaling, small GTPase pathways, and actin remodeling (lamellipodium assembly, cell migration), coupled with lymphocyte development signals (interleukin-4 production, IL-7 response, NK T and B cell differentiation). This suggests a cohesive theme of immune cell signaling and motility governed by Ras/Rac GTPases.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046580","count":25},{"id":"GO:0032633","count":25},{"id":"GO:0007507","count":25},{"id":"GO:0002344","count":25},{"id":"GO:0035020","count":25}]},{"hash":"1502211006138069034","title":"Unknown","description":"The terms span several broad and unrelated areas: spindle assembly and telomere maintenance imply cell cycle and genome stability, while Wnt signaling, CNS projection neuron axonogenesis, equilibrioception, sensory perception of sound, and brush border assembly point to various developmental and sensory processes. This mixture lacks a single cohesive function or pathway that ties all proteins together, so a concise, specific label cannot be assigned.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051225","count":2},{"id":"GO:0070198","count":2},{"id":"GO:0032212","count":2},{"id":"GO:1900383","count":2},{"id":"GO:0016055","count":2}]},{"hash":"947424581646744107","title":"Neural signaling and social behavior","description":"The cluster shows dominant GO terms for neural signaling and behavior (grooming behavior regulation, vocalization, social behavior, and chemical synaptic transmission), indicating proteins involved in neural communication and behavior. While there are also terms related to mRNA processing and chromatin, the strongest theme centers on nervous system signaling and behavioral regulation.","confidence":"Medium","size":28,"edges":13,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:2000821","count":3},{"id":"GO:0071625","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0006378","count":3},{"id":"GO:0006334","count":3}]},{"hash":"789224356889492267","title":"Angiogenesis Regulation and Vascular Remodeling","description":"This cluster shows multiple GO terms tied to blood vessel formation (angiogenesis) and its regulation (positive and negative), plus collagen fibril organization and fibrinolysis/coagulation, indicating ECM remodeling during vascular development and clotting control. Endothelial cell survival and platelet/anticoagulation terms suggest coordinated regulation of vessel stability and thrombosis risk. Overall, the proteins likely function together in vascular development and maintenance.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":6},{"id":"GO:0042730","count":5},{"id":"GO:0045766","count":5},{"id":"GO:0016525","count":5},{"id":"GO:0001525","count":5}]},{"hash":"2101128627509336413","title":"Neutrophil and Mast Cell Activation Network","description":"This cluster is dominated by terms related to innate immune cell signaling: neutrophil extravasation and clearance, mast cell degranulation/activation, and antibody-dependent cellular cytotoxicity. These points suggest a cohesive module of inflammatory activation and effector functions. Some neuronal terms appear in the set, possibly reflecting multifunctional proteins or annotation overlap, but they do not override the primary immune-focused theme.","confidence":"Medium","size":28,"edges":376,"triangles":3225,"max_degree":27,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:2000391","count":28},{"id":"GO:0031175","count":28},{"id":"GO:0048675","count":28},{"id":"GO:0043303","count":28},{"id":"GO:0001788","count":28}]},{"hash":"1842634827175999238","title":"Unknown","description":"The terms are highly diverse (calcium release, SNARE regulation, spindle assembly, apoptosis, NF-kappaB, redox homeostasis, and even locomotion behavior) with no unifying function. The 0-edge network supports lack of cohesion, so a single representative label cannot be determined.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035641","count":3},{"id":"GO:0045454","count":3},{"id":"GO:0010845","count":2},{"id":"GO:0035544","count":2},{"id":"GO:0051209","count":2}]},{"hash":"1091865216052329890","title":"Neurodevelopment and synaptic morphogenesis","description":"This cluster centers on proteins involved in neural development and the formation of synaptic structures, as evidenced by dendritic spine morphogenesis and social behavior terms. Supporting roles in transcriptional regulation, signaling modulation (e.g., calcineurin-NFAT, CDK activity, GTPase activation), and vesicle trafficking (COPII) suggest coordination of gene expression, signaling, and secretory pathways essential for neuronal growth and synapse formation. The heart and semicircular canal morphogenesis terms reflect broader developmental processes but do not override the neural-centric pattern. ","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:0051534","count":3},{"id":"GO:0045737","count":3},{"id":"GO:0090630","count":3},{"id":"GO:0090110","count":3}]},{"hash":"720380894535365293","title":"Neural signaling and sensory perception","description":"The top GO terms cluster around sensory perception (pain, vision), dopaminergic synaptic transmission, and behavioral responses (e.g., to cocaine), all pointing to nervous system signaling and processing. Additional terms reflect signaling cascade regulation (ERK, GTPase) and inflammatory signaling (prostaglandin response), suggesting coordinated neuronal signaling and behavior with some broader signaling connections. The heart development term is less aligned but may reflect shared developmental programs. Overall, the dominant theme is neural signaling and sensory/behavioral responses, with a Medium confidence. ","confidence":"Medium","size":27,"edges":238,"triangles":915,"max_degree":25,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":24},{"id":"GO:0007507","count":23},{"id":"GO:0070374","count":23},{"id":"GO:0001963","count":23},{"id":"GO:0071380","count":23}]},{"hash":"1715705195971587965","title":"Neuroimmune signaling and neural plasticity","description":"This cluster appears to merge immune-related signaling (response to lipopolysaccharide, positive regulation of inflammatory response, granulocyte chemotaxis) with neural development and synaptic functions (axonogenesis, long-term potentiation), along with transcriptional and translational regulation and apoptosis. The combination suggests proteins that mediate neuroimmune communication while influencing neuronal growth and synaptic plasticity, hence the label reflecting both immune and neural/plastic roles.","confidence":"Medium","size":27,"edges":81,"triangles":76,"max_degree":17,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0000122","count":21},{"id":"GO:0051290","count":19},{"id":"GO:0008284","count":13},{"id":"GO:0032496","count":12},{"id":"GO:0006417","count":12}]},{"hash":"1830096352534961574","title":"Hexosamine biosynthesis and PPP metabolism","description":"Top GO terms cluster around carbohydrate metabolism, notably the pentose-phosphate shunt (oxidative branch) and UDP-N-acetylglucosamine biosynthesis, with additional GlcNAc/neuraminic acid catabolism and related processes. This points to a core theme of hexosamine biosynthesis and the pentose phosphate pathway, providing nucleotide-sugar donors for glycosylation and NADPH/ribose-5-phosphate, though a few terms like proteolysis or response to amine appear peripheral. Confidence: Medium","confidence":"","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0006098","count":5},{"id":"GO:0005975","count":4},{"id":"GO:0006048","count":4},{"id":"GO:0048146","count":3},{"id":"GO:0006508","count":3}]},{"hash":"777866587607901092","title":"Neural Sensory Processing and Dopaminergic Signaling","description":"The cluster is dominated by GO terms related to sensory perception (pain, vision), dopaminergic synaptic transmission, and behavioral responses to drugs like cocaine, along with temperature-related responses and ERK signaling. This points to a core theme of neural signaling and sensory processing with dopaminergic involvement, with additional entries in thermoregulation and development that may be peripheral.","confidence":"Medium","size":27,"edges":25,"triangles":1,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":19},{"id":"GO:0001963","count":18},{"id":"GO:0071502","count":17},{"id":"GO:0007507","count":17},{"id":"GO:0070374","count":17}]},{"hash":"1295075700175967167","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by GO terms for ribosome biogenesis (including small and large subunit biogenesis), cytoplasmic translation, tRNA modification, and ribosomal subunit export from the nucleus, with additional links to cell division/cell cycle and septum formation. Together, these terms point to a coordinated program of ribosome assembly and protein synthesis closely tied to cell growth and division.","confidence":"High","size":27,"edges":3,"triangles":0,"max_degree":2,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0042254","count":6},{"id":"GO:0042274","count":6},{"id":"GO:0006400","count":5},{"id":"GO:0002181","count":5}]},{"hash":"2012055387096877889","title":"Cell adhesion and ECM remodeling in development","description":"This cluster is dominated by GO terms for cell-matrix and cell-cell adhesion, and extracellular matrix remodeling (hyaluronan biosynthesis), together with sprouting angiogenesis and multicellular development. These themes suggest a cohesive function in tissue adhesion and ECM-driven development. Immune-related terms (complement activation, LPS response) appear as ancillary signals that can intersect with development and ECM contexts, but the core signal is adhesion and ECM remodeling during development.","confidence":"Medium","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007160","count":20},{"id":"GO:0007157","count":20},{"id":"GO:0001867","count":19},{"id":"GO:0006590","count":19},{"id":"GO:0090050","count":16}]},{"hash":"1532562360905855116","title":"RNA processing and ribosome biogenesis","description":"The proteins are enriched for rRNA maturation (SSU/LSU/5.8S), ribosomal large subunit biogenesis, and translation initiation/reinitiation, with additional signals of RNA regulatory processes and mRNA splicing. This indicates a cluster focused on RNA processing and ribosome assembly with translation control.","confidence":"High","size":27,"edges":5,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":8},{"id":"GO:0048026","count":8},{"id":"GO:0000463","count":7},{"id":"GO:0000466","count":7},{"id":"GO:0042273","count":7}]},{"hash":"968075999069160696","title":"Neuronal development and signaling","description":"The top GO terms cluster around neural development and function, including dendrite morphogenesis, sensory perception of pain, and Wnt signaling in development, plus transcriptional regulation and ion transport typical of neurons. While there are broader development and chemotaxis terms, the dominant theme is neural development and signaling.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":23},{"id":"GO:0007275","count":22},{"id":"GO:0046827","count":22},{"id":"GO:0019233","count":22},{"id":"GO:0006935","count":22}]},{"hash":"1639904000760300451","title":"TLR4\u2013NF-kB Innate Immune Signaling","description":"Based on the prominent terms for innate immune response, TLR4 signaling, and NF-kappaB activation (with accompanying chemokine production and memory), the cluster appears to group proteins involved in initiating and modulating innate immune signaling through the NF-kB pathway. Some transcription/translation regulation and apoptosis terms are present but supportive of broader immune signaling context.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0032602","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0006417","count":8},{"id":"GO:0006915","count":8}]},{"hash":"1364662676465915872","title":"Developmental morphogenesis and ion transport","description":"This cluster centers on developmental and morphogenetic processes (embryonic cranial skeleton morphogenesis, dendritic spine morphogenesis, budding growth, cardiac proliferation) with a strong representation of potassium ion transport, suggesting roles in tissue development and neuronal/heart function tied to ion homeostasis. While there are also general cellular processes like DNA replication and viral replication regulation, the dominant themes point to morphogenesis and ion regulation rather than a single pathway.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006813","count":17},{"id":"GO:0048701","count":17},{"id":"GO:0006260","count":17},{"id":"GO:0008285","count":17},{"id":"GO:0060044","count":16}]},{"hash":"1021093327195820320","title":"Neural and T-cell developmental signaling","description":"This cluster aggregates GO terms tied to developmental signaling across nervous and immune contexts: ERK/MAPK pathway regulation, axon growth and guidance, nervous system development, focal adhesion dynamics, and T cell\u2013specific processes like beta selection and TCR signaling. The shared theme is signaling networks driving development in neural and thymic/immune lineages, with components of cell cycle and protein stability reinforcing active growth and differentiation.","confidence":"Medium","size":27,"edges":18,"triangles":1,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":26},{"id":"GO:0070374","count":24},{"id":"GO:0033138","count":24},{"id":"GO:0045773","count":24},{"id":"GO:0050771","count":24}]},{"hash":"1224501687080178936","title":"Translation initiation and protein quality control","description":"This cluster is dominated by GO terms tied to translating initiation and preinitiation complex formation (regulation of translational initiation; formation of translation preinitiation complex; IRES-dependent viral translational initiation), along with processes tied to protein turnover (ubiquitin-dependent protein catabolic process; ERAD-related maintenance of unfolded protein). Together, these suggest a cohesive theme of coordinating protein synthesis with quality control and degradation pathways. Some secondary terms (DNA repair, histone deubiquitination) are less central but do not override the primary proteostasis/translation signal.","confidence":"High","size":27,"edges":29,"triangles":28,"max_degree":7,"top_function":"DNA repair","top_go_terms":[{"id":"GO:1904378","count":4},{"id":"GO:0006446","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0075522","count":4},{"id":"GO:0006281","count":4}]},{"hash":"1527014096759529154","title":"Neural development and neurotransmitter transport","description":"This cluster\u2019s top GO terms point to neural development (thalamus and adenohypophysis development) alongside growth of perineurial glia, and to neurotransmitter handling (serotonin secretion, dopamine uptake and catabolism) and amino acid transport (proline, glycine, leucine). The combination suggests proteins involved in neural development and the transport/metabolism of neurotransmitters and amino acids. The label emphasizes both developmental roles and neuronal signaling/transport functions.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021794","count":9},{"id":"GO:0042066","count":8},{"id":"GO:0015824","count":8},{"id":"GO:0036233","count":8},{"id":"GO:0014064","count":8}]},{"hash":"163282110949525011","title":"Immune and Hormonal Signaling Regulators","description":"The cluster shows enrichment for innate immune responses (innate immune response, dsRNA response, interferon response, defense regulation) alongside components involved in hormonal signaling (steroid hormone receptor assembly, GPCR signaling regulation) and reproductive development (prostate gland development, male sex differentiation). This pattern suggests a set of regulatory proteins that participate in both immune signaling and hormone-responsive pathways, rather than a single, cohesive pathway.","confidence":"Medium","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0009938","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0008277","count":5},{"id":"GO:0006463","count":5},{"id":"GO:0071360","count":5}]},{"hash":"1852826112644898945","title":"TNF/IL-1 Driven Inflammatory Response","description":"This cluster is dominated by GO terms involving cellular responses to tumor necrosis factor and interleukin-1, along with monocyte activation, indicating a cohesive theme of inflammatory cytokine signaling and immune activation. Notch signaling and keratinocyte differentiation appear as additional, but less central, context, suggesting some differentiation connections but the core pattern remains inflammatory response. ","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071356","count":6},{"id":"GO:0055114","count":6},{"id":"GO:0048570","count":5},{"id":"GO:0042117","count":5},{"id":"GO:0071347","count":5}]},{"hash":"1369969873538149248","title":"Mitochondrial import and fission regulation","description":"Based on the top GO terms, the cluster is enriched in mitochondrial-related processes: import into the mitochondrial matrix, mitochondrial fission, and regulation of mitochondrial membrane permeability, plus related lipid and metabolic regulation. While there are some cell cycle and signaling terms, the strongest recurring theme is mitochondrial function, suggesting proteins involved in mitochondrial dynamics and import.","confidence":"High","size":27,"edges":25,"triangles":8,"max_degree":7,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0070940","count":6},{"id":"GO:2000134","count":6},{"id":"GO:0030150","count":6},{"id":"GO:1903740","count":6},{"id":"GO:0010867","count":6}]},{"hash":"1585580636826084621","title":"Neural adhesion and paranodal junctions","description":"This cluster concentrates on GO terms tied to neural cell\u2013cell adhesion (both heterophilic and homophilic), nervous system development, and axonal domain organization (paranodal and juxtaparanodal junctions) as well as synapse assembly. The repeated emphasis on adhesion molecules and axon\u2013glia junction components suggests a coherent role in neural tissue organization during development. Occasional bone-related terms appear but do not dominate the signal.","confidence":"Medium","size":27,"edges":4,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":21},{"id":"GO:0007156","count":19},{"id":"GO:0043931","count":18},{"id":"GO:0007399","count":17},{"id":"GO:0051965","count":16}]},{"hash":"852438153827471780","title":"Chromatin remodeling and transcription regulation","description":"This cluster is dominated by GO terms related to chromatin dynamics and transcription control, including transcriptional repression, chromatin remodeling during transcription initiation, chromatin assembly during DNA replication, and nucleus organization. The convergence on chromatin-related processes (chromatin assembly, heterochromatin formation, localization to chromatin) suggests a cohesive module of chromatin remodeling/transcription regulation rather than disparate functions.","confidence":"High","size":27,"edges":332,"triangles":2506,"max_degree":26,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000122","count":22},{"id":"GO:0051290","count":22},{"id":"GO:0071169","count":19},{"id":"GO:0045815","count":18},{"id":"GO:0006335","count":18}]},{"hash":"437418088382035946","title":"Secretory and endocytic vesicle trafficking","description":"The top GO terms cluster around vesicle trafficking and membrane dynamics\u2014exocytosis regulation, ER\u2013Golgi transport, endosome-to-lysosome transport, and lysosomal membrane organization\u2014along with epithelial polarity and podosome-related membrane remodeling. Lipoprotein assembly and hepatocyte apoptosis fit within secretory/liver lipid handling contexts, reinforcing a theme of secretory and endocytic pathway regulation. Overall, the proteins appear tied to vesicle trafficking and membrane organization in secretory and polarized cells.","confidence":"High","size":27,"edges":10,"triangles":0,"max_degree":5,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0045956","count":6},{"id":"GO:0097212","count":5},{"id":"GO:0033028","count":5},{"id":"GO:1902307","count":5},{"id":"GO:1902953","count":5}]},{"hash":"1711689710472317015","title":"Neuronal Signaling and Synaptic Plasticity","description":"Top terms center on synaptic signaling and calcium/cAMP pathways (excitatory postsynaptic potential, long-term synaptic depression, calcineurin-NFAT), suggesting a neural signaling/plasticity theme; other terms are broader (morphine response, NF-kB signaling, morphogenesis), likely reflecting wider annotations rather than a single cohesive function.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060079","count":7},{"id":"GO:0019933","count":5},{"id":"GO:1905205","count":5},{"id":"GO:0030437","count":5},{"id":"GO:0001569","count":5}]},{"hash":"1258033882985776343","title":"Actin Cytoskeleton Remodeling and Mechanotransduction","description":"The cluster is dominated by GO terms tied to actin dynamics and cell movement\u2014filopodium and stress fiber assembly, Rac signaling, substrate-dependent cell spreading, and cellular responses to mechanical stimuli\u2014along with signaling links to ERK cascades. While mitotic spindle assembly appears, the central theme is cytoskeletal remodeling and mechanotransduction driving adhesion and migration.","confidence":"High","size":27,"edges":176,"triangles":380,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":8},{"id":"GO:0071260","count":7},{"id":"GO:0070374","count":7},{"id":"GO:0033138","count":7},{"id":"GO:0046847","count":7}]},{"hash":"1837010811569743113","title":"Neural Signaling and Sensory Perception","description":"The terms cluster around neuronal communication and sensory processing\u2014dopaminergic synaptic transmission, visual perception/learning, pain perception, and cocaine response\u2014along with ERK signaling in neural contexts. This suggests proteins are enriched for neural signaling and sensory pathways; some terms like heart development or histamine-stimulated gastric acid secretion are broader, possibly reflecting shared signaling modules.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":26},{"id":"GO:0070374","count":26},{"id":"GO:0001963","count":26},{"id":"GO:0071380","count":26},{"id":"GO:0008542","count":26}]},{"hash":"2179388293812827599","title":"Unknown","description":"The top GO terms are diverse, spanning pain perception, coagulation, temperature response, development, thermogenesis, calcium signaling, ion transport, and protein oligomerization, with no clear shared pathway or direct functional theme linking all proteins. There are no edges to reinforce a cohesive process, so a concise, representative label cannot be determined.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":6},{"id":"GO:0007596","count":5},{"id":"GO:0071502","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0002024","count":5}]},{"hash":"2267082179082862788","title":"Unknown","description":"The terms are highly diverse, including sensory perception of sound, neuron survival regulation, antibiotic response, GTPase regulation, muscle homeostasis, zinc and retinol metabolism, transcription regulation, and lung development. With no clear single function dominating and no edges linking terms, there isn\u2019t a coherent shared biological process to name; the cluster appears heterogeneous across neurological, metabolic, and developmental domains.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0043524","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0043087","count":2},{"id":"GO:0046716","count":2}]},{"hash":"77735429057709216","title":"Gene expression and chromatin regulation in plant development","description":"The cluster centers on core gene expression machinery (transcription, ribosome biogenesis, RNA methylation) and chromatin modification (histone methylation/acetylation), with cell division and plant developmental signals (multicellular development, adaxial/abaxial patterning). A plant-development context is reinforced by the development-related GO terms, suggesting a label that captures both gene expression regulation and developmental control. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006890","count":8},{"id":"GO:0042254","count":7},{"id":"GO:0051567","count":7},{"id":"GO:0051301","count":7},{"id":"GO:0036265","count":7}]},{"hash":"961924771563886565","title":"Hypoxia-responsive endothelial cytoskeletal signaling","description":"This cluster centers on endothelial-related processes: positive regulation of endothelial cell proliferation, adherens junction organization, and cell differentiation, combined with hypoxia response and actin filament polymerization. DAG biosynthesis and PKB activation point to signaling cascades linking hypoxic stress to cytoskeletal remodeling and junction dynamics; a non-endothelial term about sperm motility appears but does not define the overall theme. Confidence: Medium","confidence":"","size":27,"edges":49,"triangles":56,"max_degree":16,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0001938","count":9},{"id":"GO:0001666","count":9},{"id":"GO:0034332","count":9},{"id":"GO:0006651","count":8},{"id":"GO:0030154","count":8}]},{"hash":"1602285426385878337","title":"Chromosome cohesion and centromere dynamics; septin organization","description":"The top GO terms cluster around chromosomal processes such as meiotic sister chromatid cohesion, centromere-associated localization, and sister chromatid biorientation, alongside septin ring organization/disassembly, all pointing to chromosome segregation and cytoskeletal regulation. A few terms (P granule assembly, some signaling terms) seem noisier but do not outweigh the core theme.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0051754","count":10},{"id":"GO:0043547","count":7},{"id":"GO:1903863","count":7},{"id":"GO:0051388","count":7},{"id":"GO:0031107","count":7}]},{"hash":"487783304502726395","title":"Unknown","description":"The GO terms span multiple disparate processes (Wnt signaling, GPCR-PKC signaling, TLR4/MyD88 signaling; transcription regulation; muscle development; spindle assembly; telomere maintenance; cell migration; synaptic plasticity). There is no single dominant function uniting these proteins, and there are no edges to support a cohesive cluster theme, so no specific label can be confidently assigned.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0016055","count":5},{"id":"GO:0007205","count":5},{"id":"GO:0006355","count":5},{"id":"GO:0035660","count":5},{"id":"GO:0007527","count":5}]},{"hash":"1930387560473330960","title":"Adaptive immune activation with cytoskeletal remodeling","description":"This cluster centers on adaptive immune processes (T cell activation via TCR-MHC, IL-4 production, B cell affinity maturation, NK T differentiation) and signals governing cell adhesion and cytoskeleton dynamics (integrin signaling, filopodium assembly, Rho/Rac/Ras regulation, hyaluronan metabolism), indicating proteins involved in immune cell activation and actin-driven migration/remodeling.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0002291","count":16},{"id":"GO:0030212","count":16},{"id":"GO:0035023","count":15},{"id":"GO:0046580","count":14},{"id":"GO:0007229","count":13}]},{"hash":"428993944022676445","title":"Oxidative Detoxification and Stress Response","description":"This cluster is driven by GO terms for cellular oxidant detoxification, toxin catabolic processes, responses to toxic substances, and glutathione metabolism, along with starvation response and DNA repair, all pointing to cellular defense and metabolic remodeling under stress. The calcium-related muscle contraction term is a broader signaling link that can reflect calcium-mediated stress signaling; overall, the dominant theme is detoxification and oxidative stress response.","confidence":"High","size":27,"edges":342,"triangles":2736,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":23},{"id":"GO:0009407","count":22},{"id":"GO:0040008","count":22},{"id":"GO:0014810","count":22},{"id":"GO:0060316","count":22}]},{"hash":"1306840550717722957","title":"Nuclear import and GTPase regulation cluster","description":"The top GO terms center on nuclear protein import (NLS-bearing import, ribosomal protein import) and positive regulation of GTPase activity, suggesting a core role in nucleocytoplasmic transport and GTPase-regulated trafficking. Other terms (TORC1 signaling, ciliary docking, meiotic cohesion) point to related regulatory and organizational processes, but the strongest cohesive signal is nuclear import/gTPase regulation, justifying a focused label. ","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0043547","count":9},{"id":"GO:0006607","count":9},{"id":"GO:0051754","count":9},{"id":"GO:0048496","count":8},{"id":"GO:0000060","count":8}]},{"hash":"579885249336921576","title":"Ras/Rac GTPase Signaling and Actin Remodeling","description":"The cluster centers on small GTPase\u2013mediated signaling (Ras, Rac) with processes for actin-based structures (lamellipodium, filopodium) and cell spreading/adhesion, indicating a cohesive theme of cytoskeletal dynamics driven by GTPase signaling; some immune-related GO terms appear but do not define the core function.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007264","count":5},{"id":"GO:0043552","count":5},{"id":"GO:0030032","count":5},{"id":"GO:0046847","count":4},{"id":"GO:0090307","count":4}]},{"hash":"682608292872861985","title":"Epithelial stress-induced apoptosis and cytokine signaling","description":"The top GO terms point to stress-related biology: extrinsic apoptotic signaling and apoptotic process, oxidative stress and xenobiotic response (hydrogen peroxide, xenobiotic stimulus), and inflammatory cytokine production (IL-6, GM-CSF) with NF-kappaB\u2013related regulation. The epidermis and eye development terms suggest an epithelial/tissue-context connection. Together, these indicate a cluster of proteins involved in stress-triggered apoptosis coupled with inflammatory signaling in epithelial cells.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097192","count":3},{"id":"GO:2000778","count":3},{"id":"GO:0032725","count":3},{"id":"GO:0001654","count":3},{"id":"GO:0006915","count":3}]},{"hash":"888908159792456947","title":"Inflammation and ECM remodeling","description":"The top GO terms center on immune responses (leukocyte migration, defense against Gram-positive bacteria, complement activation) and extracellular matrix remodeling (collagen catabolic process, blood coagulation), suggesting a unifying theme of inflammatory processes and tissue remodeling, with some developmental/regulatory terms likely reflecting pleiotropic roles.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030901","count":9},{"id":"GO:0000122","count":8},{"id":"GO:0002523","count":7},{"id":"GO:0014068","count":7},{"id":"GO:0006958","count":7}]},{"hash":"464018936506239372","title":"Axon guidance and nerve organization","description":"The top GO terms cluster around neural development, especially axon pathfinding and nerve structure (axon guidance, sympathetic neuron projection guidance/extension, semaphorin-plexin signaling) and organization of nerve components (paranodal junction assembly, juxtaparanode localization). Supporting terms include neural crest\u2013related migration and nerve-specific organization, with some broader adhesion and ossification terms reflecting neural crest derivatives. Overall, the set points to a cohesive theme of axon guidance and nerve architecture.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":16},{"id":"GO:0043931","count":16},{"id":"GO:0030913","count":15},{"id":"GO:0071205","count":15},{"id":"GO:0036486","count":15}]},{"hash":"1039417922367578996","title":"tRNA charging and translation fidelity","description":"This cluster's GO terms cluster around translation and tRNA charging, notably translation (GO:0006412) and regulation of translational fidelity (GO:0006450), along with specific aminoacylation activities for methionine, leucine, isoleucine, and valine tRNAs. The combination points to proteins involved in tRNA charging and core protein synthesis. Some apoptosis and circadian terms appear but are likely secondary annotations.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006450","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0006431","count":3},{"id":"GO:0006429","count":3},{"id":"GO:0006428","count":3}]},{"hash":"1922503435890455503","title":"Unknown","description":"The top GO terms include inflammatory and innate immune responses, vitellogenesis, collagen organization, stem cell maintenance, cell growth, GM-CSF signaling, acetylcholine receptor clustering, filopodium regulation, and thrombin receptor signaling. These terms point to multiple divergent processes (immune, development, ECM, signaling, neuromuscular), with no clear single functional theme connecting all proteins. Hence there isn't a cohesive function to name; Unknown.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":5},{"id":"GO:0007296","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0030199","count":4},{"id":"GO:0035019","count":3}]},{"hash":"1347939406173876938","title":"NF-kappaB-driven innate immunity and membrane remodeling","description":"The top GO terms point to innate immune response and canonical NF-kappaB signaling, with supporting terms about plasma membrane repair and lamellipodium/cytoskeletal remodeling (cell spreading and morphogenesis). This suggests a core theme of immune signaling coupled with membrane/cytoskeleton dynamics, with some broader pleiotropic processes present but not central. Confidence: High","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":3},{"id":"GO:0046598","count":3},{"id":"GO:0097050","count":3},{"id":"GO:0001778","count":3},{"id":"GO:0045087","count":3}]},{"hash":"821957415758638616","title":"Development and Immune Signaling","description":"This cluster\u2019s top GO terms span developmental processes (spinal cord and heart development) and immune functions (B cell maturation, NK T cell differentiation, IL-4 production), with associated signaling and migration activities (Rho signaling regulation, prostaglandin response, cell migration). The common thread is signaling pathways linking development and immune cell behavior, rather than a single specific function, so a broad \u201cDevelopment and Immune Signaling\u201d label fits. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":3},{"id":"GO:0021510","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0032633","count":3}]},{"hash":"1839378716066206955","title":"RNA Pol II Transcription Regulation Cluster","description":"This cluster is dominated by GO terms tied to RNA polymerase II\u2013driven transcription, including initiation and elongation, and both positive and negative regulation, suggesting a cohesive role in transcriptional control by Pol II. Occasional terms for ribosome biogenesis and transport are present but do not outweigh the Pol II transcription theme.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0032968","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0071340","count":3},{"id":"GO:0000122","count":3}]},{"hash":"595493647818131332","title":"Hair Cycle and Keratinization","description":"The top GO terms point to hair biology, with strong representation for hair cycle and keratinization, indicating the proteins are likely involved in hair follicle structure and keratin filament formation. This cohesive pattern supports a hair-related functional cluster.","confidence":"High","size":27,"edges":341,"triangles":2701,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0042633","count":27},{"id":"GO:0031424","count":26}]},{"hash":"2178986745506236982","title":"Unknown","description":"The top GO terms span a wide range of tissues and processes (photoreceptor maintenance, gastric acid secretion, serotonin receptor signaling, muscle contraction in heart and gut, development, immune cell chemotaxis, urine volume regulation, T cell differentiation, and calcium signaling). There is no single coherent function tying these proteins together, making a specific functional label inappropriate. ","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045494","count":11},{"id":"GO:0001697","count":10},{"id":"GO:0007208","count":10},{"id":"GO:0055117","count":10},{"id":"GO:0007497","count":10}]},{"hash":"864468146143021285","title":"GTPase-regulated podosome assembly in bone cells","description":"The top GO terms center on podosome assembly, bone development, and positive regulation of GTPase activity, suggesting a cohesive theme of cytoskeletal remodeling in bone-related cells (notably osteoclasts). Podosomes are actin structures regulated by GTPases and linked to bone resorption and cranial/bone development. Additional terms pointing to ribosome-associated quality control and p53-mediated apoptotic signaling may reflect stress-linked regulation of these processes, but the core signal is cytoskeletal dynamics in bone biology.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0072344","count":2},{"id":"GO:1990116","count":2},{"id":"GO:1902167","count":2},{"id":"GO:0018937","count":2}]},{"hash":"1218459704385152437","title":"Inflammation and smooth muscle/gut signaling","description":"This cluster combines immune/inflammatory processes (inflammatory response, eosinophil chemotaxis, CD8 T cell differentiation, histamine pathways) with muscle-related physiology (cardiac and intestinal smooth muscle contraction) and signaling events (calcium release, PLC/serotonin receptor signaling), suggesting a general theme of inflammation coordinated with smooth muscle/gut function and calcium signaling.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":12},{"id":"GO:0001697","count":11},{"id":"GO:0007208","count":11},{"id":"GO:0055117","count":11},{"id":"GO:0007497","count":11}]},{"hash":"1708673629824024170","title":"Neurodevelopment and Embryogenesis","description":"This cluster centers on neural development and embryogenesis, highlighted by terms like lateral motor column neuron migration, midbrain dopaminergic neuron differentiation, ventral spinal cord interneuron specification, and ectoderm formation. Associated terms extend to organogenesis and tissue differentiation (nephric duct elongation, nephron tubule epithelial cell differentiation) and developmental signaling (negative regulation of Hippo signaling). Taken together, the proteins appear to participate in broad developmental programs with a neural emphasis rather than a single straightforward pathway, justifying a neurodevelopment/embryogenesis label.","confidence":"Medium","size":26,"edges":150,"triangles":296,"max_degree":18,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0097477","count":10},{"id":"GO:0070527","count":10},{"id":"GO:0042789","count":9},{"id":"GO:0035331","count":9},{"id":"GO:1904948","count":9}]},{"hash":"959772902696095123","title":"RNA processing and translation regulation","description":"The top GO terms cluster around ncRNA-mediated gene silencing, regulation of mRNA splicing via the spliceosome, and multiple aspects of translational control (initiation, reinitiation, IRES-dependent initiation, and preinitiation complex formation), suggesting a group of proteins coordinated for post-transcriptional gene expression control at the RNA level, spanning RNA processing to translation. ","confidence":"High","size":26,"edges":48,"triangles":19,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":13},{"id":"GO:0048026","count":13},{"id":"GO:0006446","count":12},{"id":"GO:0002188","count":12},{"id":"GO:0001731","count":12}]},{"hash":"667479753617112715","title":"DNA-Templated Transcription Regulation","description":"The top GO terms point to transcription from DNA and its regulation, suggesting a core theme of transcriptional control within this cluster. While additional terms touch on metabolism, signaling, and other processes, the strongest and most consistent signal is transcription regulation, justifying a label centered on DNA-templated transcription control.","confidence":"Medium","size":26,"edges":34,"triangles":0,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0006541","count":4},{"id":"GO:0006223","count":4},{"id":"GO:0016310","count":4}]},{"hash":"630607448628301792","title":"Eukaryotic Signaling and Cytoskeleton Regulation","description":"Based on the top GO terms, the proteins cluster around signaling processes (peptidyl-tyrosine autophosphorylation, Sho1 osmosensing pathway) and cytoskeleton dynamics (actin reorganization, centrosome separation), with some organism-specific or obsolete terms reflecting broader regulatory roles. The common theme is eukaryotic signal transduction that governs cytoskeletal remodeling and cell-cycle\u2013related processes. While a few terms are outliers (trehalose catabolism, endothelial migration), the dominant signals point to signaling and cytoskeletal control. ","confidence":"Medium","size":26,"edges":252,"triangles":1285,"max_degree":25,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038083","count":26},{"id":"GO:2000251","count":26},{"id":"GO:0060044","count":26},{"id":"GO:0014068","count":26},{"id":"GO:0001806","count":26}]},{"hash":"1651586216728015583","title":"Dopaminergic Synaptic Signaling and Perception","description":"The terms are dominated by neural functions: dopaminergic synaptic transmission, visual perception and learning, sensory perception of pain, and behavioral responses to cocaine, all pointing to neural signaling and perception. ERK cascade regulation and prostaglandin response add signaling pathway context, but the strongest coherence is dopaminergic signaling and sensory processing, with a side of reward/addiction-related behavior. Confidence in this label is High.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":20},{"id":"GO:0070374","count":20},{"id":"GO:0071380","count":20},{"id":"GO:0008542","count":20},{"id":"GO:0048148","count":20}]},{"hash":"261455408209882168","title":"Developmental differentiation signals","description":"The proteins in this cluster touch on broad developmental and differentiation processes across tissues and kingdoms (kidney/nephron development, ectoderm formation, plant phloem development, neural specification, and related signaling like NFAT). This suggests a theme of developmental signaling and tissue differentiation rather than a single narrowly defined pathway.","confidence":"Medium","size":26,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035849","count":8},{"id":"GO:0021521","count":8},{"id":"GO:2000768","count":8},{"id":"GO:0001705","count":8},{"id":"GO:0046013","count":8}]},{"hash":"914566942508853786","title":"Developmental Transcription and Organogenesis","description":"The cluster is enriched for DNA-templated transcription and a spectrum of developmental processes (embryonic and heart development, male gonad development, prostate morphogenesis, estrogen signaling, circadian regulation of gene expression, neuron maturation, and myoblast proliferation), indicating transcription-driven control of organogenesis and tissue differentiation across multiple lineages.","confidence":"High","size":26,"edges":43,"triangles":28,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":12},{"id":"GO:0008584","count":12},{"id":"GO:0032922","count":10},{"id":"GO:0001701","count":10},{"id":"GO:0042551","count":10}]},{"hash":"1979201406618694043","title":"GPCR signaling and cell migration in development","description":"The cluster shows enrichment in GPCR-related processes (G protein-coupled receptor signaling, internalization, acetylcholine signaling), regulation of GTPase activity, and cytoskeletal/motion terms (microtubule movement, lamellipodium assembly), along with developmental processes (spinal cord and heart development) and adult locomotory behavior, suggesting a theme of GPCR-driven signaling coordinating cell movement and developmental processes.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0008344","count":6},{"id":"GO:0060313","count":6},{"id":"GO:0002031","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0021510","count":5}]},{"hash":"1211629434507207627","title":"Neural development and signaling regulators","description":"The proteins show strong enrichment for nervous system development, axon extension/axonogenesis, Wnt and ERK signaling, focal adhesion regulation, and dopamine response, pointing to a module that coordinates neural development and neuronal signaling; the mitotic cell cycle term appears less central to the core theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":24},{"id":"GO:0070374","count":22},{"id":"GO:0033138","count":22},{"id":"GO:0045773","count":22},{"id":"GO:0050771","count":22}]},{"hash":"636142453256713741","title":"Growth Factor Signaling and ERK/MAPK Activation","description":"The cluster is heavily enriched for growth factor\u2013related signaling terms, notably positive regulation of the ERK1/ERK2 cascade, and responses to insulin, PDGF, M-CSF, and TGF-beta, along with regulation of STAT tyrosine phosphorylation and branching morphogenesis, pointing to a cohesive growth factor\u2013driven MAPK/ERK signaling module that governs cell signaling, migration, and morphogenesis.","confidence":"High","size":26,"edges":272,"triangles":1573,"max_degree":25,"top_function":"wound healing","top_go_terms":[{"id":"GO:0070374","count":21},{"id":"GO:0014911","count":21},{"id":"GO:0032869","count":21},{"id":"GO:0036120","count":21},{"id":"GO:0036006","count":21}]},{"hash":"170039636109267431","title":"Embryonic Development and Organogenesis","description":"This cluster is dominated by GO terms for developmental processes (heart development, angiogenesis, nervous system development, kidney development, cranial skeleton morphogenesis, multicellular organism development) and related signaling (ERK, PI3K). An immune defense term appears but is outweighed by organogenesis-related terms, indicating a cohesive developmental module.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050830","count":14},{"id":"GO:0007275","count":13},{"id":"GO:0014068","count":12},{"id":"GO:0007507","count":12},{"id":"GO:0070374","count":12}]},{"hash":"1772028965215428668","title":"Embryonic organogenesis and eye development","description":"The cluster is enriched for developmental and morphogenesis terms, with strong signals for eye development (camera-type eye development, embryonic eye morphogenesis) and a broad set of organogenesis-related processes (lung branching, ureteric bud morphogenesis, pituitary development, neural crest formation, muscle organ development), suggesting shared roles in embryonic development and tissue morphogenesis beyond a single tissue. ","confidence":"High","size":26,"edges":127,"triangles":141,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":14},{"id":"GO:0043010","count":12},{"id":"GO:0048048","count":12},{"id":"GO:0060441","count":12},{"id":"GO:0021983","count":12}]},{"hash":"1281413655367677404","title":"Embryonic neural and sensory organ development","description":"The top GO terms cluster around transcriptional regulation (RNA polymerase II transcription, DNA-templated transcription) and broad developmental programs spanning retina development, neural crest formation, forebrain-midbrain boundary formation, habenula, pituitary development, and muscle organ development. This suggests a cohesive theme of embryonic development across neural/sensory tissues and related muscle lineages, governed by transcriptional control.","confidence":"High","size":26,"edges":317,"triangles":2416,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0060041","count":11},{"id":"GO:0021983","count":10},{"id":"GO:0021986","count":10},{"id":"GO:2000288","count":9}]},{"hash":"1059139977676889078","title":"Neural cell adhesion and synapse assembly","description":"Predominant GO terms are cellular adhesion (heterophilic/homophilic), positive regulation of synapse assembly, and axonal fasciculation, all pointing to neural connectivity and synapse formation. Additional terms such as innate immune response and bone development are present but less central, so the core function is best captured by neural cell adhesion and synapse assembly.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007157","count":15},{"id":"GO:0051965","count":14},{"id":"GO:0046718","count":12},{"id":"GO:0045087","count":12},{"id":"GO:0007156","count":11}]},{"hash":"1453551888040994210","title":"DNA replication and repair proteins","description":"The top GO terms are dominated by DNA replication (6) and DNA repair (4), with related processes such as leading strand elongation (3). This points to a cluster of replication-associated factors, potentially linked to cell-cycle regulation (e.g., SCF complex-related term). A few terms (glycosylation, infection structure) are less consistent with this theme and may reflect noise. Overall, the cluster is best described as DNA replication/repair-focused.","confidence":"Medium","size":26,"edges":110,"triangles":100,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0006281","count":4},{"id":"GO:0006688","count":4},{"id":"GO:0075015","count":4},{"id":"GO:0018279","count":4}]},{"hash":"539390525615596147","title":"Temperature-Responsive Signaling and Metabolism","description":"The top terms cluster around environmental stress responses: temperature stimulus, thermogenesis, xenobiotic response, and immune response, coupled with signaling (ERK cascade, GPCR-activated pathways) and energy metabolism (electron transport). This pattern suggests proteins acting together in environmental stress sensing and downstream metabolic and proliferative regulation.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":13},{"id":"GO:0070374","count":13},{"id":"GO:0010579","count":13},{"id":"GO:0022900","count":13},{"id":"GO:0045777","count":13}]},{"hash":"1125797531721922929","title":"MAPK/ERK signaling and angiogenesis regulators","description":"The top GO terms are dominated by ERK1/ERK2 cascade and its positive regulation, along with explicit angiogenesis terms (angiogenesis and positive regulation of angiogenesis). Additional terms point to related signaling pathways (PI3K signaling, Hedgehog pathway regulation) and innate immune response, suggesting a cohesive set of proteins that regulate MAPK/ERK signaling and angiogenic processes, with ancillary involvement in development and immune signaling. This makes a focused, intuitive label of regulators of ERK-driven signaling and blood vessel formation representative of the cluster.","confidence":"High","size":26,"edges":10,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070371","count":4},{"id":"GO:0010535","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0045766","count":4},{"id":"GO:0045087","count":4}]},{"hash":"1677691403222414237","title":"Calcium signaling and cell migration","description":"The proteins show enrichment for intracellular signal transduction, cellular response to mechanical stimulus, calcium ion release into the cytosol, and cell migration, with additional links to membrane trafficking (SNARE regulation) and ubiquitin-dependent protein turnover. This pattern suggests a cohesive set of proteins coordinating calcium-mediated signaling that drives motility and membrane processes, even though a few terms (e.g., telomere maintenance, meiotic recombination) are more peripheral. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016477","count":8},{"id":"GO:0032212","count":8},{"id":"GO:0098907","count":8},{"id":"GO:0071260","count":8},{"id":"GO:0035556","count":8}]},{"hash":"2291190923581648777","title":"Mitotic Cell Cycle and Vesicle Trafficking","description":"This cluster prominently features terms tied to mitosis (mitotic cell cycle, cell division, microtubule severing) and to intracellular transport (ER to Golgi vesicle transport, intralumenal vesicle formation), suggesting a core theme of coordinating cell division with protein processing/trafficking. The presence of translation initiation/reinitiation terms may reflect coupling of protein synthesis to growth, but the dominant signal remains mitotic progression and vesicle trafficking.","confidence":"Medium","size":26,"edges":86,"triangles":137,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0002188","count":5},{"id":"GO:0035948","count":4},{"id":"GO:0051013","count":4}]},{"hash":"677729581766697611","title":"Mitochondrial Transcription and Translation","description":"The top GO terms point to mitochondrial gene expression and energy production, with emphasis on mitochondrial transcription (DNA-templated transcription, regulation, termination), mitochondrial translation, and aerobic respiration, plus protein import into the mitochondrial matrix. This suggests a cohesive module of mitochondrial gene-expression machinery linked to respiration.","confidence":"High","size":26,"edges":325,"triangles":2600,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006123","count":6},{"id":"GO:0006412","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0009060","count":3},{"id":"GO:0030150","count":2}]},{"hash":"1166140043914083789","title":"Immune signaling and cytoskeletal dynamics","description":"The cluster shows strong representation of lamellipodium assembly and regulation of Rho/Rac/Ras signaling, which together point to cytoskeletal remodeling and cell migration. At the same time, immune-related GO terms such as IL-4 production, B cell affinity maturation, and NK T cell differentiation suggest a core link to immune signaling. Some growth-factor\u2013related terms (IGF receptor signaling) and development terms (midbrain morphogenesis) appear less central but may reflect shared signaling modules. Overall, the dominant theme is immune signaling intertwined with migratory/cytoskeletal processes.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030032","count":17},{"id":"GO:0035023","count":16},{"id":"GO:0002344","count":15},{"id":"GO:0048009","count":15},{"id":"GO:2001275","count":15}]},{"hash":"1318931707677071801","title":"ERAD-linked deubiquitination and proteostasis","description":"The cluster is enriched for deubiquitination activities (K29-, K6-, and K48-linked) and ERAD-related processes, along with deglycosylation, all pointing to protein quality control and ubiquitin-dependent regulation as the shared function; a few terms like mitochondrial fission and Rho signaling appear ancillary but do not define the core theme.","confidence":"High","size":26,"edges":51,"triangles":6,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035523","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0044313","count":4},{"id":"GO:1904378","count":4},{"id":"GO:0006517","count":4}]},{"hash":"724289159676221994","title":"Neural development and axon guidance","description":"This cluster is dominated by terms related to neural development, including neuron projection guidance, branchiomotor/trigeminal nerve axon guidance, and semaphorin-plexin signaling, plus neural crest migration and nerve structure organization; cell adhesion terms further support neural tissue organization.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":18},{"id":"GO:0097491","count":16},{"id":"GO:0086072","count":16},{"id":"GO:0002859","count":16},{"id":"GO:0036486","count":16}]},{"hash":"1622988224052742299","title":"Histone Methylation and Development","description":"Rationale: The top terms point to histone methylation (H3-K4/K79) and DNA-templated transcription, alongside multiple development-related terms (forebrain, skeletal system, multicellular organism development, prostate gland differentiation). This suggests a cluster of proteins involved in epigenetic regulation of gene expression during development, rather than a single pathway. Therefore the label reflects a general motif of chromatin modification driving developmental programs.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051568","count":5},{"id":"GO:0034729","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0007338","count":5},{"id":"GO:0007275","count":5}]},{"hash":"2289158254955343802","title":"Endomembrane organization and phosphoinositide biosynthesis","description":"This cluster is characterized by GO terms centered on endomembrane system organization, phosphoinositide biosynthetic processes, and protein localization to the plasma membrane, with related membrane\u2013cytoskeleton interactions (focal adhesion and ruffle assembly). While there are some unrelated terms, the recurrent theme points to membrane organization and PI signaling as the common function of these proteins.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0010256","count":4},{"id":"GO:0031321","count":4},{"id":"GO:0097178","count":4},{"id":"GO:0032288","count":4},{"id":"GO:0014066","count":3}]},{"hash":"287995016881609247","title":"Immune signaling and lysosomal processes","description":"The top GO terms show clear links to immune defense (defense response to virus, innate immune response, T cell proliferation, STAT phosphorylation, NF-kappaB activity) and vesicle/lysosome-related functions (V-type ATPase assembly, protein catabolic process in the vacuole, excretion). This suggests a cohesive cluster centered on immune signaling intertwined with lysosomal/secretory pathways.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0048661","count":3},{"id":"GO:0042517","count":3}]},{"hash":"698980982619463363","title":"Cardiac development and electrophysiology","description":"Most enriched GO terms in this cluster relate to heart development and cardiomyocyte function, including left ventricular morphogenesis, atrial and SA node action potential regulation, Purkinje signaling, and calcium release from the sarcoplasmic reticulum. These patterns point to proteins involved in cardiac morphogenesis and electrical excitability/conduction. A few terms reference skin or retinal development, which may reflect broader developmental roles or annotation overlap, but they do not negate the dominant cardiac theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":3},{"id":"GO:0046549","count":2},{"id":"GO:0003151","count":2},{"id":"GO:0086029","count":2},{"id":"GO:0098907","count":2}]},{"hash":"657032258444087954","title":"NF-kB-PI3K Signaling Network","description":"The top GO terms cluster around NF-kappaB activation, PI3K signaling, insulin signaling, B cell receptor signaling, and angiogenesis, indicating a cohesive theme of signal transduction that integrates immune, metabolic, and growth-related pathways via NF-kB and PI3K axes (with Rho signaling and mechanotransduction as supporting components).","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":6},{"id":"GO:0001525","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0014068","count":4},{"id":"GO:0060291","count":4}]},{"hash":"2059104214331030805","title":"Cell Junctions and Adhesion","description":"This cluster is dominated by GO terms for cell junction assembly and cell\u2013cell adhesion (paranodal and septate junctions, homophilic/heterophilic adhesion, protein localization to junctions). Spermatid development also ties to junctional interactions in the testis, supporting a theme of junction formation/maintenance across tissues. Some terms relate to host\u2013microbe interfaces, but the core signal points to cell junction biology.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030913","count":11},{"id":"GO:0046813","count":9},{"id":"GO:0031295","count":8},{"id":"GO:0046718","count":8},{"id":"GO:0007157","count":8}]},{"hash":"563728635379735006","title":"Unknown","description":"The GO terms are highly diverse and include visual learning, B cell signaling, muscle development, osmosensory signaling, telomere maintenance, apoptosis, and others. There is no clear shared pathway or function linking these proteins, suggesting either heterogeneous roles or annotation noise. Therefore a single coherent label is not apparent.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008542","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0007519","count":3},{"id":"GO:1900477","count":3},{"id":"GO:0070294","count":3}]},{"hash":"1270416383843140436","title":"Translation Initiation and tRNA Charging","description":"This cluster is dominated by GO terms related to translation: translation itself, formation of the translation preinitiation complex, and multiple aminoacylation activities for tRNAs (Met, Leu, Ile, Val). The presence of regulation of translational fidelity and ribosome disassembly reinforces a theme centered on translation initiation and ribosome function, with IRES-dependent translational initiation supporting initiation activity. A minor note is the antibiotic biosynthetic process, which is likely incidental. Overall, proteins here appear to be components of the protein synthesis machinery.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0001731","count":3},{"id":"GO:0006431","count":3},{"id":"GO:0006450","count":3},{"id":"GO:0017000","count":2}]},{"hash":"560325338399479805","title":"Interferon-driven antiviral innate response","description":"The cluster is dominated by GO terms tied to interferon signaling and innate antiviral defense (cellular response to interferon-alpha and type I interferon, cellular response to exogenous dsRNA, and innate immune response), suggesting these proteins participate in antiviral innate immunity. A few other terms (unfolded protein response, gluconeogenesis regulation, etc.) are less central and may reflect broader roles or annotation noise.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0035457","count":4},{"id":"GO:0006986","count":4},{"id":"GO:0090526","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0006463","count":4}]},{"hash":"754532022933290787","title":"Embryonic morphogenesis and gene regulation","description":"The top GO terms point to morphogenesis across multiple developing tissues (heart structures like endocardial cushions and outflow tract; brain structures like corpus callosum and mammillary axonal complexes) and to core gene-regulatory processes (DNA-templated transcription, splicing, and ubiquitination with Notch signaling influence). This suggests a cluster centered on developmental morphogenesis coupled with transcriptional and post-translational regulation rather than a single pathway.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0021540","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0003151","count":2}]},{"hash":"2155693402614340066","title":"Regulated signaling and membrane excitability","description":"The cluster\u2019s top GO terms largely point to modulation of signaling pathways (e.g., integrin signaling, AMPA receptor activity) and membrane-associated processes (membrane depolarization, neuromuscular junction development, bleb assembly), suggesting a common function in regulating signaling and membrane/excitability rather than a single, specific pathway. Some terms are peripheral, but the core theme centers on signaling modulation and membrane dynamics.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045821","count":3},{"id":"GO:0042104","count":3},{"id":"GO:0007528","count":3},{"id":"GO:0097202","count":3},{"id":"GO:2001046","count":3}]},{"hash":"446849313355937191","title":"Dopaminergic GPCR Signaling and Neuronal Plasticity","description":"The cluster is dominated by terms related to dopaminergic synaptic transmission, GPCR internalization, ERK/MAPK signaling, and regulation of GTPase activity, plus learning and cocaine-related behavioral responses. This points to a coherent theme of GPCR-mediated signaling and plastic changes in dopamine-rich neural circuits, with some connectivity to visual processing and learning.","confidence":"High","size":25,"edges":165,"triangles":449,"max_degree":22,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":23},{"id":"GO:0070374","count":23},{"id":"GO:0043547","count":23},{"id":"GO:0001963","count":23},{"id":"GO:0071380","count":23}]},{"hash":"324408382853644083","title":"Spliceosome-Driven mRNA Processing","description":"The top GO terms cluster around alternative splicing via the spliceosome, its regulation, mRNA splicing/export, mRNA modification, and regulation of translational initiation. Together, these terms indicate a coherent group of proteins involved in post-transcriptional mRNA processing, especially spliceosome-mediated splicing and related steps.","confidence":"High","size":25,"edges":96,"triangles":233,"max_degree":20,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000380","count":10},{"id":"GO:0000381","count":9},{"id":"GO:1905663","count":9},{"id":"GO:0016556","count":9},{"id":"GO:1903586","count":9}]},{"hash":"1105946216202271857","title":"mRNA Splicing and Translation Regulation","description":"These terms cluster around post-transcriptional mRNA processing and control of translation initiation. The prominent GO terms cover spliceosome-mediated splicing, mRNA modification, and regulation of translational initiation (including preinitiation complex formation, IRES-dependent initiation, and translation reinitiation/viral termination-reinitiation), indicating a group of proteins involved in mRNA maturation and the regulation of its translation. High","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":10},{"id":"GO:0045292","count":9},{"id":"GO:0006446","count":8},{"id":"GO:0001731","count":8},{"id":"GO:0075522","count":8}]},{"hash":"265454100019394524","title":"Regulation of signaling pathways in development and immunity","description":"The top GO terms emphasize modulation of signaling cascades, especially both positive and negative regulation of canonical Wnt signaling, alongside T cell receptor signaling. Additional terms touch on neuronal development (dendritic spine morphogenesis), axial mesoderm formation, apoptosis, and telomere maintenance, suggesting a unifying theme around signaling control across development, immune function, and cell fate processes. This points to a cluster centered on the regulation of multiple signaling pathways rather than a single pathway.","confidence":"Medium","size":25,"edges":215,"triangles":1022,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090263","count":6},{"id":"GO:0050852","count":5},{"id":"GO:0090090","count":5},{"id":"GO:0060997","count":5},{"id":"GO:0009190","count":5}]},{"hash":"1269495514889949769","title":"Neuronal synaptic plasticity and stress signaling","description":"The top GO terms center on neuronal function and plasticity\u2014long-term potentiation, axonogenesis, memory, and regulation of synaptic plasticity\u2014while also including stress-related pathways such as hypoxia response, glucocorticoid response, and NF-\u03baB signaling. This combination points to proteins involved in activity-dependent neural development and plasticity that can be modulated by cellular stress. Minor terms like angiogenesis and cell cycle may reflect developmental processes in neural tissue. Overall, the cluster appears to capture neural plasticity intertwined with stress signaling.","confidence":"Medium","size":25,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060291","count":7},{"id":"GO:0007409","count":6},{"id":"GO:0071456","count":6},{"id":"GO:0051384","count":6},{"id":"GO:0043123","count":6}]},{"hash":"122280871491071862","title":"Immune signaling and lymphoid development","description":"Most enriched terms are immune-related: positive regulation of IL-2 production, complement activation (classical), MCP-1 production, and NF-kappaB regulation. Developmental terms for thymus and uterus hint at immune system maturation contexts. Additional terms like negative regulation of ERK cascade and DNA damage checkpoint signaling suggest integration with broader signaling and stress-response pathways. Together, these indicate a cluster of proteins involved in immune signaling with links to lymphoid development, hence this name.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900042","count":6},{"id":"GO:0006958","count":5},{"id":"GO:0060065","count":5},{"id":"GO:0038028","count":5},{"id":"GO:0000077","count":5}]},{"hash":"1000966812322667905","title":"Neural signaling, thermoregulation, and cardiovascular regulation","description":"This cluster centers on neural processes (sensory pain perception, dopaminergic synaptic transmission), GPCR signaling, and ERK cascade, with links to cardiovascular regulation (blood pressure, heart development) and temperature/thermogenesis responses. Energy-related terms (electron transport chain) align with neuronal metabolism, supporting a cohesive theme of neural control of temperature and cardiovascular function.","confidence":"High","size":25,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":20},{"id":"GO:0071502","count":19},{"id":"GO:0010579","count":19},{"id":"GO:0022900","count":19},{"id":"GO:0045777","count":19}]},{"hash":"2107560341748546321","title":"GPCR Signaling and Cardiovascular Regulation","description":"The top GO terms point to G protein-coupled receptor signaling pathways (adenylate cyclase-activating and PLC-activating pathways) with downstream effects on cardiac muscle contraction and blood pressure, along with related processes like histamine-driven gastric acid secretion. Additional terms on locomotory behavior and the electron transport chain suggest an integrated signaling network coordinating movement, digestion, and energy metabolism. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007626","count":19},{"id":"GO:0010579","count":19},{"id":"GO:0022900","count":19},{"id":"GO:0045777","count":19},{"id":"GO:0035025","count":19}]},{"hash":"539115907429248324","title":"Immune Activation and Phagocytosis","description":"The top terms show strong enrichment for phagocytosis (recognition and engulfment), complement activation, and signaling pathways for B and T cells, along with innate immune response. This points to a cluster of proteins involved in both innate phagocytic processes and adaptive immune activation (B/T cell signaling and co-stimulation), with some adhesion-related terms likely reflecting immune cell interactions. Ossification appears incidental and not central to the predominant theme.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006910","count":16},{"id":"GO:0006958","count":16},{"id":"GO:0007157","count":15},{"id":"GO:0007156","count":14},{"id":"GO:0043931","count":14}]},{"hash":"1719092793930314328","title":"Neuronal synapse formation and social behavior","description":"This cluster is dominated by neural-related GO terms: synapse organization, dendritic spine morphogenesis, and receptor clustering point to synaptic assembly and connectivity. Behavioral terms such as grooming, vocalization, and social behavior indicate involvement in neural circuits that regulate behavior. Regulatory signaling terms (Rho, JNK cascades) fit with activity-dependent synaptic remodeling. A non-neural term like endothelial barrier is less central, so the core theme centers on neuronal connectivity and behavior.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000821","count":12},{"id":"GO:0043113","count":11},{"id":"GO:0071625","count":11},{"id":"GO:0035023","count":10},{"id":"GO:0060997","count":10}]},{"hash":"1136328751597488306","title":"Autophagy and transcription regulation","description":"The cluster combines autophagy-related processes (ribophagy, autophagosome maturation) with transcriptional control (positive regulation of RNA Pol II elongation and preinitiation complex assembly) and cellular stress responses (oxidative stress), suggesting a core theme of stress-adaptive protein turnover and gene expression regulation, with broader developmental and synaptic terms observed as secondary associations.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010971","count":4},{"id":"GO:0060292","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0034599","count":3},{"id":"GO:0034517","count":3}]},{"hash":"1288599844317326757","title":"Proteoglycan glycosylation and ECM biosynthesis","description":"The cluster\u2019s top GO terms are strongly centered on proteoglycan biosynthesis, including chondroitin sulfate and heparan sulfate, and on O-glycan biosynthetic processes, pointing to glycosylation and extracellular matrix modification as the main theme. While there are broader developmental and immune-related terms (e.g., marginal zone B cell differentiation, ovarian follicle development, imaginal disc segmentation), these likely reflect context-dependent roles of glycoproteins rather than a single shared pathway. Overall, the strongest common thread is proteoglycan and glycosylation pathways shaping the ECM and cell-surface interactions.","confidence":"Medium","size":25,"edges":28,"triangles":7,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":5},{"id":"GO:0002315","count":5},{"id":"GO:0050650","count":5},{"id":"GO:0015012","count":5},{"id":"GO:0006486","count":5}]},{"hash":"1656798064251731230","title":"Cell Division and Ribosome Biogenesis Factors","description":"The top GO terms show a strong emphasis on cell division, mitotic cell cycle, and general cell-cycle processes (cell cycle, exit from mitosis, division septum assembly), pointing to proteins involved in cell division. There are also terms tied to ribosome biogenesis and nuclear export of ribosomal components (ribosome biogenesis, ribosomal large subunit export from nucleus, tRNA modification), suggesting coordination between ribosome production and cell-cycle progression. A few outliers (e.g., neuron projection development) may reflect multifunctional annotations, but the dominant theme centers on division machinery with supporting ribosome-related roles.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":8},{"id":"GO:0000278","count":7},{"id":"GO:0042254","count":6},{"id":"GO:0007049","count":6},{"id":"GO:0000747","count":6}]},{"hash":"1299948991961434486","title":"Neuronal development and synaptic plasticity","description":"The top GO terms are dominated by neural-related processes: axonogenesis, long-term synaptic potentiation, excitatory postsynaptic potential, and Schwann cell development, plus visual perception, all pointing to neural development and synaptic function. Some terms like heart development and cell cycle are broader or less specific, but the core theme across the cluster is neural growth and synaptic activity.","confidence":"High","size":25,"edges":10,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007409","count":11},{"id":"GO:0060291","count":11},{"id":"GO:0060079","count":11},{"id":"GO:0007507","count":11},{"id":"GO:0000278","count":11}]},{"hash":"2007493254858414756","title":"RNA Methylation and Modification","description":"The cluster's top GO terms are dominated by methylation- and RNA-modification processes (guanine-N7 methylation, tRNA wobble uridine modification, 7-methylguanosine capping) and an instance of arginine methylation, suggesting a core theme of methylation-related regulation; remaining terms point to plant-specific biosynthetic paths (sterol/chlorophyll) and stress/nodulation responses, but the strongest link among the terms is methylation-related activity.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035902","count":6},{"id":"GO:0036265","count":5},{"id":"GO:0016126","count":5},{"id":"GO:0042220","count":5},{"id":"GO:0019919","count":5}]},{"hash":"609946776495308040","title":"Receptor Signaling and Transcription Regulation","description":"Top terms cluster around receptor-mediated signaling pathways (T cell receptor, insulin receptor, Wnt, ephrin) and DNA-templated transcription, suggesting proteins involved in transmitting signals and regulating gene expression. The presence of apoptosis and telomere maintenance hints at broader cell fate and proliferation control, but the core theme remains signaling linked to transcriptional regulation.","confidence":"Medium","size":25,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0050852","count":4},{"id":"GO:0008286","count":4},{"id":"GO:2001275","count":4},{"id":"GO:0032212","count":4}]},{"hash":"1082369891614246086","title":"RNA Splicing and Transcription Regulation","description":"Top GO terms are dominated by regulation of DNA-templated transcription and RNA splicing (spliceosome, spliceosomal disassembly), indicating nuclear control of gene expression and RNA maturation. Additional terms point to helicase activity regulation and telomere maintenance regulation, which fit broader genome stability roles but still align with RNA processing pathways. Overall, the cluster appears to reflect RNA splicing and transcription regulation.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0000381","count":3},{"id":"GO:0008380","count":3},{"id":"GO:0000390","count":2},{"id":"GO:0097309","count":2}]},{"hash":"91509509254281768","title":"B Cell Activation and Innate Immunity","description":"The cluster is dominated by GO terms for complement activation (classical pathway), phagocytosis and engulfment, B cell receptor signaling, innate immune response, and chemokine production, indicating coordinated humoral and innate immune functions; the presence of both B cell\u2013specific signaling and phagocytic processes suggests a module of antigen recognition and immune cell communication.","confidence":"High","size":25,"edges":196,"triangles":668,"max_degree":21,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":10},{"id":"GO:0006910","count":10},{"id":"GO:0050853","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0050871","count":9}]},{"hash":"453342448403523111","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060041","count":3},{"id":"GO:0051568","count":3},{"id":"GO:0034729","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0031175","count":3}]},{"hash":"1468237325184831229","title":"Ubiquitination and Proteasomal Degradation","description":"The cluster is dominated by GO terms for ubiquitin-dependent protein catabolic processes, SCF-dependent proteasomal ubiquitination, and polyubiquitination, pointing to core components of the ubiquitin\u2013proteasome system. Additional terms about circadian rhythm regulation and stress signaling suggest regulatory roles tied to ubiquitin tagging and degradation. Overall, these proteins likely function together in tagging substrates for proteasomal destruction and modulating related signaling pathways.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":20},{"id":"GO:0031146","count":13},{"id":"GO:0000209","count":12},{"id":"GO:0042752","count":11},{"id":"GO:1903378","count":10}]},{"hash":"891595828986028088","title":"Sodium and Potassium Ion Transport and Gradient Maintenance","description":"GO terms highlight transmembrane transport of Na+/K+, maintenance of electrochemical gradients, and membrane potential regulation, including synaptic transmission and cardiac muscle contexts, suggesting these proteins are mainly ion pumps/transporters maintaining ion homeostasis in excitable membranes.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0090662","count":3},{"id":"GO:0010248","count":3},{"id":"GO:0036376","count":3},{"id":"GO:1903278","count":3},{"id":"GO:1990573","count":3}]},{"hash":"2254368357921233812","title":"Immune receptor signaling and neural development","description":"This cluster\u2019s top GO terms highlight cell surface receptor signaling pathways (B cell/T cell receptor signaling, ERK cascade, serine/threonine kinase signaling, VEGF receptor signaling) and neural development processes (dendritic spine morphogenesis, axon extension/axonogenesis), suggesting proteins involved in receptor-mediated signaling with roles in both immune signaling and neural development. The DNA repair term is less directly connected, possibly reflecting broader signaling cross-talk, but the dominant theme is signaling via surface receptors influencing immune and neural development pathways.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0033138","count":15},{"id":"GO:0050853","count":15},{"id":"GO:0006281","count":15},{"id":"GO:0050852","count":15},{"id":"GO:0070374","count":14}]},{"hash":"270765550939966285","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0031663","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0001403","count":3}]},{"hash":"1662610447513694202","title":"Cell adhesion and cytoskeletal remodeling","description":"The terms point to actin- and Rho-regulated cytoskeletal dynamics (filopodium assembly, Rho signaling), cell adhesion (integrin activation), and extracellular matrix remodeling, all indicating coordinated cytoskeletal reorganization driving adhesion and migration; mitotic and transcription-related terms may reflect broader cellular regulation but are less central.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000281","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0097194","count":2}]},{"hash":"428567709444456888","title":"ECM Remodeling and Complement-Coagulation Defense","description":"The cluster is dominated by extracellular matrix\u2013related processes (collagen catabolic process, extracellular matrix disassembly, amelogenesis) alongside innate immune and coagulation activities (complement activation classical and lectin pathways, defense response to Gram-positive bacteria, response to LPS, blood coagulation), suggesting a module tying ECM remodeling to immune/coagulation functions. The transcription regulation term is likely incidental. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030574","count":9},{"id":"GO:0000122","count":9},{"id":"GO:0006958","count":8},{"id":"GO:0001867","count":8},{"id":"GO:0007596","count":8}]},{"hash":"279397716363401639","title":"GTPase-driven immune signaling","description":"The cluster shows enrichment for Ras/small GTPase-mediated signaling and regulators of Rho, indicating GTPase-driven signal transduction. It also includes immune-related terms (interleukin-4 production, B cell maturation, NK T cell differentiation) and cell migration, suggesting these GTPase-driven signals participate in immune cell development and trafficking. Some terms like heart development and insulin signaling indicate broader pathways that intersect with GTPase signaling.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046580","count":5},{"id":"GO:0032633","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0002344","count":5},{"id":"GO:0001865","count":5}]},{"hash":"262103742046082661","title":"Embryonic organogenesis and differentiation","description":"This cluster centers on broad developmental processes across tissues and organ formation: pancreas development, EMT in heart cushion formation, cartilage morphogenesis, trophoblast differentiation, placental development regulation, left-right patterning, endocrine system development, and endochondral ossification. A minority of terms relate to transcription/splicing, but the predominant theme is embryonic organogenesis and tissue differentiation.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":8},{"id":"GO:0003198","count":7},{"id":"GO:0060536","count":7},{"id":"GO:0060707","count":7},{"id":"GO:0060806","count":7}]},{"hash":"1591614211842498552","title":"Cilium-Driven Hedgehog Signaling in Development","description":"This cluster is characterized by terms linking non-motile cilium assembly, Smoothened signaling (Hedgehog pathway), and imaginal disc-derived leg morphogenesis, pointing to a group of proteins acting in cilium-dependent Hedgehog signaling during development. Additional terms related to development and signaling modulation support this theme, though some annotations appear more peripheral. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0086091","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0035024","count":2},{"id":"GO:0007283","count":2},{"id":"GO:1902857","count":2}]},{"hash":"820083224870930788","title":"Calcium-mediated muscle contraction signaling","description":"The cluster\u2019s top terms cluster around calcium signaling and muscle contraction (GO:0014827 smooth muscle contraction; GO:0055117 regulation of cardiac muscle contraction; GO:0051209 release of sequestered calcium into cytosol) and PLC-activating serotonin receptor signaling (GO:0007208), which ties to Ca2+ mobilization. While there are some peripheral terms related to immune development and temperature response, the dominant pattern is Ca2+-driven signaling that regulates muscle function.","confidence":"Medium","size":24,"edges":273,"triangles":1961,"max_degree":23,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":24},{"id":"GO:0007208","count":24},{"id":"GO:0055117","count":24},{"id":"GO:0007497","count":24},{"id":"GO:0048245","count":24}]},{"hash":"2137010585231586031","title":"Spliceosome-driven mRNA processing","description":"The GO terms are dominated by mRNA splicing and processing activities (cis/alternative splicing via spliceosome, splicing regulation, mRNA export, and mRNA modification/stability), indicating proteins that function in nuclear RNA processing and spliceosome regulation.","confidence":"High","size":24,"edges":269,"triangles":1873,"max_degree":23,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":19},{"id":"GO:0010610","count":19},{"id":"GO:0006378","count":19},{"id":"GO:0000381","count":17},{"id":"GO:1905663","count":17}]},{"hash":"643060845241651488","title":"RNA splicing and processing","description":"This cluster centers on spliceosome-dependent mRNA splicing, alternative splicing regulation, and mRNA export/modification, with multiple terms about regulation of splicing and mRNA stability, indicating a cohesive role in RNA maturation and processing.","confidence":"High","size":24,"edges":145,"triangles":510,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":14},{"id":"GO:0010610","count":14},{"id":"GO:0048026","count":14},{"id":"GO:0000381","count":13},{"id":"GO:1905663","count":13}]},{"hash":"1694812929370579688","title":"Neuronal development and axon organization","description":"Based on the top GO terms, the cluster is dominated by nervous system development and neurogenesis, with specific emphasis on axon domain organization (paranode/juxtaparanode localization), dendrite patterning, and cell-cell adhesion. While a few terms relate to other developmental contexts (heart and salivary gland), the prevailing signals point to neuronal development and axon targeting/localization, suggesting these proteins function together in neuronal connectivity and axon domain organization.","confidence":"High","size":24,"edges":9,"triangles":1,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007399","count":10},{"id":"GO:0022008","count":10},{"id":"GO:0042517","count":10},{"id":"GO:0007507","count":9},{"id":"GO:0007156","count":9}]},{"hash":"1182068862173542761","title":"Neuronal Synapse Assembly and Behavioral Regulation","description":"This cluster is dominated by terms tied to synapse biology\u2014dendritic spine morphogenesis, protein localization to the synapse, and receptor clustering\u2014along with Rho signaling and cell-matrix adhesion, all of which point to synaptic assembly and maturation. In addition, multiple terms connect to behavior and sensory perception (vocalization, hearing, grooming), linking the synaptic machinery to behavioral regulation. Although there is one outlier term (immune signaling), the overarching pattern centers on neuronal synapses and behavior.","confidence":"High","size":24,"edges":4,"triangles":1,"max_degree":2,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0071625","count":16},{"id":"GO:0007160","count":12},{"id":"GO:0043113","count":11},{"id":"GO:0070433","count":10},{"id":"GO:0007266","count":10}]},{"hash":"2083107751402826841","title":"Antiviral immune signaling and cell cycle regulation","description":"The cluster shows strong antiviral cues (innate immune response, dsRNA sensing, type I interferon, defense against virus) together with cell division terms (cell division, mitotic cell cycle), suggesting proteins that link immune stress responses to cell-cycle control.","confidence":"Medium","size":24,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":10},{"id":"GO:0000278","count":8},{"id":"GO:0009938","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0008277","count":6}]},{"hash":"1583619763077927078","title":"Otic placode formation and ear development","description":"Many top GO terms cluster around ear development and auditory function (otic placode formation, cranial skeletal system development, sensory perception of sound) along with signals involved in TGF-beta response and cytoskeletal/membrane remodeling (endosome organization, Rho signaling, phosphatase regulation, tyrosine phosphorylation). This combination suggests a program related to ear morphogenesis and auditory tissue development rather than a generic apoptotic process.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0071560","count":4},{"id":"GO:0007605","count":3},{"id":"GO:0043049","count":3},{"id":"GO:0010923","count":3}]},{"hash":"1554586689245549682","title":"Ubiquitin-Proteasome\u2013Mediated Antiviral Immunity","description":"This cluster centers on ubiquitin-dependent protein degradation (SCF-proteasomal and K63-linked ubiquitination, polyubiquitination) and innate immune signaling (NF-kappaB) with defense against viruses, indicating a coordinated role in tagging and degrading proteins to regulate antiviral and inflammatory responses; some connections to stress response and DNA damage signaling via ubiquitin pathways are also reflected.","confidence":"High","size":24,"edges":15,"triangles":0,"max_degree":8,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0031146","count":11},{"id":"GO:0045087","count":9},{"id":"GO:0051607","count":9},{"id":"GO:1902916","count":8}]},{"hash":"1422442024240477968","title":"Neural development and Notch signaling","description":"This cluster is dominated by terms related to neural development, including retinal and motor neuron axon guidance, positive regulation of synapse assembly, and multiple entries about Notch receptor processing and Notch signaling regulation. Cell\u2013cell adhesion via integrins also fits neural pathfinding and synapse formation. A few terms (e.g., manganese response, vascular VEGF signaling, keratinocyte differentiation) appear as minor or peripheral associations but do not override the central theme of neural development and Notch-mediated signaling.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0007220","count":5},{"id":"GO:0010042","count":5},{"id":"GO:1900748","count":5},{"id":"GO:0031290","count":5}]},{"hash":"140091396768757206","title":"Developmental signaling and morphogenesis","description":"These terms cluster around developmental signaling and morphogenesis, including nervous system and organ development, angiogenesis, myoblast fusion, and multiple signaling pathways (ROBO, SHH/Smoothened, ERK) with Rho regulation; immune signaling terms are present but do not define the cluster.","confidence":"Medium","size":24,"edges":251,"triangles":1554,"max_degree":23,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0050852","count":8},{"id":"GO:0035385","count":8},{"id":"GO:0070374","count":7},{"id":"GO:0007224","count":7}]},{"hash":"1208383240291256370","title":"Cell wall biosynthesis and glycosylation","description":"This cluster is enriched for terms related to cell wall organization and various polysaccharide biosynthesis and modification pathways (teichoic acid biosynthesis, mucilage and glucuronoxylan biosynthesis, galactose metabolism) as well as O-linked glycosylation. These collectively point to a shared function in building and modifying cell wall polysaccharides and glycoproteins. Some terms like DNA-templated transcription and skeletal muscle tissue regeneration appear less directly connected and may reflect broad or cross-species annotations.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071555","count":5},{"id":"GO:0016266","count":5},{"id":"GO:0005978","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0071549","count":3}]},{"hash":"1514070697620811194","title":"Calcium signaling in muscle contraction and secretory processes","description":"Many of the top GO terms point to calcium-dependent signaling that drives muscle contraction (cardiac and intestinal smooth muscle) and secretory activities (gastric secretion, calcium release into the cytosol, PLC- and GPCR-mediated pathways). While a few terms touch on immune or developmental processes, the dominant theme is calcium-mediated control of contraction and secretion, making this label representative of the cluster's shared function. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":17},{"id":"GO:0001697","count":16},{"id":"GO:0007208","count":16},{"id":"GO:0055117","count":16},{"id":"GO:0007497","count":16}]},{"hash":"446056961711701376","title":"Pain and Cardiovascular Signaling","description":"This cluster centers on neurovascular signaling and hemodynamic regulation, highlighted by GO terms for sensory perception of pain, GPCR signaling, vasoconstriction, blood pressure regulation, coagulation, and smooth muscle contraction. Some terms are broader or peripheral (e.g., electron transport, visual learning), but the dominant theme links neural pain signaling with vascular control.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":15},{"id":"GO:0010579","count":15},{"id":"GO:0022900","count":15},{"id":"GO:0045777","count":15},{"id":"GO:0008542","count":15}]},{"hash":"373928933612159712","title":"Neurodevelopmental Signaling and Synapse Formation","description":"The cluster is dominated by GO terms related to nervous system development, CNS development, and synapse organization, with multiple neural signaling pathways (Roundabout/Robo and Hedgehog/SMO) and neuronal excitability (clustering of voltage-gated sodium channels). These collectively point to a cohesive theme of neural development and neuron signaling, with a few immune-related terms likely incidental. ","confidence":"High","size":24,"edges":76,"triangles":30,"max_degree":8,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0035385","count":8},{"id":"GO:0050852","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0050808","count":7}]},{"hash":"1012335242271131321","title":"GPCR-Ca2+ signaling and muscle contraction","description":"Top GO terms point to GPCR-mediated phospholipase C activation (serotonin receptor signaling) and histamine-induced calcium release, together with regulation of cardiac and intestinal smooth muscle contraction and calcium ion release into cytosol. These shared mechanisms suggest a theme of calcium-dependent signaling governing muscle function across tissues. Some terms (immune cell differentiation, eosinophil chemotaxis, temperature response) are peripheral but may reflect broader signaling contexts in the dataset.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":24},{"id":"GO:0007208","count":24},{"id":"GO:0055117","count":24},{"id":"GO:0007497","count":24},{"id":"GO:0048245","count":24}]},{"hash":"2113234650956952221","title":"Cytoskeleton Remodeling and Golgi-ER Trafficking","description":"These proteins cluster around cytoskeletal dynamics and cell adhesion (stress fiber assembly, substrate adhesion-dependent spreading, mechanical stimulus response) and intracellular transport between the Golgi and ER (Golgi organization, retrograde Golgi-to-ER transport), with accompanying signaling (ERK cascade). This combination suggests a cohesive module coordinating cytoskeleton remodeling with Golgi-ER trafficking and related signaling, though a few terms may reflect broader processes. ","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051496","count":5},{"id":"GO:0006890","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0007030","count":4},{"id":"GO:0071260","count":4}]},{"hash":"1214381672075877902","title":"GPCR-PLC-Ca2+ Signaling Across Tissues","description":"The terms cluster around GPCRs activating phospholipase C, leading to intracellular calcium release, which ties to smooth and cardiac muscle contraction, secretion (gastric acid), and immune cell functions like eosinophil chemotaxis and T cell differentiation; this points to a shared GPCR-PLC-Ca2+ signaling axis across tissues, with a few entries (e.g., midgut development) representing context-specific roles.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032720","count":17},{"id":"GO:0001697","count":16},{"id":"GO:0007208","count":16},{"id":"GO:0055117","count":16},{"id":"GO:0007497","count":16}]},{"hash":"1106717024697898783","title":"Protein folding and ER targeting quality control","description":"This cluster centers on proteins involved in preventing/handling misfolded proteins (unfolded protein response, chaperone-assisted refolding) and directing nascent chains to membranes (SRP-dependent targeting). Iron-sulfur cluster assembly appears as a related maturation process, suggesting a broader protein maturation theme. Some terms (karyogamy, hematopoietic stem cell differentiation) seem peripheral or obsolete, likely noise, but the core signals point to protein quality control and targeting pathways.","confidence":"Medium","size":24,"edges":90,"triangles":177,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000902","count":6},{"id":"GO:0006880","count":6},{"id":"GO:0070389","count":6},{"id":"GO:1900035","count":6},{"id":"GO:0000742","count":6}]},{"hash":"1880378092676169905","title":"Circadian Ubiquitination and Proteostasis","description":"The top GO terms show strong enrichment for ubiquitin-dependent proteolysis and various ubiquitin linkages (K63, K6, polyubiquitination, autoubiquitination) and regulation of circadian rhythm, plus protein homooligomerization. This points to a set of proteins that regulate the circadian clock through ubiquitin-mediated protein turnover, with some ancillary links to signaling and vitamin D response. Confidence is High.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0042752","count":7},{"id":"GO:0051865","count":6},{"id":"GO:0051260","count":6},{"id":"GO:0070534","count":5}]},{"hash":"1584739393505514795","title":"Inflammation, coagulation, and vascular remodeling","description":"The top GO terms show strong signals for innate immune defense (defense response to Gram-positive bacteria, response to lipopolysaccharide, complement activation), coagulation (blood coagulation), and tissue remodeling including angiogenesis and collagen catabolic processes. Together these point to a functional module centered on inflammation coupled with vascular remodeling and ECM turnover, rather than a single isolated pathway. Some development-related terms appear but do not override the predominant theme. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0007596","count":8},{"id":"GO:0030901","count":7},{"id":"GO:0006958","count":7},{"id":"GO:0050830","count":6}]},{"hash":"1595456813708896635","title":"Adaptive Immune Signaling and Phagocytosis","description":"The GO terms point to an adaptive immune activation module, including B cell receptor signaling, classical complement activation, Fc receptor signaling, T cell costimulation, phagocytosis, and intercellular adhesion. Despite no network edges, the consistent immune-function annotations tie the proteins to antibody- and cell-mediated immune responses.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050853","count":18},{"id":"GO:0006958","count":17},{"id":"GO:0002250","count":17},{"id":"GO:1900042","count":17},{"id":"GO:0006911","count":17}]},{"hash":"1331150610036939909","title":"Developmental cell migration and cytoskeletal signaling","description":"The top GO terms indicate strong emphasis on cell movement and cytoskeletal dynamics (lamellipodium assembly, Rho signaling, GTPase activity, and cell migration) alongside developmental processes (heart, spinal cord, and neuron projection development). Signaling pathways like insulin receptor signaling and TGF-beta response suggest cross-talk that regulates cytoskeletal remodeling during development. Together, these point to a cluster of proteins coordinating migration and cytoskeletal changes in developing neural and cardiac contexts.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0031175","count":4},{"id":"GO:0008286","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0035023","count":4}]},{"hash":"1005221602729092194","title":"RNA Processing and Vesicle Trafficking","description":"The terms show both RNA maturation/processing (SSU-rRNA maturation, mRNA processing) and vesicle trafficking between ER and Golgi and endosomes, with GTPase activity regulation, suggesting a cluster of proteins involved in intracellular RNA metabolism alongside the secretory transport machinery.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":4},{"id":"GO:0006397","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0006888","count":3}]},{"hash":"232144911417345867","title":"Mitochondrial Calcium Handling","description":"The prominent GO terms point to mitochondrial processes (calcium import into the mitochondrion, protein import into the mitochondrial matrix) and calcium signaling (release of sequestered calcium into cytosol), with accompanying stress and signaling responses (hypoxia, glucocorticoid response) and related organ development processes. This suggests a cohesive theme around mitochondrial calcium homeostasis and stress response, despite a lack of network edges.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":4},{"id":"GO:0097274","count":4},{"id":"GO:0036444","count":4},{"id":"GO:0030150","count":3},{"id":"GO:0060546","count":3}]},{"hash":"2053851431956447427","title":"Neuronal stress response and gene regulation","description":"The cluster includes apoptosis, neuronal synaptic plasticity, transcription and splicing regulation, translation, and circadian rhythm terms, suggesting proteins linked to neuronal stress responses that modulate gene expression at multiple levels and affect survival and circadian-related functions.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0060292","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0043620","count":2},{"id":"GO:0000381","count":2}]},{"hash":"448411984259162747","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:2000352","count":2},{"id":"GO:0000185","count":2},{"id":"GO:0031120","count":2},{"id":"GO:0007338","count":2}]},{"hash":"1151380268006276952","title":"Immune and Coagulation Pathway Modulators","description":"The top GO terms cluster around blood coagulation and immune response, with several entries on regulation of cell adhesion, phagocytosis, and signaling cascades (ERK, GTPase). This points to a group of proteins that coordinate immune/coagulation signaling and control cell interactions during immune responses and vascular remodeling, despite some broader developmental terms. ","confidence":"Medium","size":24,"edges":9,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007596","count":5},{"id":"GO:0071803","count":5},{"id":"GO:0006955","count":4},{"id":"GO:0034115","count":4},{"id":"GO:0070373","count":4}]},{"hash":"2296132318847973740","title":"Immune and developmental signaling mediators","description":"The top GO terms mix immune signaling (negative regulation of NF-kappaB, IL-1 response, phagocytosis) with developmental processes (embryo implantation, gonad and muscle development) and cytoskeletal movement. This suggests the proteins act as regulators across immune signaling and developmental contexts rather than a single, cohesive pathway, so a label like \u201cimmune and developmental signaling mediators\u201d captures the shared theme while remaining concise.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000352","count":3},{"id":"GO:0043124","count":3},{"id":"GO:0007566","count":2},{"id":"GO:0008284","count":2},{"id":"GO:0050766","count":2}]},{"hash":"2025451950612919639","title":"Biosynthesis and post-translational modification","description":"Based on the Top Terms, several entries point to biosynthetic processes, including antibiotic biosynthesis, wybutosine biosynthesis, and tetracenomycin C biosynthesis, plus C-terminal protein methylation (a post-translational modification). While other GO terms about mitotic regulation and angiogenesis are present, the strongest coherent theme is biosynthesis and related protein modification, which best groups these proteins.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006481","count":2},{"id":"GO:0031591","count":2},{"id":"GO:1901106","count":2},{"id":"GO:0090266","count":2},{"id":"GO:0010906","count":2}]},{"hash":"109419857365270799","title":"Aminoacyl-tRNA Synthetases","description":"This cluster is dominated by GO terms for translation and aminoacyl-tRNA charging, including methionyl-, leucyl-, isoleucyl-, and valyl-tRNA aminoacylation, indicating a cohesive set of aminoacyl-tRNA synthetases that support protein synthesis and translational fidelity. A few unrelated terms appear at lower frequency, likely reflecting broader cellular contexts rather than core function. Overall, the cluster most plausibly represents aminoacyl-tRNA synthetases involved in translation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0006431","count":7},{"id":"GO:0006450","count":7},{"id":"GO:0006429","count":7},{"id":"GO:0006428","count":6}]},{"hash":"1955247070278092419","title":"Ubiquitin-Dependent Protein Turnover","description":"The top terms are centered on ubiquitin-driven protein catabolism (ubiquitin-dependent protein catabolic process, ERAD, autoubiquitination) and ubiquitination of histones, with ancillary references to ubiquitin-regulated signaling and chromatin processes. This strongly indicates a cluster of proteins involved in ubiquitin-proteasome turnover and chromatin-associated ubiquitination, justifying the name.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":19},{"id":"GO:0030433","count":11},{"id":"GO:0051865","count":10},{"id":"GO:1903265","count":9},{"id":"GO:0085020","count":9}]},{"hash":"1799635331131772754","title":"Mammary Gland Lipid and Hormone Metabolism","description":"This cluster is dominated by GO terms for mammary gland development and multiple lipid and steroid metabolic processes (triglyceride/cholesterol catabolism; cortisol and androgen biosynthesis) as well as an omega-hydroxylase P450 pathway, suggesting coordinated mammary tissue function linked to lipid handling and hormone metabolism. The maternal process in parturition term further supports a mammary biology context, with a few other terms related to cell cycle and immune modulation being secondary. ","confidence":"High","size":24,"edges":12,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070989","count":24},{"id":"GO:0060137","count":24},{"id":"GO:0030879","count":24},{"id":"GO:0006707","count":24},{"id":"GO:0010760","count":24}]},{"hash":"1843352081029205551","title":"Embryonic craniofacial-vascular development and EMT-immune signaling","description":"The top GO terms point to craniofacial structure development (roof of mouth), somite development, and vascular processes (endothelial migration, sprouting angiogenesis), alongside epithelial-to-mesenchymal transition and immune-related activities (innate immune response, immunological synapse, cytokine regulation). This suggests a cohesive theme of embryonic development involving craniofacial/vascular formation with EMT and immune signaling, rather than a single isolated process.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":14},{"id":"GO:0000122","count":12},{"id":"GO:0045087","count":10},{"id":"GO:0043542","count":10},{"id":"GO:0001837","count":10}]},{"hash":"1124567202993784257","title":"Embryonic organogenesis with immune\u2013vascular signaling","description":"The cluster features GO terms spanning embryonic organ development (kidney-related mesonephric/metanephric development, cartilage condensation) along with lymphatic vessel morphogenesis and several immune/vascular signaling processes (basophil activation, Fc-gamma receptor signaling, phagocytosis recognition, NK cell regulation). This suggests a broad developmental program that includes organogenesis as well as maturation of immune and vascular interactions. ","confidence":"Medium","size":24,"edges":260,"triangles":1710,"max_degree":23,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0072177","count":24},{"id":"GO:0045575","count":24},{"id":"GO:0060355","count":24},{"id":"GO:0038094","count":24},{"id":"GO:0036303","count":24}]},{"hash":"1440983244780525397","title":"Embryonic Development and Morphogenesis","description":"The GO terms are dominated by embryonic development and tissue morphogenesis across multiple lineages (endocrine system, mesoderm, placenta, hair follicles, cartilage, palate), suggesting a cohesive role in developmental patterning and organ formation rather than a single tissue-specific function.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":19},{"id":"GO:0060972","count":19},{"id":"GO:0003323","count":19},{"id":"GO:0003198","count":19},{"id":"GO:0060707","count":19}]},{"hash":"2030717931597788119","title":"Unknown","description":"The GO terms are diverse and do not point to a single cohesive function for this cluster. They span neural development (axonogenesis), autophagy and apoptosis regulation, renal ion absorption, endothelial migration, and cell-cycle/hypoxia responses, indicating a mixture of unrelated cellular processes rather than a unified theme.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007409","count":5},{"id":"GO:0016239","count":4},{"id":"GO:0070294","count":3},{"id":"GO:0010596","count":3},{"id":"GO:0006469","count":3}]},{"hash":"2247077694129590002","title":"Ribosome Biogenesis and mRNA Processing","description":"This cluster centers on rRNA maturation (SSU/LSU) and mRNA splicing, along with translation initiation and translation, indicating a cohesive role in RNA processing and assembly of the translation machinery.","confidence":"High","size":23,"edges":41,"triangles":19,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:1901407","count":4},{"id":"GO:0000463","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3}]},{"hash":"659957989459054477","title":"Thermogenesis and inflammatory GPCR signaling","description":"This set of proteins is enriched for GO terms related to temperature response and diet-induced thermogenesis, alongside inflammatory signaling such as prostaglandin response and lipopolysaccharide response. The presence of GPCR-mediated adenylate cyclase activation and related BP regulation hints at a coordinated signaling network linking metabolic stress with inflammatory pathways. The electron transport chain term suggests metabolic adjustment, supporting a thermogenic/metabolic-inflammation theme.","confidence":"Medium","size":23,"edges":19,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":15},{"id":"GO:0002024","count":15},{"id":"GO:0019233","count":15},{"id":"GO:0010579","count":11},{"id":"GO:0071380","count":11}]},{"hash":"1894897445161853865","title":"Pain and Temperature Sensing via Dopaminergic GPCR Signaling","description":"This cluster is dominated by GO terms for sensory pain, temperature stimulus response, and diet-induced thermogenesis, with strong signals for dopaminergic synaptic transmission and GPCR signaling pathways (including ERK cascade and GTPase regulation). While a few terms like heart development and TNF regulation appear, the predominant theme centers on neuronal GPCR-mediated signaling related to pain and temperature sensation and energy/metabolic regulation.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":16},{"id":"GO:0071502","count":15},{"id":"GO:0002024","count":15},{"id":"GO:0007507","count":13},{"id":"GO:0070374","count":13}]},{"hash":"1546624209067344343","title":"TLR-Mediated Antiviral Cytokine Response","description":"Top terms are dominated by innate immune signaling and cytokine production in response to viral components (innate immune response, response to dsRNA, defense response to virus, TLR4 signaling, and positive regulation of IL-6 and TNF). This suggests a cluster of proteins involved in sensing viral patterns and triggering antiviral cytokine responses. Some terms about actin organization and ion transport appear peripheral, likely reflecting cellular activation processes rather than core antiviral signaling. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0032755","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0043330","count":7},{"id":"GO:0032760","count":7},{"id":"GO:0051607","count":7}]},{"hash":"1326910811754190188","title":"Immune signaling and vesicle trafficking","description":"The top GO terms heavily point to immune functions, including innate immune response, defense against Gram-positive bacteria, and B cell receptor signaling. Supporting terms like COPII-coated vesicle budding and tight junction assembly suggest roles in vesicle transport and cell barriers, which often intersect with immune processes. Some terms (brain development, retina homeostasis, ribosome biogenesis, cell cycle) appear as general housekeeping signals, but do not override the dominant immune-related theme. Overall, the cluster seems best described as immune signaling with vesicle trafficking involvement.","confidence":"Medium","size":23,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0070830","count":3},{"id":"GO:0090114","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0051301","count":3}]},{"hash":"334802231139237894","title":"Epithelial-mesenchymal signaling and branching morphogenesis","description":"This cluster centers on developmental signaling in epithelial tissues, with terms pointing to EMT-related processes, branching morphogenesis (lung bud elongation), mammary gland development, and tissue polarity. The inclusion of cellular response to mechanical stimulus and fibroblast proliferation supports a theme of dynamic tissue remodeling and organ morphogenesis driven by epithelial\u2013mesenchymal signaling.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0060684","count":9},{"id":"GO:0035307","count":9},{"id":"GO:0060449","count":9},{"id":"GO:0071260","count":8},{"id":"GO:0030879","count":8}]},{"hash":"2201233742912706974","title":"GPCR signaling with cGMP and light sensing","description":"Top GO terms point to GPCR-mediated signaling (adenosine and adrenergic receptors) with cGMP biosynthesis and intracellular signal transduction, plus light- and hypoxia-related sensing (blue light signaling, detection of hypoxia, forskolin response). This suggests a core theme of receptor-driven second-messenger signaling (cGMP/cAMP) intertwined with environmental sensing pathways. Confidence: High","confidence":"","size":23,"edges":14,"triangles":3,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0001973","count":12},{"id":"GO:0071880","count":12},{"id":"GO:0006182","count":12},{"id":"GO:0009785","count":12},{"id":"GO:0035556","count":12}]},{"hash":"610995304417392064","title":"Oxidative stress response and redox homeostasis","description":"The cluster is dominated by GO terms tied to oxidative stress and redox balance (cellular response to hydrogen peroxide, cellular oxidant detoxification, and redox homeostasis), suggesting proteins involved in detoxifying reactive oxygen species and maintaining cellular redox state. Some terms point to phosphorylation and protein complex formation, and a few outliers (e.g., neuron projection development) may reflect pleiotropy or incidental associations. Overall, the redox-focused terms best define the cluster.","confidence":"High","size":23,"edges":133,"triangles":336,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0070301","count":7},{"id":"GO:0098869","count":7},{"id":"GO:0045454","count":6},{"id":"GO:0055114","count":6},{"id":"GO:0071333","count":4}]},{"hash":"1060562731432655092","title":"Neuronal endosome trafficking and synaptic vesicle regulation","description":"The top GO terms cluster around endosomal-lysosomal transport, multivesicular body assembly/sorting, and autophagy regulation, all tied to endosomal pathways. Additional neural-specific terms (excitatory postsynaptic potential, regulation of synaptic vesicle exocytosis, substantia nigra development) suggest a neuronal context focused on vesicle handling and trafficking at synapses. A minority of cell-division terms exist but do not override the predominant neuronal trafficking theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0008333","count":3},{"id":"GO:0021762","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0010458","count":2}]},{"hash":"367669462458152272","title":"Cardiac development and epithelial polarity signaling","description":"This cluster is enriched for heart development (GO:0007507), Rho protein signal transduction regulation (GO:0035023), calcineurin-NFAT signaling (GO:0070886), thyroid hormone response (GO:0097067), cell-matrix adhesion (GO:0007160), and epithelial polarity establishment (GO:0045198). The combination suggests coordinated signaling that governs cardiac morphogenesis along with epithelial tissue organization and adhesion, with Rho-driven cytoskeletal dynamics and NFAT/T3-responsive transcription contributing to both heart development and epithelial polarity processes.","confidence":"Medium","size":23,"edges":58,"triangles":1,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0061000","count":3}]},{"hash":"999139875165630253","title":"Cell growth and intracellular trafficking","description":"The cluster centers on fundamental growth and protein production processes (mitotic cell cycle, cell division, translation, and ribosome biogenesis) and also includes several vesicular trafficking terms (CVT pathway, endosome to lysosome/Golgi transport), suggesting a cohesive module balancing growth, division, and intracellular cargo sorting. ","confidence":"High","size":23,"edges":8,"triangles":4,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0042254","count":3}]},{"hash":"475597592376803749","title":"Visceral physiological regulation","description":"The terms converge on regulation of internal physiological states across organs: temperature response and thermogenesis point to energy balance, while gastric secretion, smooth muscle contraction, and urine volume relate to visceral function. Cardiac regulation and pain/serotonin signaling suggest neural and endocrine integration. Although development and immune-related terms appear, the core theme is coordinating systemic visceral physiology rather than a single pathway.","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":13},{"id":"GO:0002024","count":13},{"id":"GO:0019233","count":13},{"id":"GO:0001697","count":12},{"id":"GO:0007208","count":12}]},{"hash":"589752064892673817","title":"Immune signaling and transcription regulation","description":"This cluster is enriched for transcription by RNA polymerase II and immune-related processes (IL-4 response, type II interferon production, NK cell cytotoxicity), suggesting a set of genes that coordinate transcriptional programs in immune signaling. Some developmental terms appear but likely reflect broader expression contexts; overall theme centers on immune-related transcriptional control.","confidence":"Medium","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":21},{"id":"GO:0071353","count":17},{"id":"GO:0045078","count":16},{"id":"GO:0003151","count":16},{"id":"GO:0042267","count":16}]},{"hash":"366873086814945149","title":"Transcription Regulation & Chromatin Remodeling","description":"This cluster is dominated by GO terms for DNA-templated transcription, negative regulation of transcription by RNA polymerase II, and chromatin remodeling, suggesting a core role in controlling gene expression. The development-related terms likely reflect tissue-specific regulation during organ morphogenesis, but the shared theme across proteins is transcriptional control and chromatin state.","confidence":"High","size":23,"edges":140,"triangles":388,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":12},{"id":"GO:0000122","count":10},{"id":"GO:0043044","count":8},{"id":"GO:0060534","count":8},{"id":"GO:0003289","count":8}]},{"hash":"888278490669937085","title":"Neural development and neuronal fate specification","description":"This cluster is dominated by GO terms related to neural development and neuron fate determination, including spinal cord neuron and motor neuron fate specification, subpallium neuron fate commitment, and cerebral cortex GABAergic interneuron differentiation, with supporting terms for broader development and transcription. While other organ development terms appear, the neural differentiation themes are most prominent and representative of the cluster\u2019s function.","confidence":"High","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060435","count":18},{"id":"GO:0006366","count":18},{"id":"GO:0021530","count":18},{"id":"GO:0031018","count":18},{"id":"GO:0021520","count":18}]},{"hash":"1314207958906828654","title":"Nuclear architecture and movement","description":"This cluster is dominated by GO terms tied to nuclear structure and positioning: nuclear envelope organization, nuclear matrix anchoring at the nuclear membrane, nuclear migration along microfilaments, and centrosome localization, suggesting proteins that coordinate nuclear morphology and movement. Some outliers (e.g., capsule polysaccharide biosynthesis, aging) appear unrelated, but the core theme centers on nuclear architecture and spatial dynamics. Confidence: Medium","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006998","count":3},{"id":"GO:0045227","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0045454","count":2}]},{"hash":"1980665927604030670","title":"Leukocyte chemotaxis and adhesion","description":"The top GO terms point to immune cell recruitment and attachment, with neutrophil and eosinophil chemotaxis and heterophilic cell\u2013cell adhesion being prominent. Other immune-related terms (T cell apoptotic process, xenophagy) support an immune/inflammatory context, while a few unrelated terms appear as noise. Thus, a label centered on leukocyte migration and adhesion best captures the cluster\u2019s core function.","confidence":"High","size":23,"edges":215,"triangles":1098,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":5},{"id":"GO:0007157","count":5},{"id":"GO:0030593","count":5},{"id":"GO:0071407","count":5},{"id":"GO:0050994","count":4}]},{"hash":"1902051817784394296","title":"Embryonic organogenesis with stress signaling","description":"The cluster centers on developmental processes across multiple organs (heart tube patterning, lung morphogenesis, cranial skeletal system, lens fiber differentiation, trabecular meshwork development), indicating broad organogenesis. It also includes terms tied to stress and immune modulation (hyperoxia response, stress, IL-21 production, mast cell regulation, estrogen signaling), suggesting integrated developmental and physiological signaling during embryogenesis.","confidence":"Medium","size":23,"edges":87,"triangles":132,"max_degree":20,"top_function":"cytoskeleton organization","top_go_terms":[{"id":"GO:0071455","count":6},{"id":"GO:0035054","count":6},{"id":"GO:0060501","count":6},{"id":"GO:1904888","count":6},{"id":"GO:0043305","count":6}]},{"hash":"1708534919817681063","title":"Neural development and Ras/ERK signaling","description":"The cluster is rich in terms related to brain development and neural proliferation (mitotic cell cycle, cell population proliferation) and key signaling pathways (ERK1/ERK2 cascade, Ras signaling, GTPase activity). It also includes calcium-dependent and synaptic vesicle exocytosis terms, suggesting neuronal maturation and synaptic function. This combination points to neural development driven by Ras/MAPK signaling and associated exocytotic processes.","confidence":"High","size":23,"edges":7,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0070374","count":4},{"id":"GO:0008283","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0043547","count":4}]},{"hash":"1987264221728206837","title":"Unknown","description":"The top GO terms cover cardiac development, cell cycle and mitosis, endothelial migration, osmosensory signaling, trehalose metabolism, ER-stress\u2013related apoptosis, and tight junction regulation, which span diverse biological areas with no clear single shared function. This lack of a cohesive theme makes a precise, representative label unreliable.","confidence":"","size":23,"edges":191,"triangles":753,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060044","count":23},{"id":"GO:0007100","count":23},{"id":"GO:1901319","count":23},{"id":"GO:0007070","count":23},{"id":"GO:0043536","count":23}]},{"hash":"1411430938493497508","title":"Immune Activation and Phagocytosis","description":"The cluster shows strong enrichment for complement activation, phagocytosis and recognition/engulfment, innate immune response, and B cell\u2013related signaling and activation, indicating a cohesive immune response module. While a subset of terms like ventral trunk neural crest cell migration and trigeminal nerve organization appear, these are less central to the majority of GO terms and likely reflect shared protein roles or annotation breadth. Overall, the dominant theme is activation of innate and adaptive immunity with phagocytic processes.","confidence":"Medium","size":23,"edges":28,"triangles":12,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":18},{"id":"GO:0006910","count":16},{"id":"GO:0050853","count":16},{"id":"GO:0045087","count":16},{"id":"GO:0050871","count":16}]},{"hash":"2215753225555367828","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010745","count":6},{"id":"GO:1900383","count":5},{"id":"GO:0045444","count":5},{"id":"GO:1901187","count":5},{"id":"GO:0043588","count":4}]},{"hash":"14184393776267515","title":"Ubiquitin-Dependent Protein Degradation","description":"The top GO terms are dominated by ubiquitin-related processes: ubiquitin-dependent protein catabolic process, protein polyubiquitination, and regulation of ubiquitination, which strongly point to protein turnover via ubiquitin tagging. While some terms reference plant- or immune-specific pathways (circadian regulation, brassinosteroid signaling, flower development, B cell signaling, germinal center formation), these can be tied to ubiquitin-regulated control across diverse signaling pathways. Overall, the cluster appears to group proteins involved in ubiquitin-mediated protein degradation and its regulation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0051260","count":9},{"id":"GO:0042752","count":9},{"id":"GO:0000209","count":7},{"id":"GO:0002467","count":7}]},{"hash":"1504732446399561538","title":"Hypoxia-Driven Cell Cycle and Signaling Regulation","description":"The cluster centers on a cellular response to hypoxia together with the mitotic cell cycle, and includes regulatory processes such as actin cytoskeleton remodeling, kinase signaling, and mRNA transport, suggesting a coordinated program of proliferation and signal transduction under low-oxygen conditions that also touches on development.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071456","count":14},{"id":"GO:0000278","count":13},{"id":"GO:2000601","count":13},{"id":"GO:0051028","count":13},{"id":"GO:0050731","count":13}]},{"hash":"2275565531165728754","title":"Ribosome Biogenesis, RNA Processing, and Cell Cycle","description":"This cluster is dominated by terms for ribosome biogenesis and cell division, with supporting roles in mRNA splicing and DNA replication processing, plus TORC1 signaling and vesicle trafficking. The combination points to a growth and proliferation program coordinating protein synthesis, RNA processing, and cell cycle progression, hence a single cohesive theme.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0042254","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0000398","count":5},{"id":"GO:1903461","count":4}]},{"hash":"1440795716883568748","title":"Ubiquitin-Dependent Proteolysis and Circadian Regulation","description":"The top GO terms are dominated by ubiquitination and protein degradation processes (ubiquitin-dependent protein catabolic process, polyubiquitination, K48-linked ubiquitination, autoubiquitination), plus autophagy and histone ubiquitination, with a notable signal for regulation of circadian rhythm. This points to a functional cluster centered on ubiquitin-mediated protein turnover, including degradation via the proteasome and autophagy-linked pathways, as well as chromatin-level regulation, with circadian control as a related theme. The presence of V(D)J recombination and TNF signaling terms likely reflect broader roles of ubiquitination in signaling rather than a separate pathway.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0042752","count":8},{"id":"GO:0051865","count":8},{"id":"GO:0000209","count":8},{"id":"GO:0070936","count":8}]},{"hash":"1154449167783971374","title":"Neural development and synapse assembly","description":"The top GO terms center on nervous system development, cell adhesion (heterophilic and homophilic), and synaptic organization, including presynaptic active zone assembly and cytoskeletal processes, indicating proteins involved in neuronal differentiation, cell\u2013cell junction formation, and synapse establishment.","confidence":"High","size":23,"edges":38,"triangles":0,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":23},{"id":"GO:0043931","count":23},{"id":"GO:0051965","count":22},{"id":"GO:0007399","count":22},{"id":"GO:0007156","count":22}]},{"hash":"982220999714028114","title":"Membrane trafficking and lipid metabolism","description":"The top GO terms cluster around lipid transport, lipoprotein metabolic processes, vesicle transport/fusion, and receptor recycling, all pointing to intracellular membrane dynamics and lipid handling. Although a few terms touch broader cellular organization, the dominant theme is vesicle trafficking and membrane-associated lipid processes, supporting the label.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006869","count":4},{"id":"GO:0042118","count":4},{"id":"GO:0042157","count":4},{"id":"GO:0051292","count":3},{"id":"GO:0032581","count":3}]},{"hash":"1297882564854049006","title":"Intestinal brush border actin dynamics","description":"The cluster is dominated by GO terms tied to the actin cytoskeleton and microvilli structure in the intestinal brush border: actin filament severing and bundle assembly, terminal web assembly, and regulation of microvillus length, plus intestinal glucose absorption. These point to a cohesive theme of organizing and remodeling microvilli in the gut epithelium, with some peripheral terms related to signaling or metabolism. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051014","count":3},{"id":"GO:0090004","count":3},{"id":"GO:1902896","count":3},{"id":"GO:0032532","count":3},{"id":"GO:0071320","count":3}]},{"hash":"1300976520008659520","title":"Histone acetylation/deacetylation","description":"The top GO terms are dominated by histone modifications (H4-K8 acetylation, H4-K5 acetylation, histone deacetylation, H3 acetylation), indicating a chromatin modification and transcription-regulation theme. Other terms like neural tube closure and cellular responses (dopamine, mechanical stimulus) appear supporting but less central, suggesting the cluster mainly reflects histone modification processes with broader regulatory connections.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043982","count":3},{"id":"GO:0043981","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0043547","count":3},{"id":"GO:1903351","count":2}]},{"hash":"1311173488096832504","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":50,"triangles":37,"max_degree":22,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070389","count":5},{"id":"GO:0006986","count":5},{"id":"GO:0006458","count":5},{"id":"GO:0036494","count":5},{"id":"GO:0097428","count":5}]},{"hash":"538630884804538324","title":"Neural development and axon guidance","description":"The top GO terms are dominated by nervous system development, myelination, neuron projection development, and synapse assembly, with Robo and Hedgehog signaling pathways (Roundabout and Smoothened). This pattern points to a neural development and axon guidance module, despite a few broader developmental terms like angiogenesis and skeletal development. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":10},{"id":"GO:0042552","count":9},{"id":"GO:0051965","count":9},{"id":"GO:0035385","count":9},{"id":"GO:0031175","count":8}]},{"hash":"782863611723519770","title":"Eye development and inflammatory signaling","description":"The strongest term is eye development (GO:0001654) with 9 proteins, suggesting retina/eye-related roles. Several terms tie to retinoid biology (response to vitamin A) and immune/inflammatory pathways (complement activation, IL-13 production, inflammatory response). While apoptosis and transcription regulation are also present, the overall signal points to ocular development coupled with immune/inflammatory regulation, potentially linked to retinoic acid signaling.","confidence":"High","size":23,"edges":69,"triangles":78,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0001654","count":9},{"id":"GO:0045892","count":9},{"id":"GO:0060044","count":9},{"id":"GO:0050729","count":9},{"id":"GO:0061179","count":9}]},{"hash":"234472304300970556","title":"Cytokine regulation and endosomal trafficking","description":"The top GO terms point to both immune signaling regulation (positive/negative regulation of TNF, IL-6, and IL-8 production) and vesicular trafficking processes (endocytic recycling, endosome transport, and autophagy-related Cvt pathway). This suggests a cluster of proteins that connect cytokine output with intracellular trafficking and receptor routing, rather than a single isolated function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0032088","count":3},{"id":"GO:0032717","count":2},{"id":"GO:0032715","count":2},{"id":"GO:0032760","count":2}]},{"hash":"2226251007310921368","title":"Calcium-Driven GI Muscle and Immune Signaling","description":"These proteins cluster around calcium signaling and PLC-activated pathways that control GI smooth muscle activity (gastric acid secretion, intestinal contraction, urine regulation) as well as muscle contractility in other tissues, and immune cell responses (eosinophil chemotaxis, T cell differentiation). The shared mechanism\u2014calcium release into the cytosol driving downstream signaling\u2014provides a cohesive theme linking muscle function and immune signaling across tissues.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":23},{"id":"GO:0007208","count":23},{"id":"GO:0055117","count":23},{"id":"GO:0007497","count":23},{"id":"GO:0048245","count":23}]},{"hash":"1664753045206235539","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0016567","count":9},{"id":"GO:0042752","count":9},{"id":"GO:0030433","count":8},{"id":"GO:0061158","count":7}]},{"hash":"499931694261484840","title":"Cardiac development and function.","description":"The cluster is dominated by GO terms linked to heart biology and signaling in cardiac tissue: heart development, regulation of cardiac muscle contraction, regulation of blood pressure, prostaglandin response in cardiovascular contexts, and signaling cascades such as adenylate cyclase activation and GTPase activity. The presence of the electron transport chain suggests energetic support for heart muscle function. A few terms (e.g., temperature response, pain perception) may reflect broader stress or systemic signaling that can influence cardiac physiology. Overall, these terms point to a cohesive cardiac development/functional signaling theme. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":9},{"id":"GO:0055117","count":8},{"id":"GO:0071502","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0043547","count":8}]},{"hash":"193396575788618986","title":"Unknown","description":"The top GO terms point to diverse processes: ubiquitin-dependent protein degradation, metal and hormone/ligand responses, sensory and neural signaling, cardiac electrophysiology, innate immunity and antiviral defense, protein folding, transcription regulation, and synaptic plasticity. There isn\u2019t a single dominant function connecting these terms, so a cohesive, specific label isn\u2019t evident; thus an Unknown label with None confidence.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0071276","count":6},{"id":"GO:0033280","count":5},{"id":"GO:0050966","count":5},{"id":"GO:0098907","count":5}]},{"hash":"651877041577296208","title":"Energy metabolism and nutrient signaling","description":"This cluster centers on core energy metabolism (TCA cycle, oxaloacetate/NADH-related processes) and a set of signals tied to nutrients and hormonal responses (cAMP, glucose, nutrient, estrogen), plus hypoxia and apoptosis regulation, suggesting coordinated metabolic and stress-response regulation.","confidence":"High","size":22,"edges":225,"triangles":1429,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0006107","count":11},{"id":"GO:0048569","count":9},{"id":"GO:0051591","count":9},{"id":"GO:0043627","count":9},{"id":"GO:0007584","count":9}]},{"hash":"2069539910146198439","title":"RNA splicing and translation regulation","description":"This cluster is enriched for post-transcriptional RNA processing and translation control terms, including regulation of mRNA splicing via spliceosome, formation of the translation preinitiation complex, and translation reinitiation, plus ncRNA-mediated gene silencing and mRNA modification, indicating a cohesive group involved in RNA processing and translation regulation.","confidence":"High","size":22,"edges":218,"triangles":1308,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":12},{"id":"GO:0048026","count":12},{"id":"GO:0002188","count":11},{"id":"GO:1901407","count":11},{"id":"GO:0001731","count":11}]},{"hash":"2153204185835469798","title":"Dopaminergic GPCR Signaling and Cardiovascular Regulation","description":"The GO terms show strong enrichment for GPCR signaling components (GTPase activity, adenylate cyclase activation) and ERK cascade activation, along with dopaminergic synaptic transmission and cardiovascular-related processes (blood pressure and heart development). This suggests a coherent theme of dopaminergic GPCR signaling influencing cardiovascular regulation via ERK signaling, with neural signaling elements also present. There is some metabolic signal from the electron transport chain, but it does not override the core theme.","confidence":"High","size":22,"edges":51,"triangles":9,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":17},{"id":"GO:0043547","count":16},{"id":"GO:0010579","count":16},{"id":"GO:0022900","count":16},{"id":"GO:0007190","count":16}]},{"hash":"1457670355861103809","title":"Spliceosome-Mediated mRNA Processing","description":"The cluster is enriched for GO terms centered on mRNA splicing and processing, especially spliceosome-driven alternative splicing (GO:0000381, GO:0000380, GO:0045292), mRNA export (GO:0006406), and mRNA modification (GO:0016556), with additional stress-related mRNA stability regulation (GO:0010610). This combination points to a cohesive functional module focused on RNA maturation and processing rather than transcription or translation. ","confidence":"High","size":22,"edges":228,"triangles":1481,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":14},{"id":"GO:0006378","count":12},{"id":"GO:0000381","count":11},{"id":"GO:0045292","count":11},{"id":"GO:1905663","count":9}]},{"hash":"270380468665812864","title":"Neuronal signaling and sensory perception","description":"This cluster is dominated by GO terms tied to neural function and sensory processing, including sensory perception of pain, visual perception and learning, dopaminergic synaptic transmission, and behavioral responses to cocaine, along with ERK cascade regulation\u2014an emphasis on neuronal signaling and sensory pathways. While a few terms relate to heart development and immune signaling, the strongest, most consistent theme is neuronal communication and visual/pain processing. ","confidence":"High","size":22,"edges":207,"triangles":1109,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":19},{"id":"GO:0007507","count":17},{"id":"GO:0070374","count":17},{"id":"GO:0071380","count":17},{"id":"GO:0008542","count":17}]},{"hash":"931019844668612222","title":"Dopaminergic Signaling and Sensory Processing","description":"The cluster is dominated by terms related to sensory perception (pain, vision, learning), dopaminergic synaptic transmission, and signaling pathways (ERK/MAPK, prostaglandin response), with notable behavioral responses to cocaine and temperature cues, suggesting a cohesive theme around neural signaling and dopaminergic modulation.","confidence":"Medium","size":22,"edges":110,"triangles":144,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":16},{"id":"GO:0071502","count":13},{"id":"GO:0007507","count":13},{"id":"GO:0070374","count":13},{"id":"GO:0001963","count":13}]},{"hash":"1946509822408935599","title":"mRNA Splicing and Processing Regulation","description":"The cluster is dominated by GO terms about regulation of mRNA splicing via the spliceosome (positive/negative regulation, alternative splicing), along with related mRNA processing steps (stability, modification, polyadenylation) and stress-responsive regulation, pointing to a cohesive RNA maturation/regulation function.","confidence":"High","size":22,"edges":145,"triangles":354,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":16},{"id":"GO:0048025","count":15},{"id":"GO:0006378","count":15},{"id":"GO:0045292","count":13},{"id":"GO:0031047","count":13}]},{"hash":"1544008934837069986","title":"Tyrosine Kinase Signaling Cluster","description":"The cluster is dominated by peptidyl-tyrosine autophosphorylation, a hallmark of protein tyrosine kinases, and includes terms pointing to broader phosphorylation-driven signaling networks (PI3K signaling, osmosensory pathways, endothelial cell migration) alongside cell-cycle and immune-related processes, suggesting a cohesive group of proteins involved in phosphorylation-based signal transduction and related regulatory pathways rather than a single specialized pathway. ","confidence":"Medium","size":22,"edges":144,"triangles":414,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038083","count":22},{"id":"GO:2000251","count":22},{"id":"GO:0060044","count":22},{"id":"GO:0014068","count":22},{"id":"GO:0001806","count":22}]},{"hash":"2109537147680318399","title":"Neural development and axon guidance with myelination","description":"The top GO terms point to neural wiring processes: axonal fasciculation, corpus callosum development, synapse assembly, Roundabout signaling, and ERK pathway regulation, all tied to neuronal connectivity and growth. Additional terms on collagen fibril organization and myelination further support roles in neural development and myelin formation.","confidence":"High","size":22,"edges":35,"triangles":6,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0014068","count":11},{"id":"GO:0007413","count":11},{"id":"GO:0022038","count":11},{"id":"GO:0045087","count":11},{"id":"GO:0051965","count":11}]},{"hash":"779747378673126123","title":"Stress-Responsive RNA Processing","description":"Top GO terms cluster around post-transcriptional regulation under stress, including regulation of mRNA stability in response to stress, mRNA splicing, and cellular response to glucocorticoid stimulus. The other terms are more diverse (differentiation, brain development, carotene biosynthesis) and may reflect broad annotation or pleiotropy, but the strongest shared theme is stress-related RNA processing.","confidence":"Medium","size":22,"edges":223,"triangles":1394,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":6},{"id":"GO:0045292","count":4},{"id":"GO:0006378","count":4},{"id":"GO:0030216","count":3},{"id":"GO:0071385","count":3}]},{"hash":"409094707560590189","title":"Metabolic signaling in neural and gonadal differentiation","description":"This cluster weaves together energy metabolism (TCA cycle, catabolic processes) with neurotransmitter biosynthesis (GABA, dopamine) and developmental signals (Notch pathway, Leydig cell differentiation, luteinization), suggesting a theme of metabolic processes intertwined with neural and gonadal differentiation.","confidence":"Medium","size":22,"edges":188,"triangles":850,"max_degree":21,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0006099","count":5},{"id":"GO:0007219","count":5},{"id":"GO:0042853","count":5},{"id":"GO:0097053","count":5},{"id":"GO:0046684","count":5}]},{"hash":"1993900711319113294","title":"Developmental cell adhesion and morphogenesis","description":"These proteins cluster around cell adhesion events (cell-matrix and cell-cell adhesion) and developmental morphogenesis, including endocardial cushion formation, somitogenesis regulation, and bone trabecula formation. The prominent GO terms point to extracellular matrix\u2013mediated adhesion driving cell movement and tissue patterning during development, with related signaling context (TGF-beta/Wnt) historically linked to these processes. Confidence: High","confidence":"","size":22,"edges":11,"triangles":1,"max_degree":4,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0007160","count":22},{"id":"GO:0007157","count":21},{"id":"GO:0003273","count":20},{"id":"GO:0035583","count":20},{"id":"GO:0044332","count":20}]},{"hash":"1097788019647008414","title":"Inflammation and vascular development","description":"This cluster is driven by GO terms pointing to inflammatory signaling (neutrophil extravasation, TNF response) and angiogenic/vascular processes (VEGF production and response to VEGF), with additional links to tissue development (heart, liver) and cell adhesion. The combination suggests proteins co-participating in inflammatory-vascular development contexts and possibly tissue remodeling, rather than a single, narrowly defined pathway. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:2000391","count":5},{"id":"GO:0000187","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0007155","count":4},{"id":"GO:0071356","count":4}]},{"hash":"1114822279867093819","title":"Multitissue Development and Differentiation Regulation","description":"This cluster is enriched for GO terms related to development and morphogenesis across multiple tissues (mesenchyme, cardiac atrium, floor plate, pulmonary valve) and several negative regulation of differentiation in diverse lineages (astrocytes, osteoblasts, inner ear cells, stomach neuroendocrine cells). The common theme is regulatory control of tissue development and differentiation across contexts, rather than a single specific pathway.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:2001038","count":18},{"id":"GO:0048712","count":18},{"id":"GO:0045668","count":17},{"id":"GO:0060485","count":17},{"id":"GO:0003210","count":17}]},{"hash":"882134438627710189","title":"Metabolic Catabolism and Signaling Regulation","description":"The prominent catabolic GO terms (cellulose, triglyceride/diacylglycerol, 3-phenylpropionate) point to metabolic breakdown activity, while regulation of endocannabinoid signaling and receptor recycling indicates modulation of signaling pathways. The presence of detoxification and proliferation regulation terms suggests broader cellular control functions, but the core theme centers on metabolism and signaling regulation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030245","count":7},{"id":"GO:0019433","count":7},{"id":"GO:0042136","count":6},{"id":"GO:0046340","count":6},{"id":"GO:2000124","count":6}]},{"hash":"1340621081631137544","title":"mRNA processing and splicing regulation","description":"The cluster is dominated by GO terms tied to post-transcriptional RNA processing: polyadenylation, mRNA stability regulation under stress, spliceosome-mediated and alternative splicing, mRNA export, and RNA modification, pointing to a cohesive role in RNA maturation and regulation.","confidence":"High","size":22,"edges":44,"triangles":2,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":17},{"id":"GO:0010610","count":17},{"id":"GO:0031047","count":16},{"id":"GO:0000381","count":15},{"id":"GO:1905663","count":15}]},{"hash":"1079172618779791673","title":"Developmental Transcription and Cell Cycle Regulation","description":"This cluster centers on transcriptional control (DNA-templated transcription, both positive and negative regulation) and cell cycle transitions (G1/S, mitotic re-entry), with tissue-specific differentiation terms such as Leydig cell, mammary alveolus, and multi-ciliated epithelium, indicating broader developmental regulatory programs.","confidence":"High","size":22,"edges":133,"triangles":337,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000082","count":16},{"id":"GO:0033327","count":15},{"id":"GO:0060749","count":15},{"id":"GO:0006351","count":15},{"id":"GO:0010673","count":14}]},{"hash":"1465432589190591111","title":"Unknown","description":"The top GO terms cover a wide range of unrelated processes (GTPase signaling, serotonin/PLC pathways, muscle contraction, gut development, immune cell movement and differentiation, secretion, and urine regulation), with no single unifying function linking most proteins. The lack of cohesive theme and the absence of edges support the conclusion that these proteins do not form a clearly interpretable, shared function cluster. ","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":14},{"id":"GO:0008542","count":14},{"id":"GO:0001697","count":13},{"id":"GO:0007208","count":13},{"id":"GO:0055117","count":13}]},{"hash":"1201440346918892110","title":"Endosomal vesicle transport","description":"These proteins are linked primarily by intracellular vesicle trafficking and endosomal pathways (endosome to lysosome transport; intracellular transport; regulation of vesicle exocytosis). The additional terms touching morphogenesis and signaling likely reflect broader roles of trafficking components in cell shape, division, and intercellular signaling, rather than a single unified function. Overall, the cluster centers on endosomal/vesicle transport activities with related regulatory influences.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0010796","count":3},{"id":"GO:0003382","count":2},{"id":"GO:2000300","count":2}]},{"hash":"395603594358135768","title":"GPCR-G protein signaling in smooth muscle and blood pressure","description":"Many top GO terms cluster around GPCR signaling and G protein regulation (adenylate cyclase activation, GTPase activity, Rho signaling) and their physiological outcomes such as blood pressure regulation and intestinal smooth muscle contraction. Additional terms like histamine-induced gastric acid secretion and eosinophil chemotaxis reinforce GPCR-mediated processes, supporting a cohesive theme of GPCR-driven signaling in vascular/smooth muscle contexts, despite one terminal connection to electron transport that appears less central.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":15},{"id":"GO:0010579","count":15},{"id":"GO:0035025","count":15},{"id":"GO:0022900","count":15},{"id":"GO:0007190","count":14}]},{"hash":"1797462004510806816","title":"ER stress\u2013linked protein quality control via ubiquitination and autophagy","description":"The cluster shows a clear focus on proteostasis under stress, highlighting ubiquitin-related processes (protein autoubiquitination, sumoylation), autophagy pathways (aggrephagy, autophagosome maturation), and ER stress\u2013driven responses (intrinsic apoptotic signaling). Translation changes under stress and cadmium exposure further support a coordinated proteostasis program balancing protein synthesis, degradation, and stress signaling. This combination of ubiquitin and autophagy\u2013related quality control mechanisms under stress justifies the label.","confidence":"High","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0010216","count":7},{"id":"GO:0030433","count":7},{"id":"GO:1901097","count":7},{"id":"GO:0051865","count":7},{"id":"GO:1902260","count":5}]},{"hash":"1581891795219449993","title":"Chromatin regulation and cell cycle control","description":"The cluster\u2019s top GO terms are dominated by mitotic cell cycle, DNA-templated transcription, and histone modification (with ubiquitin-dependent degradation), pointing to nuclear processes that regulate chromatin state and transcription during cell division. Although a few terms touch on transport or development, the strongest signal lies in chromatin regulation and cell cycle control, supporting this label.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0006511","count":4},{"id":"GO:0080182","count":3},{"id":"GO:0042063","count":3}]},{"hash":"1274391719642342826","title":"Telomere maintenance and spindle assembly regulators","description":"The cluster is dominated by terms tied to telomere maintenance (telomerase regulation, telomere length regulation, localization to telomeres) and chromosome/nuclear organization (spindle assembly, localization to chromosome telomeric regions). ADP-ribosylation terms (PARP-related) further support a DNA repair/telomere maintenance role. While signaling terms like Wnt and ephrin are present, the core theme centers on telomere maintenance and chromosome segregation-related processes.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0051225","count":12},{"id":"GO:0070198","count":12},{"id":"GO:0032212","count":12},{"id":"GO:1900383","count":12},{"id":"GO:0016055","count":12}]},{"hash":"1529369826182239842","title":"Vesicle trafficking and calcium signaling regulation","description":"This cluster includes GO terms centering on intracellular transport and signaling, notably negative regulation of SNARE complex assembly (vesicle fusion) and release of sequestered calcium into the cytosol, along with regulation of GTPase activity. While some terms touch on cell cycle and development, the recurring theme is regulators of vesicle trafficking and calcium-dependent signaling, suggesting a cohesive role in intracellular transport and signaling control.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035544","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0008584","count":4},{"id":"GO:0051209","count":4}]},{"hash":"286120420733232998","title":"Ribosome Biogenesis and Translation Initiation","description":"The dominant terms point to ribosome biogenesis and translation initiation (rRNA maturation, preinitiation complex formation, translation reinitiation). While there are a few development-related terms, the core signal is components of the protein synthesis machinery.","confidence":"High","size":22,"edges":3,"triangles":0,"max_degree":2,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":7},{"id":"GO:0000462","count":7},{"id":"GO:0002188","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0043547","count":6}]},{"hash":"2214791752356840054","title":"Autophagy-innate antiviral defense","description":"Based on the Top Terms, the majority of the cluster centers on autophagy (GO:0006914), innate immune response (GO:0045087), and defense response to virus (GO:0051607), suggesting proteins that participate in autophagy-mediated antiviral defense. Additional terms like ubiquitin-dependent ERAD pathway and microtubule localization reflect related cellular quality control and trafficking processes that support autophagic/immune functions. Some cardiac-related terms appear less central, likely due to pleiotropy or annotation noise.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0006914","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0051607","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0003151","count":4}]},{"hash":"16291851638287433","title":"Adaptive immune signaling and ubiquitin regulation","description":"This cluster is dominated by adaptive immune-related GO terms: B cell receptor signaling, germinal center formation, memory T cell differentiation regulation, and dendritic cell differentiation, indicating immune activation and differentiation. Alongside these, ubiquitin-related processes (ubiquitin-dependent protein catabolic process, K33-linked ubiquitination, and regulation of ubiquitination) suggest coordinated protein turnover or signaling control. A few terms like distal tubule morphogenesis are less aligned, but the prevailing theme couples immune signaling with ubiquitin-mediated regulation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0050853","count":9},{"id":"GO:0051260","count":9},{"id":"GO:0002467","count":8},{"id":"GO:0043380","count":8}]},{"hash":"1923262243337798454","title":"Developmental transcription and DNA damage response","description":"The cluster centers on transcriptional regulation (DNA-templated transcription, RNA Pol II\u2013mediated transcription, positive regulation of transcription) and cell fate decisions (mitotic cell cycle, apoptosis, development-related terms like forebrain development and trophoblast differentiation, angiogenesis). DNA damage signaling (p53 pathway) ties to stress responses during development. An outlier term (glucosinolate metabolism) suggests cross-species annotation noise, but the dominant theme is transcription control coupled with DNA damage response in developmental contexts.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060707","count":5},{"id":"GO:0030330","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0045944","count":4},{"id":"GO:0000278","count":4}]},{"hash":"1017493662685508779","title":"Liver Coagulation and Glucose Response","description":"The GO terms cluster around blood coagulation and fibrinolysis, plus insulin processing and cellular responses to glucose, with liver regeneration as a connected process, suggesting a hepatic role linking coagulation with glucose metabolism; post-translational modifications (deglutamylation) appear ancillary but present in this protein set.","confidence":"High","size":22,"edges":22,"triangles":8,"max_degree":12,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0030070","count":5},{"id":"GO:0007596","count":5},{"id":"GO:0043087","count":4},{"id":"GO:0035609","count":4},{"id":"GO:0071333","count":4}]},{"hash":"1530597845051282905","title":"Chromatin modification and mitotic cell cycle regulation","description":"This cluster is dominated by GO terms related to histone modification (acetylation/methylation) and positive regulation of the mitotic cell cycle, pointing to a chromatin remodeling and cell division module. While there are additional signals (GTPase regulation, development, hypoxia) that are peripheral, the core signal is chromatin modification coupled with cell cycle control.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0043981","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0031954","count":2},{"id":"GO:0043966","count":2}]},{"hash":"436051549194680438","title":"Cardiac metabolism and heart development","description":"The cluster shows strong signals for heart biology, with GO terms for heart development and cardiac muscle cell differentiation (GO:0007507, GO:0055007). It also aggregates metabolic biosynthetic and catabolic processes (glycogen biosynthesis GO:0005978; fatty-acyl-CoA biosynthetic GO:0046949; long-chain fatty acid catabolic GO:0042758; steroid biosynthetic GO:0006694), suggesting a set of proteins involved in cardiac energy metabolism alongside development. Some terms are noted as obsolete, which may reflect annotation drift, but the overall pattern points to heart-related metabolic and developmental functions. Confidence: Medium","confidence":"","size":22,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0061732","count":2},{"id":"GO:0018896","count":2},{"id":"GO:0006694","count":2},{"id":"GO:0007507","count":2}]},{"hash":"1582200707787646819","title":"Mitochondrial transport and energy regulation","description":"The cluster is dominated by transport-related GO terms focused on mitochondria, including mitochondrial ATP transmembrane transport and regulation of mitochondrial membrane permeability, plus adaptive thermogenesis. Additional transport terms for glycine, ornithine, thiosulfate, and heme support a broader membrane transport theme with a strong mitochondrial emphasis, suggesting proteins that mediate energy-related transport and homeostasis.","confidence":"High","size":22,"edges":14,"triangles":0,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0036233","count":14},{"id":"GO:0090152","count":14},{"id":"GO:0000066","count":14},{"id":"GO:0060546","count":14},{"id":"GO:0061179","count":14}]},{"hash":"2019848912585951349","title":"Developmental Morphogenesis Across Tissues","description":"The cluster\u2019s GO terms cluster around tissue development and morphogenesis across multiple lineages (lens, cartilage, lung mesenchyme, blood vessel morphogenesis, angiogenesis) and are accompanied by signaling activity (MAPK/ERK, GTPase regulation, NFAT). This suggests a common theme of embryonic tissue formation and development rather than a single metabolic or transport function. Potassium transport is less central but does not override the broader morphogenesis signal.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006813","count":2},{"id":"GO:0070309","count":2},{"id":"GO:0051534","count":2},{"id":"GO:0000187","count":2},{"id":"GO:0070374","count":2}]},{"hash":"563749891106979489","title":"Vesicle trafficking and actin remodeling","description":"The top GO terms converge on vesicle transport (endocytosis, exocytosis, intracellular transport) and cytoskeletal dynamics (filopodium assembly, membrane tubulation, Rho signaling), suggesting proteins that coordinate membrane trafficking with actin remodeling. Although heart development appears among terms, the dominant pattern indicates a module centered on vesicle trafficking and cytoskeletal changes.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0051044","count":3},{"id":"GO:0097320","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0035023","count":3}]},{"hash":"1544002438275151016","title":"Developmental Regulation and Morphogenesis","description":"The GO terms cluster around diverse developmental and morphogenetic processes across tissues (face morphogenesis, uterine and pancreatic development, metanephric mesenchyme proliferation, endothelial migration) and include regulation of major signaling pathways (MAPK/ERK, insulin signaling). This points to a broad theme of developmental regulation and tissue morphogenesis rather than a single pathway, justifying a developmental/morphogenetic label.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043536","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0045648","count":2},{"id":"GO:0060325","count":2},{"id":"GO:0046627","count":2}]},{"hash":"1422452176992971825","title":"Regulatory Signaling and Cell Cycle Modulators","description":"This cluster shows enrichment for terms related to regulation of signaling pathways (notably NF-kappaB signaling, GPCR-associated signaling, calcium sensing, and guanylate cyclase activity) and cell cycle processes (mitosis, cytokinesis) as well as kinase-related phosphorylation and broader cellular responses (e.g., xenobiotic response, neurotransmitter secretion). The common thread appears to be proteins that modulate signaling and cell cycle dynamics rather than structural components, hence a label focusing on regulatory signaling and cell cycle modulation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043123","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0032465","count":4},{"id":"GO:0010800","count":4},{"id":"GO:0098735","count":3}]},{"hash":"810515635438904286","title":"Innate Immune Signaling and NF-kB Regulation","description":"The top terms cluster around innate immune response, defense against bacteria, and negative regulation of NF-kappaB activity, indicating a core immune signaling role for this protein set. Some neural/vision-related terms appear but are secondary to the dominant immune theme.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0000187","count":2},{"id":"GO:0019226","count":2},{"id":"GO:0040014","count":2}]},{"hash":"1707685442201033389","title":"Dopaminergic signaling and xenobiotic stress response","description":"This cluster centers on terms related to dopamine secretion, membrane potential regulation, and signaling (cAMP) with notable responses to xenobiotic stimuli and ethanol, plus redox/oxygen metabolism. Together this points to a neuronal, dopaminergic signaling module that modulates neurotransmitter release under chemical stress and metabolic changes.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":3},{"id":"GO:0007568","count":3},{"id":"GO:0043200","count":3},{"id":"GO:0033603","count":3},{"id":"GO:0070233","count":2}]},{"hash":"1777619080372409436","title":"Tyrosine kinase signaling and cytoskeletal remodeling","description":"This cluster centers on GO terms for tyrosine phosphorylation (peptidyl-tyrosine autophosphorylation; positive regulation of peptidyl-tyrosine phosphorylation), with links to growth factor signaling (PDGF stimulus) and cytoskeletal/adhesion dynamics (podosome assembly, substrate adhesion-dependent spreading). While some terms touch on development and hormone signaling (estrogen receptor pathway, parathyroid gland development) the common thread appears to be signaling cascades driven by tyrosine phosphorylation that regulate cell adhesion, migration, and actin remodeling. Therefore, a label emphasizing tyrosine kinase signaling and its impact on the cytoskeleton is representative.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006348","count":7},{"id":"GO:0038083","count":7},{"id":"GO:0060017","count":7},{"id":"GO:0036120","count":7},{"id":"GO:0060444","count":7}]},{"hash":"1690969700067656211","title":"Growth-factor signaling and morphogenesis","description":"Top terms cluster around responses to growth factors (PDGF, TGF-beta, retinoic acid) and processes driving morphogenesis and cytoskeletal remodeling, including mammary gland duct branching, actin polymerization, and cell migration. This suggests a cohesive theme of growth-factor signaling guiding morphogenesis and cell movement across contexts.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060444","count":4},{"id":"GO:0007050","count":3},{"id":"GO:0036120","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0002408","count":3}]},{"hash":"2161618324533469960","title":"Innate Immune Defense and Complement Activation","description":"The set is enriched for defense-related terms against bacteria, including Gram-positive defense and LPS response, along with classical complement activation and blood coagulation. These strongest signals point to innate immune and complement/coagulation processes, despite some more general or developmental terms present as noise. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0006958","count":11},{"id":"GO:0050830","count":11},{"id":"GO:0044130","count":11},{"id":"GO:0007596","count":11}]},{"hash":"1651324195597128697","title":"Auditory sensory signaling and ion transport","description":"The set is enriched for terms about detection and perception of sound, plus neuronal excitability evidenced by membrane depolarization and potassium/sodium ion transport, and excitatory postsynaptic potential. This combination points to auditory signal transduction and neural signaling as the core function. Immune-related terms appear but do not define the cluster's main theme.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050910","count":6},{"id":"GO:0007605","count":5},{"id":"GO:0042742","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0007275","count":4}]},{"hash":"229683961574290596","title":"Cytoskeleton Dynamics and Vesicle Formation","description":"The cluster\u2019s GO terms cluster around cytoskeletal remodeling and membrane trafficking: podosome assembly, cleavage furrow formation, and regulation of microvillus assembly point to changes in cell shape and division, while intralumenal vesicle formation, dense core granule maturation, and phosphatidic acid biosynthesis relate to vesicle trafficking and membrane dynamics. The eye and cranial skeletal development terms suggest broader developmental roles where these cytoskeletal/membrane processes contribute to tissue morphogenesis. Overall, the proteins seem linked by roles in cell shape changes and membrane trafficking rather than a single linear pathway.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071800","count":2},{"id":"GO:0001654","count":2},{"id":"GO:1904888","count":2},{"id":"GO:0032534","count":2},{"id":"GO:0036089","count":2}]},{"hash":"1509593526556289927","title":"Energy Metabolism and Catabolic Pathways","description":"The cluster's top GO terms are dominated by energy-related metabolic processes: canonical glycolysis, gluconeogenesis, and amino acid catabolic process, indicating a focus on carbohydrate and amino acid breakdown for energy. The negative regulation of hypoxia-induced intrinsic apoptotic signaling pathway suggests a metabolic stress response linking energy status to cell survival. Some terms like phylloquinone biosynthetic process, cell wall organization, and skeletal muscle tissue regeneration are peripheral or cross-species, but overall the theme centers on metabolic pathways and energy management.","confidence":"Medium","size":21,"edges":45,"triangles":45,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:1903298","count":5},{"id":"GO:0061621","count":5},{"id":"GO:0009405","count":5},{"id":"GO:0043403","count":5},{"id":"GO:0006094","count":5}]},{"hash":"1472084010632604136","title":"Secretory and motility regulation with Ca2+ signaling","description":"The cluster\u2019s top GO terms center on secretion (saliva, gastric acid), smooth and cardiac muscle contraction, and calcium signaling (release of sequestered Ca2+, PLC/serotonin signaling), suggesting a shared theme of secretory and contractile regulation across tissues, with calcium as a key mediator. Immune-related terms appear as broader tissue roles but do not override the main theme.","confidence":"Medium","size":21,"edges":170,"triangles":718,"max_degree":20,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0046541","count":13},{"id":"GO:0001697","count":12},{"id":"GO:0007208","count":12},{"id":"GO:0055117","count":12},{"id":"GO:0007497","count":12}]},{"hash":"2187482111826148948","title":"Dopaminergic Neural Signaling and Sensory Perception","description":"This cluster is enriched for neural-related GO terms: visual perception, visual learning, and dopaminergic synaptic transmission, with associated behavioral responses to cocaine. The presence of ERK cascade regulation supports a neural signaling theme, particularly involving dopamine pathways and sensory processing. Some terms (heart development, dsRNA response) are less connected, but the dominant signal points to neural signaling and sensory perception.","confidence":"Medium","size":21,"edges":205,"triangles":1238,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043330","count":13},{"id":"GO:0071333","count":13},{"id":"GO:0007507","count":10},{"id":"GO:0070374","count":10},{"id":"GO:0071380","count":10}]},{"hash":"1476681684057964668","title":"Neural RNA processing and translational regulation","description":"This cluster is dominated by RNA processing and translation-related functions (translation, mRNA processing, pre-miRNA processing, post-transcriptional gene silencing by regulatory ncRNA). The neural context is hinted by terms like facial nerve morphogenesis and motor neuron apoptotic process, suggesting these RNA regulatory processes operate in neural development. Some antiviral-related terms (response to virus, negative regulation of viral genome replication) may reflect RNA-based defense mechanisms that couple to post-transcriptional regulation. Overall, the label Neural RNA processing and translational regulation captures the core function while acknowledging neural-specific roles.","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0009636","count":8},{"id":"GO:0045071","count":8},{"id":"GO:0008285","count":7},{"id":"GO:0006397","count":7}]},{"hash":"987820220650946048","title":"mRNA splicing and processing regulation","description":"The cluster is strongly enriched for RNA processing functions, especially mRNA splicing via the spliceosome (cis and alternative), plus regulation of mRNA stability, export, and modification, indicating a coherent group centered on mRNA maturation and control.","confidence":"High","size":21,"edges":162,"triangles":645,"max_degree":19,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":13},{"id":"GO:0045292","count":12},{"id":"GO:0031047","count":11},{"id":"GO:0048026","count":11},{"id":"GO:0010610","count":10}]},{"hash":"2119639315943242471","title":"TGF-\u03b2/BMP-SMAD signaling regulation","description":"Most terms cluster around regulation of TGF-\u03b2 receptor signaling and BMP signaling, including negative regulation, cellular response to TGF-\u03b2, SMAD-related assembly/dephosphorylation, and related pathway modulation. While a few terms touch on broader development contexts (meristem identity) or other processes, the dominant theme is modulation of TGF-\u03b2/BMP/SMAD signaling. ","confidence":"High","size":21,"edges":197,"triangles":1115,"max_degree":20,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0030512","count":19},{"id":"GO:0071560","count":12},{"id":"GO:0000173","count":11},{"id":"GO:0061191","count":11},{"id":"GO:0010991","count":11}]},{"hash":"591745440901834513","title":"RNA processing and translation initiation regulation","description":"The cluster centers on post-transcriptional RNA handling and control of gene expression at the RNA level: spliceosome-mediated splicing, mRNA export, and regulation of translation initiation and mRNA stability, with hints of ncRNA-mediated silencing. These overlapping GO terms point to a cohesive functional theme of RNA maturation and translational control, including stress-responsive regulation.","confidence":"High","size":21,"edges":119,"triangles":276,"max_degree":19,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":11},{"id":"GO:0048026","count":10},{"id":"GO:0006378","count":9},{"id":"GO:0006406","count":7},{"id":"GO:0045292","count":7}]},{"hash":"1813701198019195970","title":"Neurodevelopment and Neuronal Signaling","description":"The top GO terms cluster around neural development and neuron-specific functions: multicellular organism development, neural tube closure, dendrite morphogenesis, sensory perception of pain, and potassium ion transport, all together pointing to neural development and neuronal signaling rather than general cellular processes.","confidence":"High","size":21,"edges":68,"triangles":86,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":20},{"id":"GO:0006351","count":19},{"id":"GO:0019233","count":18},{"id":"GO:0006813","count":17},{"id":"GO:0043552","count":17}]},{"hash":"1745870447061250996","title":"DNA Replication and Repair","description":"The cluster is enriched for GO terms centered on DNA replication and repair, including DNA replication, nucleotide-excision repair, and UV protection, which together point to genome maintenance and DNA damage response. Development-related terms (embryonic organ development, hair cell differentiation) and nonsense-mediated decay appear as less central associations, possibly reflecting broader cellular contexts, but the dominant signal is DNA maintenance. ","confidence":"High","size":21,"edges":98,"triangles":222,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0000184","count":6},{"id":"GO:0032508","count":6},{"id":"GO:0048568","count":5},{"id":"GO:0000717","count":5}]},{"hash":"210465766878371128","title":"Nuclear transport and cell cycle regulation","description":"The top GO terms cluster around nucleus-related processes: protein import into the nucleus, mRNA transport, nuclear pore complex assembly, mitotic nuclear membrane reassembly, and female meiotic nuclear division, along with regulation of meiotic cell cycle and kinase/phosphatase activities. These together point to a Theme of nuclear transport dynamics and cell cycle control, with some signaling regulation embedded. ","confidence":"High","size":21,"edges":30,"triangles":15,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000060","count":10},{"id":"GO:0001938","count":10},{"id":"GO:1903538","count":9},{"id":"GO:0070262","count":9},{"id":"GO:0007084","count":9}]},{"hash":"1197691815308900778","title":"Developmental signaling and cell motility","description":"This cluster centers on signaling pathways and processes that drive development and cell movement, with terms spanning cell migration, B cell receptor signaling, Wnt pathway regulation, nervous system and skeletal muscle development, and cytoskeletal/pseudopodium remodeling (plus apoptosis and proliferation control). The common thread is signaling-mediated development and motility rather than a single tissue-specific function, justifying a label that emphasizes developmental signaling coupled to cell movement.","confidence":"Medium","size":21,"edges":20,"triangles":0,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0090090","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0043065","count":3}]},{"hash":"912033020005845346","title":"Neuroimmune cytokine signaling and secretory pathways","description":"This cluster centers on cytokine production and inflammatory defense (IL-1\u03b2, IL-18, inflammatory cytokine production) and includes Golgi/ER organization, implying involvement in secretory machinery. The presence of glial differentiation and neuromuscular junction assembly terms suggests neural context, linking neuro-immune signaling with secretory pathways. Thus, the label captures the core themes of inflammatory cytokine signaling within a secretory/neural framework.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0051260","count":16},{"id":"GO:0042832","count":10},{"id":"GO:0007030","count":10},{"id":"GO:0050702","count":9},{"id":"GO:0045687","count":9}]},{"hash":"162834554760649107","title":"tRNA charging and translation (mitochondrial and cytosolic)","description":"This cluster is dominated by GO terms linking tRNA aminoacylation for several tRNAs (alanyl, prolyl, seryl) and core translation activities in both mitochondria and the cytosol, plus related aspects like translational fidelity and selenocysteine biosynthesis. The cohesive theme across these terms points to a shared function in protein synthesis machinery, spanning compartments. ","confidence":"High","size":21,"edges":108,"triangles":306,"max_degree":16,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0016260","count":5},{"id":"GO:0070158","count":5},{"id":"GO:1903833","count":5},{"id":"GO:0006450","count":5},{"id":"GO:0097056","count":5}]},{"hash":"326317286829522201","title":"Inflammatory Signaling and Neutrophil Activation","description":"This cluster centers on innate immune and inflammatory signaling: complement activation (lectin pathway), NF-kappaB signaling, neutrophil chemotaxis, and platelet activation with vasoconstriction, indicating leukocyte\u2013platelet crosstalk during inflammation. Ras/Rho pathway regulation reflects shared signaling for cell movement and activation, while acrosome reaction and apoptotic regulation suggest broader exocytosis and cell-survival control that accompany immune responses. Overall, a cohesive theme of inflammatory signaling and neutrophil/platelet coordination.","confidence":"High","size":21,"edges":5,"triangles":1,"max_degree":3,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0001867","count":6},{"id":"GO:0043123","count":6},{"id":"GO:0046580","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0010572","count":5}]},{"hash":"1707488852889255098","title":"Developmental transcriptional repression in mesenchymal and cardiac lineages","description":"The top GO terms emphasize transcription by RNA polymerase II and negative regulation of differentiation, spanning mesenchyme development, cardiac atrium formation, and heart-related morphogenesis (along with related neural/developmental terms). This pattern points to a cluster of transcriptional regulators that modulate developmental differentiation programs, particularly in mesenchymal and cardiac lineages, rather than enzymatic or metabolic functions.","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":19},{"id":"GO:2000820","count":15},{"id":"GO:0045668","count":14},{"id":"GO:0060485","count":14},{"id":"GO:0003210","count":14}]},{"hash":"1375042133029107776","title":"Meiotic germ cell development","description":"This cluster is driven by strong signals for germ cell formation and meiosis, including spermatogenesis, spermatid development, oogenesis, ovarian follicle development, synaptonemal complex assembly, and telomere maintenance via recombination, plus germ cell fate determination. Together these terms point to meiotic gametogenesis as the central theme, with some ancillary stress-response terms that may reflect germ cell-specific DNA damage responses. ","confidence":"High","size":21,"edges":100,"triangles":225,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":6},{"id":"GO:0007283","count":5},{"id":"GO:0042493","count":4},{"id":"GO:0090267","count":4},{"id":"GO:0007130","count":4}]},{"hash":"1392795494605561367","title":"Metabolic Pathways: biosynthesis and catabolism","description":"This cluster shows a mix of biosynthetic processes (biotin, menaquinone, poly-hydroxybutyrate, strigolactone) and catabolic processes (uracil, 3-phenylpropionate, phosphatidylserine), plus other metabolism-related terms like rRNA base methylation. The common thread is broad metabolism involving both synthesis and breakdown of diverse compounds, rather than a single, cohesive pathway. ","confidence":"Medium","size":21,"edges":187,"triangles":953,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0009102","count":3},{"id":"GO:0042619","count":3},{"id":"GO:0070475","count":2},{"id":"GO:0009234","count":2}]},{"hash":"190708401370693656","title":"Metabolic Biosynthesis and Stress Response","description":"This cluster shows multiple biosynthetic processes (amino acid, glycogen, steroid) along with regulatory and stress-related terms (phosphorylation, transcription, response to antibiotic and starvation). The common theme is core metabolism and its regulation under stress, rather than a single specific pathway, justifying a label that combines biosynthesis with stress-responsive regulation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009088","count":7},{"id":"GO:0055114","count":6},{"id":"GO:0046677","count":5},{"id":"GO:0016310","count":5},{"id":"GO:0042594","count":5}]},{"hash":"1552475698565301639","title":"Oxidative Stress Response and Redox Homeostasis","description":"The cluster is dominated by GO terms for cellular oxidant detoxification, redox homeostasis, and oxidative stress response, suggesting a cohesive redox-focused function. Peripheral terms like cation stress response and oxidation-reduction process support this theme, while other terms such as RNA polymerase II regulatory region DNA binding, deoxyribonucleotide biosynthesis, methylamine metabolism, and endothelial cell migration may reflect secondary or pleiotropic roles rather than defining the core function.","confidence":"High","size":21,"edges":123,"triangles":520,"max_degree":18,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0098869","count":7},{"id":"GO:0045454","count":7},{"id":"GO:0043535","count":6},{"id":"GO:0030416","count":5},{"id":"GO:1903026","count":4}]},{"hash":"1135607146861976709","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0006284","count":3},{"id":"GO:0006289","count":3},{"id":"GO:1903704","count":3},{"id":"GO:0006915","count":2}]},{"hash":"2202212451708996360","title":"Cross-tissue embryonic development and morphogenesis","description":"The terms point to embryonic development and organogenesis across several tissues (brain regions, pancreas, cranial skeleton, kidney branching, PNS) and include a general regulatory process, suggesting a cluster of proteins involved in developmental patterning and tissue morphogenesis rather than a single tissue function.","confidence":"High","size":21,"edges":46,"triangles":9,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0030901","count":10},{"id":"GO:2000288","count":9},{"id":"GO:0048701","count":9},{"id":"GO:0031016","count":9}]},{"hash":"1448044065781627491","title":"Endosome-Golgi-Melanosome Transport","description":"The top terms center on vesicle trafficking between the Golgi and endosomes and transport from endosomes to melanosomes, indicating a core vesicle trafficking module. Additional terms related to immune signaling and mitosis may reflect pleiotropy or annotation overlap, but the dominant theme is intracellular transport within the endomembrane system.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035646","count":4},{"id":"GO:0006895","count":4},{"id":"GO:0031321","count":4},{"id":"GO:0043524","count":4},{"id":"GO:0050885","count":4}]},{"hash":"2036732713650070920","title":"Neurodevelopment and organogenesis","description":"This cluster is dominated by neural signaling terms: axonogenesis, long-term synaptic potentiation, excitatory postsynaptic potential, and cellular responses to calcium ions, pointing to neurodevelopmental roles. At the same time, several GO terms indicate broader organogenesis in heart, pituitary (adenohypophysis morphogenesis), kidney development, and connective tissue remodeling, suggesting a broader developmental program across tissues. The combination points to genes involved in developmental signaling with a strong emphasis on neural development and synaptic function, with some cross-tissue morphogenesis associations. ","confidence":"Medium","size":21,"edges":159,"triangles":725,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0009738","count":21},{"id":"GO:0007409","count":21},{"id":"GO:0060291","count":21},{"id":"GO:0048855","count":21},{"id":"GO:0072221","count":21}]},{"hash":"1249297479537853013","title":"Organogenesis Regulators","description":"Terms heavily emphasize development across multiple tissues (midbrain, cartilage, pituitary, gonads, uterus, inner ear, pharyngeal system) and a notable enrichment for negative regulation of transcription by RNA polymerase II, suggesting these proteins act as transcriptional regulators orchestrating organogenesis across tissues.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0030901","count":9},{"id":"GO:0051216","count":7},{"id":"GO:0021983","count":7},{"id":"GO:0007338","count":7}]},{"hash":"2116654361924972726","title":"Developmental signaling and hypoxia response","description":"The terms are dominated by developmental processes (multicellular organism development, neural tube closure, skin development) while also highlighting signaling regulation (GTPase activity, kinase activity, autophosphorylation) and a cellular hypoxia response, suggesting a cluster of proteins involved in developmental signaling with some stress/adaptation regulation. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071456","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0031954","count":4}]},{"hash":"1581616157830331960","title":"Membrane Transporters","description":"The strongest signal in this cluster is multiple transmembrane transport terms (L-aspartate, bicarbonate, chloride, oxalate, fructose transport), suggesting a group of membrane transporter proteins. Other terms like sperm capacitation, gastric acid secretion, and sporulation appear as outliers or context-specific annotations, but the core theme ties to transporting ions or metabolites across membranes.","confidence":"Medium","size":21,"edges":4,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":4},{"id":"GO:0048240","count":4},{"id":"GO:0089712","count":3},{"id":"GO:0015701","count":3},{"id":"GO:0001696","count":3}]},{"hash":"258745257470550616","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"The highest-frequency GO terms center on actin cytoskeleton dynamics\u2014actin filament bundle assembly, podosome assembly\u2014along with cell migration and polarity establishment. Signaling terms (B cell receptor signaling, tyrosine autophosphorylation, Ras regulation) likely modulate these cytoskeletal processes. Collectively, the cluster seems to represent proteins involved in actin remodeling and adhesion-driven cell movement, especially in immune and epithelial contexts.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0016477","count":5},{"id":"GO:0051017","count":5},{"id":"GO:0090162","count":5},{"id":"GO:0071800","count":4}]},{"hash":"355063249800742082","title":"Immune Response and ER Stress Signaling","description":"The cluster\u2019s top GO terms are dominated by immune-related processes (interleukin-4 response, type II interferon production, natural killer cell cytotoxicity) and cellular stress pathways (PERK-mediated unfolded protein response), with additional associations to development and remodeling (wound healing, osteoclast differentiation, morphogenesis). This suggests a core theme of immune signaling intertwined with ER stress responses, rather than a single, narrow function. ","confidence":"Medium","size":21,"edges":201,"triangles":1165,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":10},{"id":"GO:0071353","count":9},{"id":"GO:0043923","count":9},{"id":"GO:0036499","count":8},{"id":"GO:0035470","count":8}]},{"hash":"1766981090844882936","title":"Innate immunity and tissue development","description":"This cluster centers on innate immune signaling (innate immune response, NF-kappaB-related activity, T cell costimulation, host cell entry) and also includes several development and tissue-remodeling terms (multicellular organism development, ossification, uterus development, muscle contraction, cell adhesion), suggesting proteins that participate in immune signaling that interfaces with tissue development and remodeling.","confidence":"Medium","size":21,"edges":58,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0006936","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0051092","count":3}]},{"hash":"1517363884857278770","title":"Cell differentiation across tissues","description":"The top GO term is cell differentiation, and the cluster includes processes across several tissues (keratinocytes, retina) as well as neural-related differentiation (axon diameter regulation, Schwann cell proliferation, vocalization behavior). This suggests a unifying theme of differentiation programs active in multiple tissues, despite the lack of direct interactions in this dataset. Therefore, a label focusing on tissue-spanning differentiation best captures the shared function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0030154","count":3},{"id":"GO:0071625","count":3},{"id":"GO:0072201","count":2},{"id":"GO:0031133","count":2},{"id":"GO:0043616","count":2}]},{"hash":"854822750631837720","title":"Activated T Cells and Nucleotide Biosynthesis","description":"The top GO terms indicate T cell activation (positive regulation of T cell proliferation; T cell costimulation) and a cellular response to virus, alongside metabolic processes for nucleotide biosynthesis and DNA precursor maintenance (TMP biosynthetic process, deoxyribonucleoside and monophosphate biosynthesis) and mitochondrial electron transport. This combination suggests a cohesive theme where activated T cells upregulate energy production and nucleotide biosynthesis to support proliferation and antiviral responses.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042102","count":2},{"id":"GO:0031295","count":2},{"id":"GO:0098586","count":2},{"id":"GO:0006120","count":1},{"id":"GO:0016310","count":1}]},{"hash":"991697103157214047","title":"Rho GTPase\u2013driven cytoskeleton remodeling and migration","description":"The proteins are enriched in Rho signaling and actin dynamics (lamellipodium assembly, actin crosslinking), linked to cell migration and polarity. Additional terms point to vesicle trafficking (Golgi to plasma membrane transport) that supports membrane delivery during polarized movement, together indicating a cohesive role in cytoskeletal remodeling and directed cell movement.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0043001","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0070830","count":2}]},{"hash":"1107564297029235234","title":"Actin dynamics and vesicle trafficking in motile cells","description":"The cluster is dominated by actin cytoskeleton terms (nucleation, polymerization, severing) indicating remodeling of F-actin. Coupled with vesicular transport and secretion terms (ER-to-Golgi transport, phagocytic vesicle processing, ECM constituent secretion) this points to coordination between actin dynamics and vesicle trafficking to drive cell movement and secretion, with some organismal motility terms like locomotion behavior reinforcing the motility theme.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0016239","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0008344","count":2},{"id":"GO:0051127","count":2}]},{"hash":"1361680832195154031","title":"Unknown","description":"The GO terms are diverse (Wnt signaling, Golgi-to-plasma membrane transport, telomere maintenance regulation, ADP-ribosylation, spindle assembly, smooth muscle development), with no single cohesive process emerging, suggesting heterogeneous roles or annotation noise; thus no specific, representative cluster name can be assigned.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":3},{"id":"GO:0043001","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0032212","count":2},{"id":"GO:1904357","count":2}]},{"hash":"1687073662005878814","title":"Ubiquitin-Dependent Innate Immune Signaling","description":"The cluster is dominated by GO terms related to ubiquitination and ubiquitin-dependent protein degradation (protein ubiquitination, ubiquitin-dependent proteolysis, ERAD pathway) alongside innate immune defense terms (innate immune response, defense response to virus, TNF-mediated signaling). This points to a cohesive set of proteins that regulate immune signaling through ubiquitin tagging and proteasomal turnover, with additional links to immune receptor dynamics (V(D)J recombination). The label captures the common functional theme without overextending beyond the core ubiquitin-immune axis.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0051607","count":9},{"id":"GO:0030433","count":8},{"id":"GO:0016567","count":8}]},{"hash":"657405357520850178","title":"Unknown","description":"The GO terms are diverse, with chromatin-related processes (nucleosome assembly, transcription regulation) alongside development (pancreas morphogenesis, multicellular growth), metabolism (glucose stimulus), and immune/coagulation pathways (LPS response, IL-8 regulation, leukocyte tethering, fibrinolysis). The lack of a single cohesive function and no observed protein-protein edges make it unclear to assign a specific label beyond Unknown.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0061113","count":6},{"id":"GO:0035264","count":6},{"id":"GO:0006334","count":4},{"id":"GO:0032496","count":4}]},{"hash":"1094144043998039088","title":"Embryonic Development and Tissue Morphogenesis","description":"This cluster centers on developmental processes across multiple lineages, including left-right patterning, EMT-related heart development, cartilage and cranial skeleton morphogenesis, endocrine system and pancreatic cell development, placental differentiation, and related proteolytic remodeling. The presence of regulatory terms (negative regulation of transcription) alongside morphogenetic processes supports a cohesive theme of embryonic tissue differentiation and morphogenesis.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0003323","count":6},{"id":"GO:0003198","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0060707","count":5}]},{"hash":"1559735222628614602","title":"Gametogenesis and fertilization","description":"The most represented GO terms center on spermatid development, spermatogenesis, oogenesis, fertilization, and male meiotic nuclear division, which collectively map to germ cell development and fertilization processes. A few terms related to immune signaling or ncRNA silencing appear, but they are less frequent and do not define the cluster\u2019s main function. Therefore, the cluster likely groups proteins involved in gamete formation and fertilization.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":3},{"id":"GO:0048477","count":3},{"id":"GO:0008630","count":2},{"id":"GO:0050718","count":2},{"id":"GO:0007283","count":2}]},{"hash":"1789430520358083684","title":"Ubiquitin-Dependent Proteolysis and Cell Cycle Regulation","description":"The cluster is dominated by ubiquitin-related processes: ubiquitin-dependent protein catabolic process, protein polyubiquitination, ERAD-related pathway, autoubiquitination, suggesting a proteostasis and ubiquitin-signaling theme. Additional terms point to regulation of transcription, apoptosis, and cell cycle, aligning with roles in protein turnover and cell-cycle control. Some terms (third ventricle development, response to vitamin D) appear less connected and may reflect broader GO annotations. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0000209","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0021678","count":4},{"id":"GO:0033280","count":4}]},{"hash":"193061765352457433","title":"Ubiquitin-mediated regulation of apoptosis and cell cycle","description":"Dominant GO terms center on ubiquitination and ubiquitin-dependent protein turnover, including K6-linked ubiquitination. Several terms relate to regulation of apoptosis (and necroptosis) and hints of cell-cycle control (G1/S transition). The presence of immune and vitamin D response terms likely reflects broader regulatory roles of ubiquitination in signaling. Therefore, the cluster represents ubiquitin-mediated regulation of apoptosis and cell cycle.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0016567","count":10},{"id":"GO:0042787","count":9},{"id":"GO:0033280","count":8},{"id":"GO:0000083","count":7},{"id":"GO:0043029","count":7}]},{"hash":"265772126062866728","title":"Coagulation and Fibrinolysis with ECM Remodeling","description":"The top GO terms are heavily centered on blood coagulation, fibrinolysis, plasminogen activation, and proteolysis, with additional signals for acute-phase inflammation and extracellular matrix secretion/remodeling, indicating a cohesive cluster focused on clot formation/dissolution and ECM remodeling during wound healing.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":6},{"id":"GO:0042730","count":6},{"id":"GO:0014068","count":4},{"id":"GO:0045766","count":4},{"id":"GO:0051918","count":4}]},{"hash":"1623845225860370044","title":"Embryonic development and tissue morphogenesis","description":"These GO terms point to developmental processes across multiple tissues (endocardial cushion EMT, trophoblast differentiation, placental development regulation, cartilage and hair follicle morphogenesis, pancreatic cell development, left-right patterning, mesoderm and endocrine system development). The common theme is embryonic development and morphogenesis rather than a single tissue or receptor pathway, with a few regulatory terms supporting transcriptional control during development. Confidence: High","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":19},{"id":"GO:0060707","count":19},{"id":"GO:0060806","count":19},{"id":"GO:0060536","count":19},{"id":"GO:0003323","count":19}]},{"hash":"1054141347431339627","title":"Ubiquitin-regulated immune signaling","description":"The top terms center on immune-related pathways (B cell receptor signaling, germinal center formation, dendritic cell differentiation) and ubiquitination processes (ubiquitin-dependent protein catabolic process, negative regulation of protein ubiquitination, K33-linked ubiquitination). This suggests a cluster focused on how ubiquitination modulates immune signaling and immune cell development, with some additional tissue-specific terms (kidney, muscle) reflecting broader roles. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0042787","count":4},{"id":"GO:2001200","count":3},{"id":"GO:0002467","count":3},{"id":"GO:0031397","count":3}]},{"hash":"1273831337678540294","title":"Embryonic development and organogenesis","description":"The proteins are annotated with GO terms centered on embryonic development and tissue morphogenesis\u2014craniofacial (roof of mouth), mesoderm formation, left-right patterning, cartilage morphogenesis, and endocrine system development\u2014indicating a cohesive role in early development and organ/tissue formation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0035270","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0003323","count":4},{"id":"GO:0003198","count":4}]},{"hash":"1388923877276871244","title":"Metal Ion Transport and Homeostasis","description":"The strongest signals are copper and cadmium ion transport and intracellular calcium ion homeostasis, indicating a core theme around metal ion handling and calcium balance. Other GO terms (serine biosynthesis, LPS biosynthesis, epoxygenase P450 pathway, testosterone response, phospholipid dephosphorylation) are more peripheral, possibly reflecting ancillary metabolic or regulatory connections. Overall, the cluster seems best described by metal ion transport/homeostasis with supportive metabolic context.","confidence":"Medium","size":20,"edges":173,"triangles":868,"max_degree":19,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0097755","count":5},{"id":"GO:0006874","count":5},{"id":"GO:0006564","count":5},{"id":"GO:0033574","count":5},{"id":"GO:0070574","count":5}]},{"hash":"1489252171505162907","title":"Thermogenesis and Cardiovascular GPCR Signaling","description":"Most terms point to G protein-coupled receptor signaling that activates adenylate cyclase and phospholipase C, coupled with temperature-responsive processes and metabolic energy production. The terms also include regulation of blood pressure, cardiac muscle contraction, and neurotransmitter-related pathways (histamine/serotonin signaling), linking thermogenic/metabolic signals to cardiovascular function. The inclusion of the electron transport chain hints at energy supply supporting these processes, suggesting a cluster focused on GPCR-driven metabolic and cardiovascular regulation in response to temperature.","confidence":"Medium","size":20,"edges":20,"triangles":1,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":14},{"id":"GO:0010579","count":14},{"id":"GO:0022900","count":14},{"id":"GO:0007190","count":14},{"id":"GO:0045777","count":14}]},{"hash":"683854093182448836","title":"GPCR Signaling with cAMP and PLC Pathways","description":"The cluster shows strong enrichment for adenylate cyclase-activating GPCR signaling, activation of adenylate cyclase, and PLC-activating receptor pathways (serotonin, histamine), which together point to core GPCR-mediated second-messenger signaling (cAMP and IP3/DAG) that regulates cardiovascular, immune, and gastric functions. Additional terms like retina development and posterior midgut development, and electron transport chain, appear among top terms, which may reflect annotation breadth rather than a shift in primary function. Overall, the dominant theme is GPCR-driven signaling and downstream second-messenger cascades.","confidence":"Medium","size":20,"edges":42,"triangles":12,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":17},{"id":"GO:0022900","count":17},{"id":"GO:0007190","count":17},{"id":"GO:0045777","count":17},{"id":"GO:0060041","count":17}]},{"hash":"2242095276417540944","title":"Ribosome Biogenesis and Translational Initiation","description":"This cluster centers on ribosome assembly and the control of translation initiation, with terms for ribosome biogenesis, preinitiation complex formation, translation reinitiation, and even IRES-driven viral initiation, along with links to cell proliferation and morphogenesis. The shared functions point to a coherent module of protein synthesis machinery connected to cell growth.","confidence":"High","size":20,"edges":170,"triangles":838,"max_degree":19,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0006446","count":4},{"id":"GO:0042254","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0002188","count":3}]},{"hash":"1607680152563533314","title":"Unknown","description":"The terms span very disparate functions (protein translation, antibiotic response, ubiquinone biosynthesis, sporulation, organism development, androgen metabolism, and propylene catabolic processes) with no clear shared pathway or theme. This suggests the cluster does not reflect a cohesive biological function, but rather a mix of unrelated processes or noise.","confidence":"","size":20,"edges":66,"triangles":71,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0043046","count":3},{"id":"GO:0006744","count":3}]},{"hash":"2127410950158054690","title":"Neural signaling and cardiovascular regulation","description":"This cluster themes around nervous system signaling (visual and pain perception, dopaminergic synaptic transmission, GPCR signaling including ERK cascades) with concurrent links to cardiovascular regulation (blood pressure, heart development) and related stimuli (temperature, prostaglandin response). The shared emphasis is on neural communication intertwined with cardiovascular control.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":13},{"id":"GO:0007601","count":13},{"id":"GO:0019233","count":13},{"id":"GO:0071502","count":12},{"id":"GO:0007507","count":12}]},{"hash":"1589899196688096566","title":"Cross-system Signal Transduction","description":"This cluster is characterized by signals affecting immune, neural, and cardiovascular processes\u2014T cell receptor signaling, interferon production, epinephrine response, phototransduction, and cardiac/vascular regulation. The shared theme is general signal transduction across disparate systems, rather than a single pathway. Therefore, Cross-system Signal Transduction is a concise, representative label.","confidence":"Medium","size":20,"edges":26,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0019933","count":10},{"id":"GO:0071560","count":10},{"id":"GO:0050852","count":10},{"id":"GO:0043117","count":9},{"id":"GO:0071872","count":9}]},{"hash":"1030682844370108591","title":"Signal transduction and cytoskeletal regulation in stress responses","description":"The cluster includes multiple signaling-related terms (peptidyl-tyrosine autophosphorylation, PI3K signaling), cytoskeletal dynamics (actin cytoskeleton reorganization), and movement-related processes (endothelial cell migration), plus stress-response elements (osmotic sensing via Sho1, trehalose catabolism). Together these suggest a theme of kinase-driven signaling coordinating cytoskeletal changes and adaptive responses, though some terms are obsolete or heterogeneous, indicating annotation noise.","confidence":"Medium","size":20,"edges":89,"triangles":148,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038083","count":20},{"id":"GO:2000251","count":20},{"id":"GO:0060044","count":20},{"id":"GO:0014068","count":20},{"id":"GO:0001806","count":20}]},{"hash":"1607670495130495493","title":"Neuro-Muscular Development and Synaptic Function","description":"The protein set is enriched for developing processes across neural (axonogenesis, synaptic potentiation, excitatory signaling), muscular (myoblast fusion, muscle activity response), and broader organismal development (heart, visual perception, multicellular development). This suggests a cohesive theme of developmental regulation spanning neural and muscular systems, with associated synaptic activity, hence the label Neuro-Muscular Development and Synaptic Function.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007409","count":14},{"id":"GO:0007601","count":13},{"id":"GO:0007507","count":12},{"id":"GO:0007275","count":12},{"id":"GO:0014850","count":12}]},{"hash":"1412855331674232853","title":"Protein acetylation and chromatin regulation","description":"The top GO terms show multiple acetylation-related processes (peptidyl-lysine N6-acetylation, N-terminal acetylation, N-terminal propionylation, putrescine acetylation) alongside chromatin-related functions (subtelomeric heterochromatin formation, mitotic sister chromatid cohesion). This suggests a common theme of post-translational modifications, particularly acetylation, linked to chromatin structure and gene regulation. Some metabolic biosynthesis terms appear but do not outweigh the acetylation/chromatin signal. ","confidence":"Medium","size":20,"edges":32,"triangles":18,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":8},{"id":"GO:0006348","count":8},{"id":"GO:0018003","count":8},{"id":"GO:0071962","count":7},{"id":"GO:0010125","count":7}]},{"hash":"344330921796499927","title":"Unknown","description":"The GO terms are highly heterogeneous, including striatum development, photosynthesis, plant hormone signaling, and several protein quality-control and stress-response annotations. The presence of obsolete terms and the lack of cohesive, organism-specific function, plus zero edges, suggests no single clear function binding the cluster.  ","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0021756","count":8},{"id":"GO:0031400","count":6},{"id":"GO:0016576","count":6},{"id":"GO:1903070","count":6},{"id":"GO:0070389","count":6}]},{"hash":"1265921801306714822","title":"General Metabolic Processes","description":"GO terms indicate a broad mix of catabolic and biosynthetic activities across diverse metabolites, plus a general stress response, suggesting a broad metabolic role rather than a single specific pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0019433","count":7},{"id":"GO:0019380","count":6},{"id":"GO:0097755","count":6},{"id":"GO:0006212","count":6}]},{"hash":"861314455850906431","title":"MAPK/ERK Regulation and Cell Cycle Control","description":"This cluster is dominated by negative regulation of the ERK1/ERK2 cascade and peptidyl-tyrosine dephosphorylation, pointing to phosphatase-mediated control of MAPK signaling. Additional terms touch on immune signaling regulation, focal adhesion and vascular permeability, and mitotic processes such as cytokinesis checkpoints and chromatid biorientation, suggesting a cohesive theme of signaling modulation with consequences for cell division and development.","confidence":"High","size":20,"edges":179,"triangles":966,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0000200","count":17},{"id":"GO:0070373","count":17},{"id":"GO:0050860","count":17},{"id":"GO:0035335","count":15},{"id":"GO:0044878","count":12}]},{"hash":"521211036963723936","title":"Bacterial Carbohydrate Metabolism","description":"Several top GO terms point to sugar processing: D-gluconate metabolic process, D-xylose metabolic process, L-fucose catabolic process, glycerol catabolic process, glycerol-3-phosphate biosynthetic process, and carbohydrate phosphorylation. DNA replication appears as a secondary, broader cellular process, while quorum sensing and interleukin-13 response are less directly tied, possibly reflecting annotation breadth. Overall, the dominant theme is carbohydrate metabolism with some housekeeping signals.","confidence":"Medium","size":20,"edges":9,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0070389","count":7},{"id":"GO:0046835","count":7},{"id":"GO:0019521","count":5},{"id":"GO:0046167","count":5}]},{"hash":"1210156383876890361","title":"Multisystem Organ Development and Neural Signaling","description":"This cluster includes GO terms for heart/muscle development, kidney tubule formation, and insulin secretion, along with neuronal processes such as axonogenesis, presynaptic calcium regulation, and memory. The common theme is developmental signaling affecting multiple organ systems and neural communication, rather than a single precise function.","confidence":"Medium","size":20,"edges":4,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0086004","count":8},{"id":"GO:0007409","count":7},{"id":"GO:0072221","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0035774","count":7}]},{"hash":"2283714000440290886","title":"Vesicle trafficking and protein turnover","description":"The GO terms point to intracellular transport (endocytic recycling, intracellular protein transport, neurotransmitter receptor trafficking), aided by cytoskeletal organization and GTPase regulation, plus regulated proteolysis (proteasomal activity) and ATP-dependent processes. The presence of antigen processing hints at links between trafficking and degradation pathways. Overall, the cluster reflects coordinated protein movement and turnover inside cells, especially vesicle trafficking and proteasome-mediated regulation. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0032456","count":3},{"id":"GO:0098887","count":3},{"id":"GO:0030950","count":3},{"id":"GO:0019884","count":2}]},{"hash":"674964629771607170","title":"Developmental signaling regulators (ERK/Wnt/Hedgehog)","description":"The proteins are enriched for positive regulation of several major signaling pathways (ERK cascade, canonical Wnt, and Smoothened/Hedgehog) and for developmental processes (nervous system and kidney development). This points to a cluster of regulators coordinating signaling events during organogenesis and neural development. Some terms are older annotations, and a few relate to broader cellular responses, but the main pattern centers on developmental signaling control.","confidence":"Medium","size":20,"edges":54,"triangles":16,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0001822","count":5},{"id":"GO:0033138","count":4},{"id":"GO:0090263","count":4}]},{"hash":"1999561397754025531","title":"Developmental transcriptional regulation","description":"Based on the prominent GO terms for both positive and negative regulation of transcription by RNA polymerase II, coupled with multiple morphogenesis and organ development terms (midbrain, hindlimb, pancreas, outflow tract, pituitary gland, multicellular growth), the cluster likely represents proteins that regulate gene expression during development and organogenesis. Immune-response terms are present but appear incidental to the main developmental regulation theme. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0030901","count":8},{"id":"GO:0045944","count":7},{"id":"GO:0035116","count":6},{"id":"GO:0061113","count":6}]},{"hash":"1967223486494105463","title":"Neuronal Ion Channel\u2013Mediated Signaling","description":"The cluster is dominated by terms for calcium, sodium, and potassium ion transport, membrane depolarization, and synaptic signaling (GABAergic and dopaminergic), plus related behavioral responses, suggesting a cohesive theme of neuronal excitability and neurotransmission modulated by ion channels, with a nod to circadian regulation.","confidence":"High","size":20,"edges":122,"triangles":364,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0098703","count":13},{"id":"GO:0045188","count":12},{"id":"GO:0001964","count":12},{"id":"GO:0060079","count":12},{"id":"GO:0051899","count":12}]},{"hash":"1300897579396048881","title":"Antigen Presentation and Humoral Immunity","description":"The cluster is enriched for immune-related GO terms: MHC class I\u2013mediated antigen presentation, B cell receptor signaling, phagocytosis, complement activation, and innate immunity, indicating coordinated antigen processing with humoral activation. A skeletal development term may be annotation noise but does not override the dominant immune signal.","confidence":"High","size":20,"edges":12,"triangles":3,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001501","count":10},{"id":"GO:0042590","count":10},{"id":"GO:0001798","count":10},{"id":"GO:0001805","count":10},{"id":"GO:0050853","count":10}]},{"hash":"474964927404473950","title":"Cell Cycle\u2013Linked Transcriptional Regulation","description":"The top GO terms point to transcriptional regulation by RNA polymerase II combined with key cell cycle events (G1/S transition, mitotic re-entry, CDK activity, spindle separation), suggesting a cluster of proteins that coordinate transcription with cell cycle progression, with a few lineage/differentiation terms as context. This makes a cohesive, specific label: Transcriptional control tied to cell cycle dynamics.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0045737","count":13},{"id":"GO:0000082","count":13},{"id":"GO:0010673","count":12},{"id":"GO:0000320","count":12}]},{"hash":"2199076226040218013","title":"Neural development and sensory signaling","description":"This cluster is dominated by terms tied to nervous system development and sensory function: dendrite development, ionotropic glutamate receptor signaling, and neuromuscular processes controlling balance, plus labyrinthine layer morphogenesis suggesting inner-ear development. While other terms touch on extracellular matrix and calcium/homeostasis, the central pattern points to neural differentiation and sensory signaling roles. Confidence: Medium","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0060670","count":5},{"id":"GO:0006970","count":4},{"id":"GO:0045794","count":4},{"id":"GO:0035235","count":3},{"id":"GO:0016358","count":3}]},{"hash":"148426191815236670","title":"RNA Pol II Transcription Machinery","description":"The top terms are dominated by RNA Polymerase II\u2013related processes (preinitiation complex assembly, elongation, and antitermination) and mRNA export, indicating a core transcription machinery module. The presence of innate immune and antiviral defense terms suggests potential co-regulation or shared stress-response roles, but the primary signal is transcriptional machinery.","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045663","count":3},{"id":"GO:0051123","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0031564","count":3}]},{"hash":"1117385939015740852","title":"ER Stress and Protein Quality Control","description":"The cluster is enriched for terms related to proteostasis in the ER such as ubiquitin-dependent ERAD, unfolded protein response, chaperone-dependent refolding, and regulation of protein export from the nucleus, suggesting a common theme of managing misfolded proteins and maintaining proteostasis. While there are also terms tied to development and signaling (DNA replication, mesoderm formation, and hedgehog-related pathways), these appear less central to the cluster\u2019s core function. ","confidence":"Medium","size":20,"edges":54,"triangles":83,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":8},{"id":"GO:0006260","count":7},{"id":"GO:0001707","count":7},{"id":"GO:1901621","count":7},{"id":"GO:0071374","count":7}]},{"hash":"2097159766455371459","title":"Embryonic development and differentiation","description":"The top GO terms point to various embryonic development and tissue differentiation processes (heart cushion EMT, cartilage morphogenesis, pancreatic cell development, trophoblast and placenta-related differentiation, left-right patterning, and endocrine system development). While a couple of terms (splicing, ERAD) are ancillary, the dominant pattern is embryogenesis and lineage specification, indicating the cluster likely represents proteins involved in developmental programs.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":7},{"id":"GO:0060536","count":7},{"id":"GO:0003323","count":7},{"id":"GO:0060707","count":7},{"id":"GO:0060806","count":7}]},{"hash":"239883984564419048","title":"Neuronal signaling and receptor trafficking","description":"This cluster centers on neuronal signaling and receptor trafficking: STAT tyrosine phosphorylation regulation and Rho GTPase signaling point to intracellular signaling, while ER-Golgi transport and neurotransmitter receptor trafficking to the postsynaptic membrane reflect membrane trafficking underpinning synaptic function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042517","count":3},{"id":"GO:0042511","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0098887","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1918595424238521025","title":"Embryonic Development and Morphogenesis","description":"The proteins are annotated with multiple embryonic development and morphogenesis terms\u2014palate formation, heart cushion EMT, cartilage morphogenesis, mesoderm development, left-right patterning, and endocrine system development\u2014pointing to a shared role in early organismal development and tissue patterning rather than a single pathway. The cluster thus represents embryonic development/morphogenesis.","confidence":"High","size":20,"edges":5,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":17},{"id":"GO:0003198","count":15},{"id":"GO:0060536","count":15},{"id":"GO:0003323","count":15},{"id":"GO:0060707","count":15}]},{"hash":"1322538351417482014","title":"DNA Transcription Regulation and Cell Cycle","description":"The top GO terms cluster around transcriptional control (regulation of DNA-templated transcription, DNA-templated transcription) and cell cycle processes (chromosome segregation, cell size). Although there are additional diverse terms (protein folding, metabolism, stress responses), the dominant theme points to nuclear gene expression regulation and chromosome dynamics rather than a single cytosolic pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0006457","count":5},{"id":"GO:0071276","count":4},{"id":"GO:0007059","count":4}]},{"hash":"1253167848900952981","title":"Complement Activation and Endothelial Barrier Regulation","description":"This cluster shows enrichment for complement activation terms (classical and lectin pathways) alongside positive regulation of endothelial barrier establishment, suggesting a theme of immune/complement activity tied to vascular permeability and endothelial function. Other terms point to inflammatory signaling and proliferative regulation, reinforcing a broader immune-vascular regulatory context.  ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":6},{"id":"GO:1903142","count":6},{"id":"GO:0001867","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0014068","count":5}]},{"hash":"116337916648916567","title":"Signaling and Cytoskeletal Remodeling","description":"This cluster centers on regulation of signaling pathways (GTPase/Ras, tyrosine phosphorylation, estrogen signaling) and cytoskeletal/adhesion processes (podosome assembly, dendritic spine maintenance), with some related developmental and metabolic terms. The combination suggests proteins that coordinate signal transduction with actin remodeling and cell adhesion.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0071800","count":3},{"id":"GO:1902951","count":3},{"id":"GO:0033146","count":3}]},{"hash":"1919412729308820317","title":"Neural and Sensory Development with Synapse Assembly","description":"Proteins in this cluster are enriched for nervous system development and synapse formation, with terms like nervous system development and synapse assembly dominating. They also relate to sensory organs, including retina homeostasis and inner ear development, plus sensory perception of sound, suggesting roles in auditory and visual system formation. The presence of cell\u2013cell adhesion terms supports neural connection establishment, though some bone and kidney development terms appear as broader organogenesis signals; the core theme is neural and sensory development and synapse assembly.","confidence":"High","size":20,"edges":14,"triangles":0,"max_degree":5,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007399","count":14},{"id":"GO:0043931","count":14},{"id":"GO:0007156","count":13},{"id":"GO:0007157","count":13},{"id":"GO:0051965","count":11}]},{"hash":"765754517889906180","title":"Drug-Response and Sensory Processing","description":"The cluster shows enrichment for neural and sensory-related terms: responses to morphine and amphetamine, regulation of sensory perception of pain, prepulse inhibition, and modulation of glutamatergic synaptic transmission, plus visual learning. These point to neural signaling and sensory processing as the core theme. A couple of non-neuronal terms (immune response and cell wall catabolic processes) appear, which may be noise or broad annotations, but do not outweigh the dominant neural/signaling pattern.","confidence":"Medium","size":20,"edges":19,"triangles":0,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0043278","count":3},{"id":"GO:0009253","count":3},{"id":"GO:0006955","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0060134","count":3}]},{"hash":"2167630791720033537","title":"Ubiquitin-Dependent Immune Defense","description":"The cluster is dominated by GO terms tying ubiquitin-related processes to immune responses, including ubiquitin-dependent protein catabolic process, innate immune response, and defense against virus, plus TNF signaling and ubiquitination functions. The presence of V(D)J recombination further supports a link to adaptive immunity alongside ubiquitin-mediated regulation. Overall, the shared theme is ubiquitin-driven modulation of immune defense, despite zero edges among members. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0045087","count":10},{"id":"GO:0051607","count":9},{"id":"GO:0085020","count":7},{"id":"GO:0033151","count":7}]},{"hash":"1388591604036164217","title":"Epigenetic Transcriptional Regulation","description":"Top GO terms emphasize histone modifications (acetylation/methylation) and transcriptional regulation, suggesting these proteins cluster around chromatin-based control of gene expression. Some terms like heart development and insulin signaling are broader, but the dominant theme is epigenetic regulation of transcription.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006349","count":4},{"id":"GO:0043981","count":3},{"id":"GO:0061087","count":3},{"id":"GO:0043966","count":3},{"id":"GO:0043982","count":3}]},{"hash":"781691858217070035","title":"Immune cell signaling and migration","description":"The cluster is dominated by terms related to immune signaling (neutrophil chemotaxis, B cell receptor signaling) and cytoskeletal dynamics for movement (lamellipodium assembly, small GTPase and Rho signaling, cell-matrix adhesion regulation), which together point to immune cell communication and migration; ancillary terms like thymus development and retinoic acid response fit within immune development and regulation, while bone development is a broader developmental context but not contradictory. Overall, the theme centers on immune signaling and cell movement.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030593","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0007264","count":4}]},{"hash":"2212421016973790768","title":"Mitochondrial translation and ETC assembly","description":"Dominant mitochondrial signature: multiple terms for mitochondrial translation, import into the matrix, membrane insertion, and assembly of the respiratory chain (notably Complex IV), plus cristae formation. Potassium ion homeostasis also fits mitochondrial function. Some apoptosis-related terms likely reflect mitochondrial signaling to cell death. Overall, label focuses on mitochondrial gene expression and electron transport chain assembly.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0030150","count":2},{"id":"GO:0033617","count":2},{"id":"GO:0042407","count":2},{"id":"GO:0030007","count":2}]},{"hash":"10008328200489700","title":"Neurovascular Development Signaling","description":"This cluster\u2019s top GO terms center on both vascular development (angiogenesis; branching involved in blood vessel morphogenesis) and neural differentiation/development (oligodendrocyte differentiation; substantia nigra development), coupled with signaling cascades (ERK/MAPK activation, AKT activation) and GTPase regulation. The combination suggests coordinated signaling that links neural maturation with vascular growth, i.e., a neurovascular development program rather than a single tissue-specific process.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0048709","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0060501","count":4},{"id":"GO:0070374","count":4}]},{"hash":"1806534781578269980","title":"Neural development and neuronal migration","description":"The top GO terms cluster around central nervous system development, radial glia\u2013guided migration of Purkinje cells, and Rho signaling regulation, suggesting a theme of neural development and cytoskeletal control of neuron movement. Some terms (chromatin modification, DNA repair, meiosis) appear unrelated, indicating noise in the cluster; overall, neural development is the most representative motif.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":3},{"id":"GO:0007417","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0021942","count":2}]},{"hash":"412570472326610669","title":"Nerve signaling and paranodal junctions","description":"Based on GO terms, the proteins are enriched for neural communication (transmission of nerve impulse; ionotropic glutamate receptor signaling; clustering of voltage-gated sodium channels) and the assembly/maintenance of paranodal junctions and cell adhesion at neural interfaces. While several growth factor receptor signaling terms appear, they likely reflect broader signaling cross-talk rather than a distinct non-neural process. The combination of synaptic transmission components and paranodal junctions best defines this cluster.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019226","count":8},{"id":"GO:2001046","count":6},{"id":"GO:0030913","count":5},{"id":"GO:0007157","count":5},{"id":"GO:0035235","count":5}]},{"hash":"199712079757595812","title":"Rho/Rac signaling and actin remodeling","description":"The cluster is dominated by GO terms involving small GTPase signaling (Rac, Rho), lamellipodium assembly, and actin cytoskeleton organization, along with processes like substrate adhesion-dependent cell spreading and broader membrane dynamics. This points to proteins that regulate actin dynamics and membrane protrusions to drive cell shape and movement; other terms like insulin signaling and heart development may reflect broader roles of these proteins 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:0007507","count":3},{"id":"GO:0035020","count":3},{"id":"GO:1903527","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0007264","count":3}]},{"hash":"2250459747817466577","title":"Multicellular development and morphogenesis","description":"The top GO terms cluster around developmental processes across tissues and organs\u2014skeletal system development, CNS development, planar polarity, and multicellular organism development\u2014along with related processes like spindle assembly and germ cell events. Although an innate immune term appears, the dominant theme is organismal development and morphogenesis, so a label reflecting that is appropriate.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051225","count":2},{"id":"GO:0048147","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0043046","count":2},{"id":"GO:0035234","count":2}]},{"hash":"1535752896337151212","title":"Embryonic organogenesis and patterning","description":"The top terms point to embryonic development and organogenesis across several systems (pancreas, heart cushions, cartilage, placenta, patterning, endocrine development). Regulatory terms (mRNA splicing, transcriptional control, insulin signaling) are common in developmental programs, suggesting this cluster represents proteins involved in embryogenesis and organ formation.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":6},{"id":"GO:0003198","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0060707","count":5},{"id":"GO:0060806","count":5}]},{"hash":"1854916459226647888","title":"Multi-tissue Development and Differentiation","description":"The terms point to developmental and differentiation processes across multiple tissues (endothelial angiogenesis, inner ear and pancreatic development, neuron differentiation, cloacal septation, and sympathetic nervous system development), with additional notes on transcriptional and cell cycle regulation, suggesting a broad developmental signature rather than a single pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0002043","count":4},{"id":"GO:0060197","count":4},{"id":"GO:0071372","count":4},{"id":"GO:0007050","count":4}]},{"hash":"1768920346189896315","title":"Neurite outgrowth and neural connectivity","description":"The terms predominantly point to neural development and wiring: axon extension/regeneration, axon fasciculation, synapse assembly, and myelination; with related sensory neuron differentiation and otolith morphogenesis. Some immune/vascular terms appear but do not define the cluster's core function, which is neurite outgrowth and connectivity.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0014068","count":3},{"id":"GO:0042490","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0007413","count":3}]},{"hash":"1594114970708556490","title":"Embryogenesis and Morphogenesis","description":"The terms are centered on broad developmental processes across embryogenesis and tissue morphogenesis, including mesoderm formation, placental development, cartilage and hair follicle morphogenesis, and craniofacial structures such as roof of the mouth, as well as left-right patterning. This suggests proteins involved in general developmental programs rather than a single tissue-specific function, supporting a label of embryogenesis and morphogenesis.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":20},{"id":"GO:0060707","count":20},{"id":"GO:0060806","count":20},{"id":"GO:0060536","count":20},{"id":"GO:0003323","count":20}]},{"hash":"1040734169384775479","title":"Embryonic organogenesis and patterning","description":"The listed GO terms are strongly skewed toward embryonic development across multiple tissues (pancreas, heart/endocardial cushion, cartilage, placenta, palate) and include left-right patterning and endocrine system development, indicating a cluster of proteins involved in embryogenesis and organ formation rather than a single pathway. An additional spliceosome-related term suggests general gene-expression support in development but does not override the overarching theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0003323","count":6},{"id":"GO:0003198","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0060707","count":5},{"id":"GO:0060806","count":5}]},{"hash":"930826996934822903","title":"Unknown","description":"The top terms are too heterogeneous (development across tissues, transcription, senescence, and diverse metabolic processes) to define a single coherent function for the cluster.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0030540","count":3},{"id":"GO:0030857","count":3},{"id":"GO:0021554","count":3},{"id":"GO:0003342","count":3}]},{"hash":"1723294499468110201","title":"Planar cell polarity and morphogenesis","description":"These proteins are enriched for planar cell polarity (PCP)\u2013related processes and development/morphogenesis, including PCP pathway in axon guidance, body hair planar orientation, and lung morphogenesis. The inclusion of adhesion terms (hemidesmosome assembly and heterophilic cell-cell adhesion) alongside PCP signals suggests a coordinated role of polarity and adhesion in tissue organization, supporting the label Planar cell polarity and morphogenesis. ","confidence":"High","size":19,"edges":164,"triangles":863,"max_degree":18,"top_function":"wound healing","top_go_terms":[{"id":"GO:0031581","count":13},{"id":"GO:0034446","count":13},{"id":"GO:0048105","count":12},{"id":"GO:0060488","count":12},{"id":"GO:1904938","count":12}]},{"hash":"1399374039795674466","title":"Calcium-Mediated Signaling and Muscle Contraction","description":"The top GO terms cluster around calcium signaling (release of sequestered calcium into cytosol), PLC/GPCR signaling, and regulation of smooth and cardiac muscle contraction, with related digestive development and immune chemotaxis terms that commonly involve calcium signaling. This points to a cohesive theme of calcium-dependent signal transduction governing muscle activity across tissues, with some immune-context terms present as secondary associations.","confidence":"Medium","size":19,"edges":14,"triangles":0,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":18},{"id":"GO:0007208","count":18},{"id":"GO:0055117","count":18},{"id":"GO:0007497","count":18},{"id":"GO:0048245","count":18}]},{"hash":"2148874978287128633","title":"Developmental Signaling and Cell Growth","description":"Top GO terms show prominent signaling control (positive regulation of GTPase activity, ERK cascade, tyrosine phosphorylation) alongside cell cycle and brain development, suggesting a cluster of signaling-driven growth during development. The ribosome biogenesis and translation initiation terms imply a concurrent upregulation of protein synthesis to support proliferation and maturation.","confidence":"Medium","size":19,"edges":35,"triangles":31,"max_degree":10,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0042254","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0007049","count":5},{"id":"GO:0050731","count":5}]},{"hash":"28229786031343537","title":"Dopaminergic signaling and drug-related behaviors","description":"The cluster features multiple GO terms tied to neural signaling and reward processing: dopaminergic synaptic transmission; visual perception/learning; and responses to cocaine and morphine; plus ERK cascade regulation, a common signaling pathway in neurons. These together indicate a cohesive theme of neural communication and drug-related behavioral responses, despite the presence of a couple immune/heart terms that are less central.","confidence":"High","size":19,"edges":131,"triangles":467,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":14},{"id":"GO:0070374","count":14},{"id":"GO:0071380","count":14},{"id":"GO:0008542","count":14},{"id":"GO:0048148","count":14}]},{"hash":"1914835108347669272","title":"Chromatin acetylation and cohesion","description":"The top GO terms are dominated by acetylation-related processes (various N-terminal and peptidyl-lysine acetylations, propionylation) along with chromatin-related functions (mitotic sister chromatid cohesion, subtelomeric heterochromatin formation), suggesting a focus on acetylation-driven chromatin regulation. Some metabolic biosynthesis terms are present but appear secondary to the acetylation/chromatin theme.","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0071962","count":15},{"id":"GO:0018003","count":15},{"id":"GO:0006348","count":15},{"id":"GO:0010125","count":15},{"id":"GO:0018002","count":15}]},{"hash":"1350406574666491915","title":"Mammary lipid and steroid hormone metabolism","description":"The cluster\u2019s top GO terms converge on mammary gland biology (mammary gland development; maternal process in parturition) and lipid/hormone metabolism (triglyceride and cholesterol metabolism; cortisol and androgen biosynthesis; omega-hydroxylase P450 pathway; retinoic acid biosynthesis). This pattern suggests proteins involved in mammary tissue function during pregnancy/lactation, coordinating lipid processing with steroid/hormone biosynthesis and signaling. The presence of immune-related regulation (negative regulation of macrophage chemotaxis) may reflect immune modulation in mammary tissue as well. Overall, the terms form a cohesive theme around mammary biology linked to lipid and hormone metabolism.","confidence":"High","size":19,"edges":21,"triangles":16,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042904","count":7},{"id":"GO:0070989","count":6},{"id":"GO:0060137","count":6},{"id":"GO:0030879","count":6},{"id":"GO:0006707","count":6}]},{"hash":"143977235719804917","title":"Neuronal development and immune signaling","description":"The top GO terms cluster around neural development (hippocampus development, neurotrophin signaling) and neuronal survival, with accompanying immune/inflammatory cues (lipopolysaccharide response, NF-kappaB regulation, extrinsic apoptotic signaling) and immune cell proliferation regulation, suggesting proteins involved in neural development with immune cross-talk and apoptotic regulation.","confidence":"Medium","size":19,"edges":72,"triangles":95,"max_degree":14,"top_function":"wound healing","top_go_terms":[{"id":"GO:0021766","count":11},{"id":"GO:0051092","count":11},{"id":"GO:0043525","count":10},{"id":"GO:0032496","count":10},{"id":"GO:0097192","count":10}]},{"hash":"87095649488790558","title":"Organogenesis and Transcriptional Regulation","description":"This cluster shows a strong pattern of developmental processes across multiple tissues (eye, pituitary, pancreas, spinal cord), coupled with transcriptional control by RNA polymerase II (including negative regulation). The common theme is genes involved in developmental organogenesis and their transcriptional regulation, rather than a single tissue-specific function. ","confidence":"High","size":19,"edges":170,"triangles":952,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":13},{"id":"GO:0021983","count":8},{"id":"GO:0035470","count":7},{"id":"GO:0060435","count":6},{"id":"GO:0021530","count":6}]},{"hash":"121591757122598621","title":"Meiosis and oogenesis in germline","description":"This cluster is enriched for meiotic and oocyte-development terms, including female meiosis, germarium-derived oocyte fate, ovarian follicle development, and sister chromatid cohesion, pointing to proteins involved in germline meiosis and early oogenesis; a few terms about stress responses may reflect DNA damage signaling associated with meiosis rather than core function.","confidence":"High","size":19,"edges":85,"triangles":169,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0000722","count":5},{"id":"GO:0051260","count":5},{"id":"GO:0001541","count":3},{"id":"GO:0007294","count":3},{"id":"GO:0072711","count":3}]},{"hash":"1804591006808478695","title":"Retinal transcriptional regulators and eye development","description":"This cluster is dominated by transcription-related GO terms (DNA-templated transcription, RNA polymerase II\u2013dependent transcription) and contains retina/eye\u2013specific processes (lens fiber cell differentiation, regulation of rhodopsin gene expression) as well as circadian regulation of gene expression. While some terms touch on broader neural development (anterior commissure morphogenesis), the strongest signals point to transcriptional control in retinal eye development and photoreceptor function, making this label intuitive.","confidence":"High","size":19,"edges":144,"triangles":611,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":11},{"id":"GO:0045872","count":9},{"id":"GO:0006366","count":7},{"id":"GO:0070306","count":7},{"id":"GO:0032922","count":7}]},{"hash":"1807383733376508966","title":"Mitochondrial Protein Import and Complex IV Assembly","description":"The cluster is strongly enriched for mitochondrial-centric processes: import of proteins into the mitochondrial matrix, assembly of the respiratory chain complex IV, and related calcium handling within mitochondria, plus signals of nitrosative stress response and other mitochondrial metabolic activities. These shared themes point to a cohesive mitochondrion-focused module, coordinating protein import with assembly of respiratory components and calcium/metabolic regulation.","confidence":"High","size":19,"edges":169,"triangles":936,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0033617","count":3},{"id":"GO:0030150","count":2},{"id":"GO:0036444","count":2},{"id":"GO:0051561","count":2}]},{"hash":"1365987052545854442","title":"Cardiac development and conduction","description":"This cluster is dominated by heart-related terms: development of cardiac tissue, regulation of atrial and ventricular cell membrane potentials, depolarization/repolarization, and heart-rate regulation via cardiac conduction, indicating a cohesive cardiac development and electrical function theme. Peripheral terms like cortisol biosynthesis and temperature response don\u2019t override the core cardiac signal.","confidence":"High","size":19,"edges":15,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":15},{"id":"GO:0086016","count":14},{"id":"GO:0007275","count":14},{"id":"GO:0060371","count":14},{"id":"GO:0086091","count":14}]},{"hash":"2106637225511714630","title":"Developmental and Immune Signaling","description":"These GO terms point to a network of signaling pathways central to development (hedgehog via Smoothened, ROBO signaling, nervous system and organ development) and immunity (T cell receptor signaling, IL-27 signaling, STAT activation). The presence of apoptotic processes and paranode axon localization suggests roles in cell fate decisions and neural structure formation, implying cross-talk between developmental and immune signaling programs. Overall, the cluster appears to be an interconnected signaling module governing development with immune-related inputs.","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007224","count":9},{"id":"GO:0050852","count":9},{"id":"GO:0007399","count":9},{"id":"GO:0001822","count":9},{"id":"GO:0035385","count":9}]},{"hash":"1982342404579031909","title":"Embryonic craniofacial development and morphogenesis","description":"The top terms center on embryogenesis and craniofacial structuring (cranial skeletal system development, embryonic body morphogenesis, maintenance of organ identity) with supporting roles for chromatin remodeling, nuclear import, and cell cycle regulation, pointing to a developmental program guiding early craniofacial morphogenesis and related lineages.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":17},{"id":"GO:0080034","count":16},{"id":"GO:1904888","count":16},{"id":"GO:0010172","count":16},{"id":"GO:0061198","count":16}]},{"hash":"587815193369690221","title":"Calcium signaling and vesicle trafficking","description":"The top GO terms indicate calcium ion release into the cytosol, regulation of pinocytosis, SNARE complex assembly, and GPCR-related signaling, all pointing to membrane trafficking and calcium-mediated signaling. The presence of additional diverse terms (apoptosis, spindle assembly, differentiation) suggests a loosely connected set rather than a single cohesive pathway, and the network lacks edges, reinforcing a broad, multi-function cluster. Therefore, the label reflects the central theme of signaling coupled to vesicle trafficking.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048549","count":6},{"id":"GO:0007205","count":6},{"id":"GO:0010845","count":4},{"id":"GO:0035544","count":4},{"id":"GO:0051209","count":4}]},{"hash":"522917183525841356","title":"APC/C-Mediated Mitosis and Ubiquitination","description":"This cluster centers on mitotic control and ubiquitin-dependent proteolysis, with terms for the mitotic cell cycle, cell division, APC/C-dependent catabolic processes, and K11-linked ubiquitination. Additional terms touch on signaling and development but are likely secondary. Together, the dominant pattern points to proteins involved in regulating mitosis via ubiquitin tagging for degradation.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0050853","count":4},{"id":"GO:0051260","count":4}]},{"hash":"138188500334710067","title":"Mitochondrial Transport and Energy Regulation","description":"The top GO terms point to membrane transport of various small molecules (glycine, ornithine, thiosulfate, heme, ATP) and regulation of mitochondrial membrane permeability, along with metabolic signaling (insulin secretion in response to glucose, adaptive thermogenesis). This combination supports a coherent role in mitochondrial transport and energy metabolism.","confidence":"High","size":19,"edges":51,"triangles":53,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0036233","count":17},{"id":"GO:0090152","count":17},{"id":"GO:0000066","count":17},{"id":"GO:0060546","count":17},{"id":"GO:0061179","count":17}]},{"hash":"328608313436194692","title":"Immune Activation and Phagocytosis","description":"The cluster centers on immune system functions, with prominent innate immunity, complement activation, B cell receptor signaling, phagocytosis, and T cell proliferation terms. This points to a cohesive theme of immune activation involving both humoral (B cell) and cellular (T cell) responses, with some incidental annotations (like symbiont entry and specific adhesion) that do not undermine the core immune focus.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":8},{"id":"GO:0006958","count":8},{"id":"GO:0050853","count":7},{"id":"GO:0006911","count":7},{"id":"GO:0050871","count":7}]},{"hash":"1164408554540755491","title":"Immune signaling and vascular remodeling","description":"This cluster centers on adaptive immune processes (T cell activation, adaptive immune response) and signaling (ERK/MAPK), with accompanying roles in cell adhesion, extracellular matrix organization (collagen fibrils), platelet activation, and angiogenesis. The combination suggests a thematic link between immune cell signaling and interactions with the vascular/ECM environment, i.e., immune activation coupled with tissue remodeling and angiogenic processes.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":6},{"id":"GO:0002291","count":5},{"id":"GO:0007205","count":5},{"id":"GO:0035544","count":4},{"id":"GO:1902414","count":4}]},{"hash":"168715342488229856","title":"Osteoclast podosome formation and actin remodeling","description":"The top GO terms cluster around bone development and cranial skeletal formation, together with actin cytoskeleton organization (actin crosslinking, podosome assembly) and regulation of Rho GTPase signaling, plus cell polarity and shape control. This combination points to a module active in osteoclasts or bone-resorbing contexts where podosome-driven actin remodeling and Rho signaling govern bone remodeling and cell morphology. Confidence reflects a cohesive link to osteoclast-related cytoskeletal dynamics.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":4},{"id":"GO:0051764","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0071800","count":3},{"id":"GO:1904888","count":3}]},{"hash":"2150813549457634501","title":"Regulated vesicle exocytosis and signaling","description":"The top GO terms center on vesicle biology\u2014presynaptic dense core vesicle exocytosis and synaptic vesicle maturation\u2014suggesting roles in vesicle trafficking and neurotransmitter release. Other terms point to broader signaling regulation (Rho signaling, B cell receptor signaling, angiogenesis, extravasation), implying a theme of regulated signal transduction intertwined with cytoskeletal dynamics. While not each term is neuronal, the recurring focus on vesicle handling and signaling control supports this label.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0010796","count":3},{"id":"GO:0099525","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0032425","count":3}]},{"hash":"1544946814931906801","title":"RNA Processing and Translation Initiation","description":"This cluster is dominated by GO terms tied to RNA maturation and protein synthesis, notably formation of the translation preinitiation complex, mRNA splicing via the spliceosome, translation reinitiation, and branch site recognition. While there are some diverse terms related to development and cell signaling, the strongest and most frequent signals point to RNA processing and translation as the core shared function among these proteins.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0001731","count":6},{"id":"GO:0000398","count":6},{"id":"GO:0002188","count":6},{"id":"GO:0070306","count":5},{"id":"GO:2000011","count":4}]},{"hash":"1116145929130991779","title":"Vertebrate neural development and transcription regulation","description":"This cluster centers on vertebrate neural and endocrine development, with terms like midbrain development, neural crest cell migration, pituitary gland development, and general multicellular organism development, alongside regulation of transcription by RNA polymerase II (both positive and negative). These features suggest a group of transcriptional regulators involved in neural/brain and endocrine development, with additional immune-related terms that are less central to the core theme. Overall, the functions point to developmental transcription control in vertebrates.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0030901","count":9},{"id":"GO:0032496","count":7},{"id":"GO:0045944","count":6},{"id":"GO:0001755","count":6}]},{"hash":"460789490141388252","title":"Telomere Maintenance and Telomeric Localization","description":"Dominant signals in this cluster center on telomere biology\u2014maintenance (positive and negative regulation via telomerase) and localization to telomeres\u2014along with related chromosome dynamics (spindle assembly). A few terms reference broader signaling and movement, but the core theme is telomere maintenance and telomeric localization.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0051225","count":3},{"id":"GO:0070198","count":3},{"id":"GO:0016477","count":3}]},{"hash":"1114502345693774717","title":"UV-Induced DNA Repair and Cell Cycle Regulation","description":"The dominant GO terms cluster around UV-induced DNA damage response and repair: nucleotide-excision repair (including transcription-coupled repair), responses to UV-B and UV-C, and regulation of the cell cycle, plus transcriptional control by RNA polymerase II. This suggests a core function in coordinating DNA repair with cell cycle progression and gene expression under UV stress. Some terms related to eye morphogenesis and development appear peripheral to this core theme.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071157","count":5},{"id":"GO:0000720","count":4},{"id":"GO:0048597","count":4},{"id":"GO:0010225","count":4},{"id":"GO:1901666","count":4}]},{"hash":"2248310203603310935","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning neuronal differentiation, mechanical stimulus response, calcium release, SNARE regulation, spindle assembly, immune cell differentiation, and apoptosis, with no single coherent function tying them together. This makes it unclear what distinct, unified role the cluster represents.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021707","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0010845","count":3},{"id":"GO:0035544","count":3},{"id":"GO:0051209","count":3}]},{"hash":"191228782921334007","title":"Neuronal vesicle trafficking and receptor recycling","description":"Top GO terms indicate vesicle trafficking and synaptic regulation (SNARE complex assembly, vesicle/Golgi fusion, vacuole fusion, exocytic insertion of neurotransmitter receptors, and receptor recycling), with a strong signal for long-term synaptic potentiation. While lipid transport terms are present, the dominant pattern centers on neuronal vesicle exocytosis and receptor turnover, justifying the label.","confidence":"High","size":19,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006869","count":5},{"id":"GO:0042118","count":5},{"id":"GO:0042157","count":5},{"id":"GO:0060291","count":3},{"id":"GO:0001921","count":3}]},{"hash":"2086285825720750098","title":"Metabolism and Cell-Cycle Core Proteins","description":"This cluster includes GO terms spanning central metabolism (malate and pyruvate pathways, NADP regulation), ribosome-related processes (ribosome biogenesis, tRNA transcription), and cell-cycle/centrosome regulation, with a few DNA damage\u2013tolerance terms. The common thread is fundamental, growth-related cellular maintenance linking energy production, protein synthesis, and division readiness, rather than a single tightly defined pathway. Therefore, the label reflects a broad core of cellular processes essential for growth and viability.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0006108","count":1},{"id":"GO:0051262","count":1},{"id":"GO:0006090","count":1},{"id":"GO:1902031","count":1}]},{"hash":"1182984364382985625","title":"Endosome trafficking and actin dynamics in platelet formation","description":"The top GO terms cluster around endosomal transport and organization (endosome to lysosome, early to late endosome, endosome organization) and actin cytoskeleton remodeling (regulation of actin, lamellipodium assembly, cell migration), with links to megakaryocyte development and platelet formation. A couple of terms appear less related and may reflect background noise. This supports a theme of coordinated endosomal trafficking with actin-driven morphogenesis relevant to platelet formation.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008333","count":4},{"id":"GO:0045022","count":3},{"id":"GO:0006348","count":3},{"id":"GO:0035855","count":3},{"id":"GO:0030220","count":3}]},{"hash":"1228943651266919860","title":"Unknown","description":"These GO terms span brain development (hippocampus), inner ear morphogenesis (otolith), and spermatid development, plus neuronal axon guidance and broad cellular processes like endocytosis, Golgi retention, PI3K/Rho signaling, and innate immunity. The mix across diverse tissues and processes provides no single cohesive function or pathway to unify the cluster, so a specific label is not justifiable; thus Unknown. ","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021766","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0045053","count":2},{"id":"GO:0006897","count":2},{"id":"GO:0035023","count":2}]},{"hash":"432179487643874986","title":"Embryonic organogenesis and chromatin remodeling","description":"This cluster is enriched for embryonic organ development terms (pancreas, digestive tract, lens, neural crest, ureteric bud) and for transcriptional regulation and chromatin remodeling, suggesting a group of proteins coordinating developmental gene expression through epigenetic control.","confidence":"High","size":19,"edges":76,"triangles":137,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0006351","count":11},{"id":"GO:0071353","count":10},{"id":"GO:0043044","count":10},{"id":"GO:0031018","count":10}]},{"hash":"1581002561098923638","title":"Immune cell differentiation and hematopoiesis","description":"The top GO terms point to differentiation of immune/hematopoietic lineages (macrophages, dendritic cells, lymphoid progenitors, erythrocytes) and related developmental processes, with accompanying innate immune activities (complement activation, coagulation) and broad transcriptional regulation via RNA polymerase II and miRNA transcription. This combination suggests a cluster centered on immune cell development and hematopoiesis rather than a single enzymatic pathway.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:1902895","count":6},{"id":"GO:0030225","count":6},{"id":"GO:0045648","count":6},{"id":"GO:0006958","count":6}]},{"hash":"1547831747461714146","title":"Matrix remodeling in development","description":"This cluster is dominated by terms tied to extracellular matrix remodeling and tissue morphogenesis: epithelial tube branching in lung morphogenesis, basement membrane disassembly, collagen catabolic process, and bone resorption, all indicating proteolytic remodeling of the matrix. Additional catabolic and signaling-related terms (bradykinin catabolic, neuropeptide catabolic, thyroid hormone response) fit a broader protease-driven remodeling network involved in developmental contexts. Some immune-related terms appear, but the core signal centers on matrix remodeling during development.","confidence":"Medium","size":19,"edges":110,"triangles":358,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0060441","count":13},{"id":"GO:2000179","count":13},{"id":"GO:0034769","count":13},{"id":"GO:0001913","count":13},{"id":"GO:0010813","count":13}]},{"hash":"147139869200077665","title":"Immune signaling and tissue morphogenesis","description":"This cluster features immune-related processes (basophil activation, Fc-gamma receptor signaling, phagocytosis recognition, NK cell chemotaxis regulation) alongside developmental/morphogenetic processes (mesonephric duct and metanephric/kidney development, lymph vessel morphogenesis, cartilage condensation). The co-occurrence suggests these proteins may link immune signaling with tissue and vascular remodeling during development. ","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0072177","count":19},{"id":"GO:0045575","count":19},{"id":"GO:0060355","count":19},{"id":"GO:0038094","count":19},{"id":"GO:0036303","count":19}]},{"hash":"997899745709042093","title":"Ubiquitin-Dependent Proteolysis and Circadian Rhythm Regulation","description":"The top GO terms cluster around ubiquitin-dependent protein catabolic process, protein polyubiquitination, and regulation of circadian rhythm, suggesting ubiquitin-mediated protein turnover and clock control as a core theme. Some terms (germinal center formation, B cell receptor signaling, flower development, glucosinolate catabolic process) appear more as annotation noise or cross-species associations, so the core signal is ubiquitin-mediated regulation with circadian involvement.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0042752","count":7},{"id":"GO:0000209","count":5},{"id":"GO:0002467","count":5},{"id":"GO:0009911","count":5}]},{"hash":"1333691325677818735","title":"Spliceosome-regulated mRNA processing and translation initiation","description":"The cluster is dominated by GO terms tied to spliceosome-mediated mRNA splicing and its regulation (including positive/negative regulation and alternative splicing), plus terms related to translation initiation steps (preinitiation complex formation and translation reinitiation) and mRNA modification. This suggests proteins functioning in RNA processing and control of translation initiation, with spliceosome activity as a central theme.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048025","count":10},{"id":"GO:0045292","count":10},{"id":"GO:0002188","count":10},{"id":"GO:1901407","count":10},{"id":"GO:0031047","count":10}]},{"hash":"273211903271490239","title":"Cell Signaling and Cytoskeletal Dynamics","description":"The cluster centers on kinase activity (peptidyl-tyrosine autophosphorylation) and osmosensory signaling (Sho1), with additional terms relating to actin cytoskeleton reorganization, cell migration, and cell cycle-related processes. Together these suggest a core theme of signaling pathways that coordinate cytoskeletal behavior and cellular responses, despite some terms being obsolete or broad. ","confidence":"Medium","size":18,"edges":144,"triangles":696,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038083","count":18},{"id":"GO:2000251","count":18},{"id":"GO:0060044","count":18},{"id":"GO:0014068","count":18},{"id":"GO:0001806","count":18}]},{"hash":"1639547522275810413","title":"Unknown","description":"The top GO terms span immune signaling (cellular response to interleukin-4, lymphocyte proliferation) and various unrelated processes such as nucleotide biosynthesis (GMP and GTP), protein complex formation (protein homotetramerization), eye development (retina development), metabolic stress response (cellular response to glucose starvation), transport (glycine betaine transport), and hydrogen sulfide biosynthesis, with no single cohesive theme uniting the cluster. Therefore, a meaningful, specific label cannot be confidently assigned.","confidence":"","size":18,"edges":61,"triangles":110,"max_degree":14,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0071353","count":7},{"id":"GO:0006177","count":7},{"id":"GO:0051289","count":7},{"id":"GO:0060041","count":7},{"id":"GO:0006183","count":7}]},{"hash":"1649816925507701367","title":"Redox Homeostasis and ECM Organization","description":"This cluster shows strong enrichment for redox-related terms (cellular oxidant detoxification, redox homeostasis, oxidation-reduction) and a notable signal for extracellular matrix organization, suggesting a core theme around managing oxidative stress while remodeling the ECM. Some immune and reproductive terms may reflect broader or context-specific roles or annotation noise, but the dominant pattern centers on redox balance coupled with ECM dynamics.","confidence":"High","size":18,"edges":135,"triangles":583,"max_degree":17,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0098869","count":9},{"id":"GO:0045454","count":8},{"id":"GO:0030416","count":7},{"id":"GO:0055114","count":7},{"id":"GO:2000255","count":6}]},{"hash":"1892420292114233126","title":"Ribosome biogenesis and rRNA processing","description":"The cluster is strongly enriched for ribosome-related processes: maturation of SSU- and LSU-rRNA, ribosomal large subunit biogenesis, and ribosome assembly, with supporting terms like mRNA splicing via spliceosome. These together point to a cohesive module dedicated to ribosome production and RNA maturation, with a few outlier terms (e.g., viral genome replication) likely due to annotation context rather than core function.","confidence":"High","size":18,"edges":142,"triangles":695,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0019079","count":17},{"id":"GO:0006260","count":17},{"id":"GO:0000463","count":17},{"id":"GO:0000466","count":17},{"id":"GO:0042273","count":17}]},{"hash":"430610940212331437","title":"Neuronal connectivity and vesicle trafficking","description":"This cluster is driven by GO terms linked to neuron wiring and synapse formation (positive regulation of presynapse assembly, axon guidance) and by membrane trafficking and organelle dynamics (cilium assembly, receptor recycling, endosome size regulation, GTPase activity). Together these suggest a theme around how neurons establish connections and manage vesicle trafficking and signaling, with other general processes present but not dominant. ","confidence":"Medium","size":18,"edges":47,"triangles":54,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1905608","count":16},{"id":"GO:0031291","count":16},{"id":"GO:1905490","count":16},{"id":"GO:0060271","count":16},{"id":"GO:0000278","count":16}]},{"hash":"1251648793393867916","title":"AMPA receptor-mediated synaptic plasticity","description":"This cluster is dominated by GO terms tied to neuronal synaptic modulation, including AMPA receptor clustering and activity, long-term potentiation/depression, dendritic spine morphogenesis, and striatal neuron differentiation, with a behavioral clue from vocalization. Ephrin receptor signaling also aligns with neuronal development and synaptic organization. A single immune-related term appears but does not override the neural-plasticity theme. ","confidence":"High","size":18,"edges":26,"triangles":9,"max_degree":10,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050798","count":15},{"id":"GO:0048013","count":15},{"id":"GO:0060997","count":14},{"id":"GO:0050894","count":14},{"id":"GO:0048170","count":14}]},{"hash":"2232500310473836093","title":"Wnt/Hippo/TGF-\u03b2 Growth Control","description":"Proteins in this cluster are enriched for signaling events that regulate cell growth, fate, and differentiation, notably Wnt signaling, Hippo pathway activity, and TGF-\u03b2 receptor signaling modulation, along with cell cycle control and keratinocyte differentiation. Together these terms point to a cohesive theme of growth/differentiation regulation through these signaling axes, with apoptosis as a complementary fate outcome. Some terms (e.g., abscisic acid signaling) may reflect annotation noise rather than core functions.","confidence":"High","size":18,"edges":13,"triangles":1,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060044","count":8},{"id":"GO:0006915","count":8},{"id":"GO:0030216","count":8},{"id":"GO:0090263","count":8},{"id":"GO:0035329","count":8}]},{"hash":"1995212319847082456","title":"Mitotic spindle and axonemal microtubule dynamics","description":"The cluster shows strong enrichment for microtubule-related processes: mitotic spindle elongation, centrosome separation, kinetochore attachment, and plus- or minus-end microtubule dynamics, as well as axonemal microtubule depolymerization. This points to a shared role in remodeling microtubules during both cell division and ciliary/axonemal contexts, with potential links to developmental morphogenesis.","confidence":"High","size":18,"edges":53,"triangles":74,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0060404","count":16},{"id":"GO:0021693","count":16},{"id":"GO:0000742","count":16},{"id":"GO:0000022","count":16},{"id":"GO:0007100","count":16}]},{"hash":"32077590447469053","title":"Neuronal development and microtubule regulation","description":"This cluster is enriched for nervous system development terms (neuron development, dentate gyrus development, thigmotaxis) and microtubule/cytoskeleton modulation (alpha-tubulin acetylation, regulation of microtubule cytoskeleton organization), pointing to roles in neuronal differentiation and cytoskeletal remodeling; peripheral terms like angiogenesis and chromatin-related processes are less central.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048666","count":7},{"id":"GO:0071929","count":7},{"id":"GO:0001966","count":6},{"id":"GO:0045598","count":6},{"id":"GO:0070507","count":6}]},{"hash":"1533925915943335146","title":"Rho GTPase\u2013driven Filopodium Formation","description":"The top terms center on filopodium assembly and its regulation, along with small GTPase\u2013mediated signaling and Rho protein pathways, highlighting actin cytoskeleton remodeling and adhesion-driven cell spreading. While there are accessory signals like insulin and Ras modulation, the dominant theme ties to Rho GTPase\u2013controlled cytoskeletal dynamics and filopodium formation, with relevance to neuronal and immune contexts.","confidence":"High","size":18,"edges":24,"triangles":4,"max_degree":12,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1900026","count":10},{"id":"GO:0046847","count":10},{"id":"GO:0008286","count":10},{"id":"GO:0007264","count":9},{"id":"GO:0035023","count":9}]},{"hash":"981698455514629097","title":"Developmental MAPK signaling and chemokine responses","description":"The terms point to developmental signaling across multiple organ systems (eye retina, retina-related visual perception, heart development) and a central role for MAPK/ERK signaling, with immune chemokine signaling and calcium-mediated secretory processes also represented. Together these suggest a cluster of developmental signaling coordinated with secretion and immune communication, rather than a single tissue-specific function.","confidence":"Medium","size":18,"edges":6,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060041","count":8},{"id":"GO:0007507","count":7},{"id":"GO:0070374","count":7},{"id":"GO:0007626","count":7},{"id":"GO:0007601","count":7}]},{"hash":"668690629661684212","title":"Transmembrane transport and secretion proteins","description":"The top GO terms are dominated by transmembrane transport across membranes (xenobiotic, vitamin, ceramide, and potassium ion transport) and protein secretion mechanisms (type I secretion system, oligopeptide export from mitochondrion). This points to a cluster of membrane-associated transport and secretion functions. Some terms like bacteriocin immunity and mercury ion response may reflect broader stress or defense contexts, but the core signal is membrane transport/secretion activity. ","confidence":"High","size":18,"edges":29,"triangles":10,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":16},{"id":"GO:0035461","count":15},{"id":"GO:0042908","count":12},{"id":"GO:0071805","count":10},{"id":"GO:0090374","count":10}]},{"hash":"716292771017418642","title":"Oxidative Stress Response and Redox Homeostasis","description":"The cluster is dominated by terms related to redox balance and oxidative stress, including cell redox homeostasis, cellular oxidant detoxification, and cellular response to oxidative stress. There is also a notable ER stress response term, which can tie into misfolded protein responses linked to oxidative conditions. A few terms about transcription regulation are present, but the core theme remains redox regulation and oxidative stress responses; note that several terms are marked obsolete in current GO, but the non-obsolete terms support this interpretation.","confidence":"High","size":18,"edges":38,"triangles":19,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":10},{"id":"GO:0045454","count":10},{"id":"GO:0098869","count":9},{"id":"GO:0034976","count":8},{"id":"GO:1903206","count":8}]},{"hash":"1819675218069960850","title":"Gastrointestinal Motility and Signaling","description":"The terms converge on gut function\u2014gastric secretion, smooth muscle contraction, and gut development\u2014alongside neural signaling and immune cell activity, with supporting metabolic and pain-related processes.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":11},{"id":"GO:0002024","count":11},{"id":"GO:0019233","count":11},{"id":"GO:0042391","count":11},{"id":"GO:0001697","count":9}]},{"hash":"2028399849588738281","title":"Unknown","description":"The GO terms span transcriptional regulation, xenobiotic response, necroptosis, immune antigen processing, synaptic plasticity, cell cycle, cAMP signaling, and endocrine hormone regulation, with no clear, cohesive function tying all proteins together. Therefore a single representative label cannot be confidently assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0035690","count":4},{"id":"GO:1901026","count":3},{"id":"GO:1900425","count":3},{"id":"GO:0019886","count":3}]},{"hash":"879906367637182840","title":"Neural development and survival signaling","description":"The terms cluster around neural development and plasticity (embryonic development, BMP signaling; long-term synaptic depression) and neuronal survival (apoptosis regulation, ER stress\u2013induced apoptosis), suggesting a neural development and stress-response theme, with a minor outlier in Fc-epsilon receptor signaling.","confidence":"Medium","size":18,"edges":19,"triangles":1,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0030307","count":2},{"id":"GO:1900452","count":2},{"id":"GO:0070059","count":2},{"id":"GO:0001701","count":2}]},{"hash":"814719141145722419","title":"Neuronal development and axon guidance","description":"Based on frequent GO terms, this cluster centers on neuronal development and axon pathfinding (corpus callosum development, retinal ganglion cell axon guidance, CNS projection neuron axonogenesis) and associated signaling (cell surface receptor tyrosine kinase signaling) with extracellular matrix remodeling (collagen fibril organization). The presence of angiogenesis and innate immune terms suggests concurrent vascular and immune context common in CNS development, but the core theme remains neural development and axon guidance.","confidence":"Medium","size":18,"edges":55,"triangles":63,"max_degree":14,"top_function":"autophagy","top_go_terms":[{"id":"GO:0001778","count":8},{"id":"GO:0045087","count":7},{"id":"GO:0051607","count":7},{"id":"GO:0001525","count":7},{"id":"GO:0007169","count":7}]},{"hash":"752602037331899335","title":"Developmental Signaling Pathways","description":"This cluster shows a strong pattern of developmental processes across tissues (nervous system, kidney, bone, spermatid development) and multiple signaling cascades (ERK, Hedgehog, Slit-Robo) with axon guidance as a key theme. While an immune signaling term appears among the top terms, the dominant signal is signaling pathways involved in development and neuronal connectivity, suggesting proteins that participate in broad developmental signaling rather than a single tissue. ","confidence":"Medium","size":18,"edges":150,"triangles":769,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":14},{"id":"GO:0050852","count":14},{"id":"GO:0035385","count":14},{"id":"GO:0007224","count":13},{"id":"GO:0001822","count":13}]},{"hash":"1851205434419962657","title":"Neural and Eye Development with AKT Signaling","description":"This cluster centers on developmental processes in neural and ocular tissues, evidenced by eye and substantia nigra/forebrain development terms, and includes growth-related signaling (AKT activation) and cell proliferation. While there are outliers (GTPase regulation, adipocyte differentiation, extrinsic apoptotic signaling) the dominant signal is neural/eye development with growth signaling pathways.","confidence":"Medium","size":18,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0021762","count":3},{"id":"GO:0097192","count":3},{"id":"GO:0001654","count":3},{"id":"GO:0000187","count":2}]},{"hash":"2278688236771446625","title":"Cardiac and smooth muscle development and contraction","description":"This cluster\u2019s top GO terms center on heart development, regulation of cardiac muscle contraction, and smooth muscle contraction in the gut, pointing to a core theme of muscle development and function. While there are additional terms related to signaling and secretory processes, the dominant signal is muscle-related biology, justifying a muscle-focused label.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":13},{"id":"GO:0008542","count":13},{"id":"GO:0040015","count":13},{"id":"GO:0001697","count":12},{"id":"GO:0007208","count":12}]},{"hash":"1820549706698013507","title":"Neural Development and Signaling","description":"The dominant terms point to neural development and signaling: hippocampus and substantia nigra development, neurotransmitter receptor transport, and positive regulation of ERK1/ERK2 cascade, which together suggest neuronal differentiation and synaptic signaling. Additional terms about actin cytoskeleton remodeling and cell polarity align with neuronal morphology, while some items (spermatid development, epithelial proliferation, and a fungal cell wall biosynthetic process) indicate broader developmental or potential annotation noise. Overall, the cluster is best described by neural development and signaling functions.","confidence":"Medium","size":18,"edges":27,"triangles":15,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":6},{"id":"GO:0021766","count":6},{"id":"GO:0031532","count":6},{"id":"GO:0060501","count":5},{"id":"GO:0090334","count":5}]},{"hash":"733766119276361783","title":"Immune Activation and Antigen Presentation","description":"This cluster shows strong signals for B cell receptor signaling, innate immunity, complement activation, phagocytosis, and antigen processing/presentation via MHC class I, indicating a module focused on immune activation bridging innate and adaptive responses. The bitter taste term appears to be an annotation artifact rather than central to function. ","confidence":"High","size":18,"edges":58,"triangles":37,"max_degree":11,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050853","count":12},{"id":"GO:0045087","count":12},{"id":"GO:0006958","count":12},{"id":"GO:0006911","count":12},{"id":"GO:0050871","count":12}]},{"hash":"2008690368044746087","title":"Neuronal development and synaptic signaling","description":"This cluster is dominated by terms related to nervous system and brain development, dendritic spine morphogenesis, and long-term synaptic plasticity, with supporting signaling pathways such as Hedgehog (Smoothened) and tyrosine autophosphorylation. While other developmental terms (heart, kidney) are present, the strongest, most frequent associations center on neuronal development and synaptic regulation, suggesting proteins function together in neural development and synaptic signaling networks.","confidence":"High","size":18,"edges":81,"triangles":118,"max_degree":12,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0050852","count":6},{"id":"GO:0007507","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0007420","count":4},{"id":"GO:0038083","count":4}]},{"hash":"2280858819814461789","title":"Inflammation and nociception response cluster","description":"The GO terms show a core pattern around inflammatory defense (defense response to bacterium, neutrophil chemotaxis, TNF regulation), pain perception, and temperature-related responses (cellular response to temperature stimulus, diet-induced thermogenesis, temperature-related processes). While there are some tangential terms (serotonin signaling, cardiac contraction, visual learning), the dominant signal is immune/inflammatory and nociceptive signaling, suggesting proteins in this cluster coordinate inflammatory responses and pain/temperature sensing.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":11},{"id":"GO:0032720","count":11},{"id":"GO:0042742","count":11},{"id":"GO:0002024","count":11},{"id":"GO:0008542","count":11}]},{"hash":"2198810551330843670","title":"Regulation of Signaling and Cell Cycle","description":"This cluster is enriched for terms related to regulation of signaling pathways (MAPK/ERK cascade, T cell receptor signaling, tyrosine dephosphorylation) and key cell cycle/mitotic processes (cell cycle, mitotic cytokinesis checkpoint signaling, chromatid biorientation). Together, they point to a coherent theme of coordinating signal transduction with cell division.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0000200","count":16},{"id":"GO:0070373","count":16},{"id":"GO:0050860","count":16},{"id":"GO:0035335","count":14},{"id":"GO:0007049","count":13}]},{"hash":"695718511007559871","title":"Chromatin modification and RNA processing","description":"The top GO terms cluster around nuclear functions: histone methylation (H3-K4 and H3-K79), DNA-templated transcription, ribosome biogenesis, RNA processing including guanine-N7 methylation and mRNA branch site recognition. This suggests proteins involved in chromatin regulation and RNA maturation/processing, with additional signals of mitochondria-nucleus signaling and chromosome segregation that broadly align with nuclear gene expression and cell-cycle processes.","confidence":"Medium","size":18,"edges":6,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034729","count":6},{"id":"GO:0051568","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0042254","count":5},{"id":"GO:0036265","count":5}]},{"hash":"1517539110108371404","title":"Rho GTPase Signaling in Synaptic Plasticity","description":"The top GO terms cluster around Rho GTPase activity regulation and synaptic plasticity (long-term potentiation/depression), indicating a group of proteins involved in neuronal signaling and cytoskeletal changes that modulate synaptic strength. Some terms about cell adhesion/junctions may reflect common cytoskeletal dynamics, but the dominant theme is GTPase-mediated control of synaptic plasticity.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0035023","count":3},{"id":"GO:1900273","count":3},{"id":"GO:0035176","count":3},{"id":"GO:0060292","count":3}]},{"hash":"1530201990715987130","title":"Neural crest development and neuron guidance","description":"Based on the Top Terms, most entries relate to nervous system development and the movement/organization of neural crest\u2013derived cells, including neural crest migration, trigeminal nerve organization, sympathetic neuron projection guidance, and heterophilic cell\u2013cell adhesion which is important for neural cell interactions. A minority term about ossification appears, but the predominant theme is neural development and neural pathfinding. Therefore a label focusing on neural crest\u2013driven neural development and neuron guidance best captures the cluster.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0043931","count":6},{"id":"GO:0046718","count":5},{"id":"GO:0014068","count":5}]},{"hash":"1086315100653178367","title":"Neural development and cytoskeletal remodeling","description":"The top GO terms cluster around actin-based structures and signaling that govern cell shape and neurite dynamics (microspike assembly, Rho signaling regulation, dendrite morphogenesis), along with neural-specific functions (myelination in the PNS, sensory perception of sound). There are outliers related to cell junctions and mitotic spindle that suggest broader cellular architecture roles, but the strongest signal points to cytoskeletal remodeling and neural development/function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070830","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0043950","count":3},{"id":"GO:0030035","count":3},{"id":"GO:0050774","count":3}]},{"hash":"94493360973534812","title":"Mitosis and chromatin regulation","description":"The terms point to mitosis-specific processes (mitotic chromosome condensation, G2/M transition, nuclear membrane disassembly) and chromatin-related regulation (histone deacetylation/phosphorylation, RNA splicing regulation). While a few immune signaling terms appear, the core signal is cell cycle progression coupled with chromatin dynamics, justifying this label.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071380","count":2},{"id":"GO:2001165","count":2},{"id":"GO:0007076","count":1},{"id":"GO:0031065","count":1},{"id":"GO:0051081","count":1}]},{"hash":"530798534582242783","title":"Adaptive Immune Activation and Cell Interactions","description":"The cluster is enriched in adaptive immune processes (adaptive immune response, T cell costimulation, dendritic cell differentiation, phagocytosis recognition) and signaling (MAPK/ERK cascade) with adhesion-related terms, suggesting proteins involved in immune cell activation, communication, and interactions.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:2001200","count":3},{"id":"GO:0031295","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0007165","count":3}]},{"hash":"1899673309199868260","title":"Epithelial Morphogenesis and Cell Motility","description":"The terms point to developmental tissue formation and movement: epithelial morphogenesis, lamellipodium assembly, and Rho signaling suggest cytoskeletal changes driving cell migration. Additional terms in odontogenesis and angiogenesis reinforce a developmental morphogenesis theme, with other terms indicating regulation via protein localization and ubiquitination. Overall, the cluster reflects developmental morphogenesis and cell motility rather than a single precise pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002009","count":4},{"id":"GO:0007266","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0007406","count":3},{"id":"GO:2001240","count":3}]},{"hash":"1081114903449042164","title":"Blood coagulation and ECM remodeling","description":"The dominant GO terms point to hemostasis and extracellular matrix dynamics\u2014blood coagulation, fibrinolysis, collagen fibril organization, and angiogenesis\u2014suggesting a cluster centered on vascular remodeling and tissue integrity. Neural plasticity terms are present but appear ancillary to the main coagulation/ECM theme. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein maturation","top_go_terms":[{"id":"GO:0007596","count":5},{"id":"GO:0042730","count":5},{"id":"GO:0014068","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0030199","count":4}]},{"hash":"751823777066081292","title":"Embryonic tissue and organ development","description":"This cluster shows a broad enrichment for developmental processes across multiple tissues and organ systems, including neural development (trochlear nerve formation, rhombomere morphogenesis, spinal interneuron specification), cardiac development (atrioventricular node fate), renal (nephric duct elongation), hepatic (hepatoblast differentiation), cartilage, and bronchiole formation. The shared theme is embryonic morphogenesis and organogenesis, with at least some signals for growth such as positive regulation of myoblast proliferation, indicating a cohesive developmental program rather than a single pathway.","confidence":"High","size":18,"edges":13,"triangles":3,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0021642","count":18},{"id":"GO:0061017","count":18},{"id":"GO:0021544","count":18},{"id":"GO:0051216","count":18},{"id":"GO:0035849","count":18}]},{"hash":"943357204583370736","title":"Epigenetic transcription regulation and proteostasis","description":"Dominant signal is chromatin modification and transcription regulation (histone methylation and DNA-templated transcription), with supporting evidence for protein and RNA quality control (aggresome, misfolded-protein response, nonfunctional rRNA decay). This links epigenetic regulation to proteostasis, with some additional terms suggesting broader genome maintenance and transcriptional control roles.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034729","count":3},{"id":"GO:0051568","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0071218","count":3},{"id":"GO:0070842","count":3}]},{"hash":"1498881809248331943","title":"Gastrointestinal signaling and smooth muscle contraction","description":"The top GO terms point to GPCR-PLC\u2013driven signaling (histamine- and serotonin-related pathways), calcium release, and contraction of smooth muscle in the gut, as well as related secretory and development contexts. Although immune-related terms (eosinophil chemotaxis, CD8 T cell differentiation) appear, the predominant pattern centers on GI signaling and smooth muscle activity, with calcium dynamics as a common thread.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":17},{"id":"GO:0007208","count":17},{"id":"GO:0055117","count":17},{"id":"GO:0007497","count":17},{"id":"GO:0048245","count":17}]},{"hash":"109791585659640270","title":"Telomere maintenance and cell cycle control","description":"This cluster is dominated by GO terms about telomere maintenance, telomere capping, and regulation of the G2/M transition, along with base-excision repair and general cell cycle processes, indicating a theme of genome stability and cell-cycle control. A few outlier terms related to ER targeting and stress responses are present but do not redefine the core function.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006620","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0010389","count":2},{"id":"GO:0032212","count":2},{"id":"GO:1905053","count":2}]},{"hash":"659129188037395224","title":"Embryonic Development and Wnt/Planar Polarity Signaling","description":"Top terms cluster around embryonic morphogenesis and signaling: neural tube closure, cranial skeleton morphogenesis, planar polarity, and Wnt signaling, with accompanying angiogenesis and growth-related pathways. Together these suggest a cohesive role in embryonic development and tissue patterning governed by Wnt/planar polarity cues.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001843","count":4},{"id":"GO:0048701","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0001736","count":3}]},{"hash":"989212549920561099","title":"Embryonic development and morphogen signaling","description":"Top GO terms emphasize embryonic morphogenesis and development (cranial skeleton morphogenesis, multicellular organism development, convergent extension) with supporting signaling pathways (VEGF/FGFR signaling, STAT phosphorylation) and extracellular remodeling (proteolysis). The presence of innate immune response may reflect cross-talk during development, but the dominant trend is developmental morphogenesis coupled with signaling. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0048701","count":11},{"id":"GO:0007275","count":11},{"id":"GO:0045087","count":11},{"id":"GO:0006508","count":10},{"id":"GO:0042511","count":10}]},{"hash":"629859589475029798","title":"Unknown","description":"This cluster shows a mix of GO terms across centrosome separation, innate immune response, transcription, heart development, GTPase regulation, IgA isotype switching, atrial morphogenesis, TGF-beta signaling, and oocyte fate determination\u2014there is no clear, shared function linking these terms, so a cohesive label cannot be assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051299","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1995173570744558188","title":"Protein quality control and cell division","description":"This cluster includes GO terms tied to protein folding and degradation (ERAD pathway, chaperone-dependent refolding, protein heterooligomerization) as well as assembly of respiratory complexes and general cell cycle processes (mitotic cell cycle, cell division). These themes point to proteostasis and protein assembly during proliferation and development, with spermatogenesis and Hedgehog signaling offering contexts where such quality control and assembly are critical. The taurine transport term is less directly connected but can be relevant to membrane dynamics in dividing cells. Overall, the common thread is maintenance of protein quality and assembly during cell growth and division.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015734","count":2},{"id":"GO:0017004","count":2},{"id":"GO:0007283","count":2},{"id":"GO:0070301","count":2},{"id":"GO:0007224","count":2}]},{"hash":"616432933471637339","title":"Host-pathogen Interaction and Inflammatory Signaling","description":"The top GO terms emphasize host response and immune signaling (symbiont entry into host cell, positive regulation of chemokine and macrophage inflammatory protein production), suggesting proteins involved in interactions with microbes and inflammatory pathways. Additional terms related to stress (hypoxia) and general protein processing (proteolysis, oligomerization) support a broader signaling/response role rather than a single enzyme pathway. Overall, this cluster centers on host-microbe interactions and inflammatory signaling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0006508","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0001666","count":3},{"id":"GO:0046718","count":3}]},{"hash":"956984490241725148","title":"Pan-tissue development and signaling","description":"GO terms cover diverse tissue development and signaling events across organisms (kidney development, ectoderm formation, neural specification, phloem development, germ plasm localization, T cell NFAT signaling, muscle stretch detection). The unifying theme is general developmental differentiation and signaling rather than a single function, so Pan-tissue development and signaling fits.","confidence":"Medium","size":17,"edges":26,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0035849","count":5},{"id":"GO:0021521","count":5},{"id":"GO:2000768","count":5},{"id":"GO:0001705","count":5},{"id":"GO:0046013","count":5}]},{"hash":"893681274163915548","title":"GPCR-PLC Signaling and Muscle Function","description":"This cluster is dominated by GO terms tied to GPCR-PLC signaling and GTPase regulation (e.g., positive regulation of GTPase activity; phospholipase C-activating serotonin receptor signaling), with downstream associations to muscle activity (regulation of cardiac muscle contraction; intestine smooth muscle contraction) and tissue development (retina development; posterior midgut development). Additional terms like histamine-induced gastric acid secretion and eosinophil chemotaxis reflect broader signaling and immune-related responses that can be linked to GPCR pathways. Taken together, the proteins appear to participate in GPCR-GTPase signaling that modulates muscle function across tissues and development.","confidence":"Medium","size":17,"edges":22,"triangles":14,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":13},{"id":"GO:0008283","count":13},{"id":"GO:0042493","count":13},{"id":"GO:0060041","count":13},{"id":"GO:0001697","count":12}]},{"hash":"569579866568007396","title":"Ephrin-ERK signaling in neuronal development","description":"This cluster centers on ephrin receptor signaling and ERK pathway regulation, linked to neuronal development tasks such as dendritic spine formation and neuron maturation. While a few terms pertain to immune signaling and bone resorption, the strongest signal is neuronal development and synaptic maturation driven by ephrin-ERK signaling.","confidence":"High","size":17,"edges":15,"triangles":2,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048013","count":15},{"id":"GO:0034629","count":15},{"id":"GO:0070374","count":15},{"id":"GO:0051301","count":15},{"id":"GO:0043366","count":15}]},{"hash":"1661571605997812331","title":"Neuronal GPCR signaling and axon guidance","description":"Most terms converge on neuronal signaling and connectivity: GPCR signaling, ERK cascade regulation, axon extension, and tangential migration to the olfactory bulb, with a separate emphasis on modulation of excitatory postsynaptic potentials. This pattern suggests proteins coordinating neuronal development and synaptic maturation rather than housekeeping processes. Some terms are obsolete, but the core theme remains neural differentiation and axon guidance.","confidence":"High","size":17,"edges":28,"triangles":0,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007186","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0022028","count":4},{"id":"GO:0090394","count":4},{"id":"GO:0035751","count":4}]},{"hash":"1081487793471229783","title":"Amino acid catabolism and central metabolism","description":"The cluster is dominated by GO terms for amino acid catabolism (kynurenine, alanine, threonine, lysine) and related central metabolites (oxaloacetate, glyoxylate), plus some lipid biosynthesis (sphinganine) and signaling/development terms (Notch signaling, fruit ripening) that may be peripheral or due to multifunctional proteins. Overall, the shared theme appears to be metabolic catabolism and central metabolism rather than a single specific pathway.","confidence":"Medium","size":17,"edges":134,"triangles":650,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097053","count":5},{"id":"GO:0006107","count":5},{"id":"GO:0009436","count":5},{"id":"GO:0042853","count":5},{"id":"GO:0007219","count":5}]},{"hash":"24812380132644329","title":"Unknown","description":"The top GO terms span biosynthesis, transcription, signaling, metabolism, neural activity, and reproduction (menaquinone and biotin/antibiotic biosynthesis, L-alanine and L-kynurenine catabolism, DNA-templated transcription, Notch signaling, spermatogenesis, excitatory postsynaptic potential, and potassium transport), indicating no single cohesive function for the cluster. It appears to be a mix of diverse roles or broad annotations rather than a unified pathway.","confidence":"","size":17,"edges":8,"triangles":4,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009234","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0007219","count":3},{"id":"GO:0042853","count":3},{"id":"GO:0097053","count":3}]},{"hash":"1349213227405654871","title":"Immune signaling and developmental regulators","description":"The cluster combines immune-related GO terms (T cell receptor signaling, B cell affinity maturation) with developmental and signaling cues (neural tube closure, motor neuron axon guidance, cell-matrix adhesion, growth hormone signaling) and transcriptional regulation (DNA-templated transcription), suggesting proteins that participate in diverse signaling networks linking immune function and development, with some involvement in cell cycle control and protein turnover. Confidence: Medium","confidence":"Medium","size":17,"edges":4,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050852","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0032436","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0007160","count":3}]},{"hash":"568079497560376371","title":"Innate immune response and complement activation","description":"This cluster is strongly associated with innate immunity: classical and lectin pathway complement activation, leukocyte migration in inflammatory response, and neutrophil-mediated killing\u2014all core aspects of inflammation and host defense. While there are some developmental and transcription-regulation terms present, the dominant immune-related terms suggest a cohesive innate immune/inflammatory theme. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0045944","count":4},{"id":"GO:0030901","count":4},{"id":"GO:0014068","count":3},{"id":"GO:0006958","count":3}]},{"hash":"1814280120513309531","title":"Telomere Maintenance and Signaling Proteins","description":"This cluster shows strong telomere-related GO terms (positive/negative regulation of telomere maintenance, telomeric localization) plus terms for Wnt signaling and GPCR signaling, and cell-cycle/chromosome localization (spindle assembly, telomeric chromosome localization). The telomere maintenance signals are predominant, suggesting a group of proteins coordinating telomere biology with signaling and cell division.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:0007205","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0009409","count":4},{"id":"GO:0051225","count":4}]},{"hash":"857583877956004325","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":17,"triangles":0,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0070475","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0001824","count":2},{"id":"GO:0017126","count":2}]},{"hash":"2294943589977154254","title":"Nucleotide Salvage with Angiogenesis Signals","description":"The cluster\u2019s strongest signals are nucleotide salvage processes (UMP salvage, uracil salvage, CTP salvage), suggesting a metabolic core. Layered on top are vascular-related terms (angiogenesis regulation, endothelial migration, nitric oxide synthesis, mechanical stimulus response, collagen organization), implying a context where nucleotide metabolism interfaces with endothelial remodeling and angiogenic signaling. This combination justifies a label that emphasizes both salvage metabolism and vascular signaling.","confidence":"Medium","size":17,"edges":19,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0044206","count":3},{"id":"GO:0006223","count":3},{"id":"GO:0044211","count":3},{"id":"GO:0045766","count":2},{"id":"GO:0014068","count":2}]},{"hash":"158442552991292402","title":"Ribosome biogenesis and translation","description":"The cluster is strongly enriched for translation- and ribosome-related GO terms, including translation, ribosomal large subunit assembly/biogenesis, and ribosome disassembly, with both cytoplasmic and mitochondrial translation components (plus selenocysteine incorporation), pointing to components of the ribosome assembly/translation machinery and related regulation.","confidence":"High","size":17,"edges":135,"triangles":665,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":13},{"id":"GO:0000027","count":6},{"id":"GO:0006415","count":4},{"id":"GO:0046677","count":3},{"id":"GO:0042273","count":3}]},{"hash":"1631409763252338460","title":"Vertebrate neural and sensory organ development","description":"The top terms cluster around vertebrate neural and sensory organ formation (retina development, neural crest formation, forebrain-midbrain boundary, habenula, pituitary), with supporting signals for broader organogenesis (muscle development, DNA-templated transcription). While a few terms touch on branching morphogenesis (kidney) and muscle proliferation, the dominant theme is neural/sensory development in vertebrates.","confidence":"Medium","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060041","count":11},{"id":"GO:0006351","count":10},{"id":"GO:0021983","count":9},{"id":"GO:0021986","count":9},{"id":"GO:0090190","count":9}]},{"hash":"2032058804551147866","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000453","count":2},{"id":"GO:0002938","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0050830","count":2}]},{"hash":"1753105183037984934","title":"Neuronal adhesion and axon guidance","description":"This cluster is strongly enriched for nervous system development terms related to neuron and CNS cell\u2013cell adhesion, synapse assembly, and axon guidance (e.g., neuron cell\u2013cell adhesion, retinal ganglion cell axon guidance, CNS projection neuron axonogenesis, positive regulation of synapse assembly). While heart development and some immune terms appear, the dominant theme is neuronal adhesion and wiring, suggesting proteins involved in synapse formation and axon pathfinding. Confidence: High","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0007156","count":4},{"id":"GO:0007158","count":4},{"id":"GO:0031290","count":4}]},{"hash":"1440411293166718949","title":"Neural development, ERK signaling, and endolysosomal trafficking","description":"The cluster shows strong signals for nervous system development, brain and substantia nigra development, and positive regulation of ERK1/ERK2 cascades, along with actin cytoskeleton polarity and endosome-to-lysosome transport, suggesting a cohesive role in neuronal development and signaling with intracellular trafficking. A secondary signal for type II interferon production exists but appears less central to the core theme.","confidence":"Medium","size":17,"edges":76,"triangles":143,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0043524","count":4},{"id":"GO:0008333","count":4},{"id":"GO:0032729","count":4}]},{"hash":"76316792092757684","title":"GPCR Signaling Pathways","description":"This cluster is dominated by GO terms related to G protein-coupled receptor signaling, including adenylate cyclase activation and phospholipase C-activating pathways, and downstream effects like regulation of blood pressure and cardiac muscle contraction. Although a few terms touch on other contexts (eosinophil chemotaxis, midgut development), the shared theme is GPCR-mediated signal transduction across cardiovascular and related physiological processes.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":14},{"id":"GO:0022900","count":14},{"id":"GO:0007190","count":14},{"id":"GO:0045777","count":14},{"id":"GO:0035025","count":14}]},{"hash":"1513921705981304981","title":"Neural development and craniofacial skeletal formation","description":"Based on the prominent neural terms (fasciculation of motor neuron axon, optic nerve morphogenesis, sensory perception of sound) together with skeletal-related terms (cranial skeletal system development, bone development) and heart development, the cluster seems to capture neural development intertwined with craniofacial skeletal morphogenesis and morphogenetic cell migration (podosome assembly). This combination points to a cohesive theme around neural crest\u2013driven development of the nervous system and craniofacial skeleton.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097156","count":3},{"id":"GO:0051262","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0021631","count":3},{"id":"GO:0098719","count":2}]},{"hash":"1379366440433374376","title":"Ubiquitin-Dependent Proteolysis","description":"The cluster is dominated by GO terms related to ubiquitin tagging and proteasome-mediated degradation (e.g., ubiquitin-dependent protein catabolic process, K48-linked ubiquitination, SCF-dependent degradation, ERAD). This suggests a core function in marking proteins for destruction by the proteasome. Some immune-related terms (adaptive immune response, V(D)J recombination) may reflect roles of ubiquitin pathways in immune signaling, but the overarching theme is ubiquitin-dependent proteolysis.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0070936","count":8},{"id":"GO:0051865","count":7},{"id":"GO:0031146","count":6},{"id":"GO:0002250","count":6}]},{"hash":"2231641707374500404","title":"Mitotic machinery and Golgi\u2013ER trafficking","description":"This cluster centers on proteins involved in cell division and mitosis, as indicated by strong signals for mitotic cell cycle and mitotic spindle assembly, while also including vesicle trafficking components (COPII budding and Golgi-to-ER transport). The presence of ribosome biogenesis and protein interaction terms suggests a broader role in cellular growth and assembly. The combination points to a cohesive theme around mitotic machinery with associated secretory pathway processes.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0090307","count":8},{"id":"GO:0006890","count":7},{"id":"GO:0042254","count":7},{"id":"GO:0043547","count":7}]},{"hash":"1657478501721944633","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032781","count":17},{"id":"GO:0070389","count":17},{"id":"GO:0006986","count":17},{"id":"GO:0046825","count":17},{"id":"GO:0006458","count":17}]},{"hash":"587491063260674315","title":"Neural development and receptor trafficking","description":"GO terms cluster around neural development (spinal cord development, brain development) and endocytosis/receptor internalization (GPCR internalization, clathrin-dependent endocytosis), with cell polarity maintenance and microtubule-based movement supporting neuronal architecture and trafficking.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021510","count":3},{"id":"GO:0007420","count":2},{"id":"GO:0002031","count":2},{"id":"GO:0030011","count":2},{"id":"GO:0072583","count":2}]},{"hash":"1925084342971590210","title":"Unknown","description":"GO terms span hepatocyte apoptosis, cardiac development, glial and Schwann cell differentiation, keratinocyte migration/keratinization, and axon-neuron structural assembly across unrelated tissues, offering no unifying function.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":8},{"id":"GO:0055015","count":6},{"id":"GO:0060020","count":6},{"id":"GO:0072201","count":5},{"id":"GO:0031133","count":5}]},{"hash":"302514136272638013","title":"Developmental Regulation and Stress Responses","description":"The cluster\u2019s top GO terms are dominated by development-related processes (neural tube closure, skeletal system development, multicellular organism development) and transcriptional control (DNA-templated transcription), with additional signals for cellular stress (ER stress-induced apoptosis, cadmium ion response) and immune defense, suggesting a set of genes involved in development with broader regulatory and stress-response roles.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":9},{"id":"GO:0070059","count":8},{"id":"GO:0071276","count":8},{"id":"GO:0007275","count":8},{"id":"GO:0001403","count":8}]},{"hash":"1934214655848364985","title":"Eye and Neural Development","description":"Based on the top GO terms, the cluster centers on development of neural and ocular tissues, with emphasis on midbrain and eye morphogenesis, motor neuron guidance, and related brain regions (hypothalamus, pituitary). The presence of transcriptional regulation terms likely reflects gene expression control during these developmental processes, supporting a coherent neural/eye development theme.","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0006366","count":10},{"id":"GO:0030901","count":9},{"id":"GO:0043010","count":9},{"id":"GO:0008045","count":9}]},{"hash":"1369289609764518086","title":"Cytoskeletal remodeling and adhesion signaling","description":"This cluster is dominated by GO terms for Rho-regulated cytoskeleton dynamics (filopodium and podosome assembly), and integrin-mediated signaling, which points to cytoskeletal remodeling and cell-matrix adhesion signaling. Additional terms about TGF-beta responses, synaptic plasticity, and organ morphogenesis fit within a broad context of development and neural remodeling, but the strongest signal remains cytoskeletal dynamics and adhesion pathways. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0035023","count":8},{"id":"GO:0046847","count":7},{"id":"GO:0071320","count":7},{"id":"GO:0071800","count":6},{"id":"GO:0070830","count":6}]},{"hash":"2292076929659311332","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0051569","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0034976","count":2},{"id":"GO:0045087","count":2}]},{"hash":"2302158092880162974","title":"Neural and epidermal differentiation","description":"This cluster shows enrichment for neural/glial-related terms (regulation of axon diameter, neurofilament bundle assembly, Bergmann glial cell differentiation, Schwann cell proliferation) and epidermal keratinocyte processes (keratinocyte migration, keratinization), suggesting a common theme of lineage-specific differentiation across neural-support and skin tissues. Some outliers (hepatocyte apoptotic process, cardiac development) are less coherent with this theme, but the dominant signal points to differentiation in neural/glial and epidermal lineages.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":7},{"id":"GO:0072201","count":6},{"id":"GO:0031133","count":6},{"id":"GO:0051546","count":6},{"id":"GO:0031424","count":6}]},{"hash":"439511305602022414","title":"Ubiquitin-Dependent Proteolysis and Signaling","description":"The top GO terms point to protein turnover via ubiquitin-dependent degradation, paired with diverse signaling and regulatory processes (Wnt signaling, GPCR-related signaling, cell growth and migration, response to mechanical stimuli, vitamin D response, and even cardiac action potential regulation). This suggests a cluster centered on regulated proteolysis alongside broad signal transduction and cellular response mechanisms, rather than a single specific pathway, hence the combined label.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0000083","count":5},{"id":"GO:0033280","count":5},{"id":"GO:0098907","count":5},{"id":"GO:0071260","count":5}]},{"hash":"481005244597501092","title":"Regulatory signaling and trafficking","description":"The top GO terms point to regulatory roles across multiple processes: positive regulation of gene expression, signaling (GTPase activity, tyrosine phosphorylation), immune response to lipopolysaccharide, and intracellular transport between the Golgi and plasma membrane, plus effects on podosome formation and epithelial proliferation. Together these suggest a cluster of proteins that coordinate signaling, cytoskeletal dynamics, and intracellular trafficking rather than a single, specific function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010628","count":3},{"id":"GO:0071222","count":3},{"id":"GO:0006893","count":2},{"id":"GO:0045187","count":2},{"id":"GO:0071803","count":2}]},{"hash":"1401876468655210625","title":"Unknown","description":"The top GO terms are highly diverse: translation, apoptosis regulation, DNA binding regulation, deubiquitination, vestibular reflex and semicircular canal morphogenesis, plus immune signaling terms. There is no single cohesive function or pathway linking these terms, so a specific functional label isn\u2019t supported.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0042981","count":2},{"id":"GO:0043392","count":2},{"id":"GO:0016579","count":2},{"id":"GO:0060005","count":2}]},{"hash":"1947838610879841995","title":"Vertebrate Development and Immune Signaling","description":"This cluster shows a mix of developmental processes (midbrain development, multicellular organism growth, biomineral tissue development) and immune/defense activities (complement activation, defense response to Gram-positive bacteria, response to lipopolysaccharide), with supporting signals like Wnt pathway and transcription regulation. The combination suggests a set of vertebrate proteins involved in signaling that coordinate development with immune responses, rather than a single tightly cohesive pathway.","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":10},{"id":"GO:0030901","count":9},{"id":"GO:0032496","count":7},{"id":"GO:0016055","count":7},{"id":"GO:0030194","count":7}]},{"hash":"1495458755474514301","title":"Immune Cell Differentiation","description":"The top GO terms point to differentiation of neutrophils, macrophages, and regulatory T cells, suggesting these proteins function in immune cell lineage commitment. While there are a few developmental terms present, the immune differentiation annotations are the clearest and most represented, with supporting signaling context via negative regulation of JNK. Thus, the cluster is best described as immune cell differentiation, capturing the core shared function of the proteins.","confidence":"Medium","size":17,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":1},{"id":"GO:0051225","count":1},{"id":"GO:0030902","count":1},{"id":"GO:0046329","count":1},{"id":"GO:0030223","count":1}]},{"hash":"450815802001129560","title":"Unknown","description":"The terms are scattered across neural, cytoskeletal, developmental, immune, and lifespan processes with no single dominant theme linking the cluster, so a cohesive label cannot be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060134","count":4},{"id":"GO:0006915","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0007568","count":3},{"id":"GO:0008584","count":3}]},{"hash":"252598219302128087","title":"Actin-driven immune cell migration and signaling","description":"The top GO terms indicate strong representation of actin cytoskeleton dynamics (actin regulation, lamellipodium assembly, endosome organization) and cell migration, along with immune signaling (T cell activation via TCR-MHC and antigen receptor\u2013mediated signaling). This suggests a cohesive module where cytoskeletal remodeling enables immune receptor signaling and immune cell movement. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0016477","count":4},{"id":"GO:0032956","count":4},{"id":"GO:0007032","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0038083","count":3}]},{"hash":"1250697530452064284","title":"Neural development and synaptic signaling influencing behavior","description":"Based on the GO terms, this cluster centers on neural development, synaptic transmission, and behavior, with links to social and vocalization behaviors, neural tube closure, and cochlea morphogenesis. Peripheral terms like bicarbonate transport and ubiquitin-dependent ERAD are present but do not obscure the main theme of neural signaling and development driving behavioral traits.","confidence":"High","size":17,"edges":22,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:2000463","count":2},{"id":"GO:0035176","count":2},{"id":"GO:0007268","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0071625","count":2}]},{"hash":"2182676715980441172","title":"Brain and Eye Development","description":"The top GO terms cluster around neural and eye morphogenesis, including metencephalon and rhombomere 5 development, brain segmentation, and embryonic eye morphogenesis, with additional transcription regulation by RNA polymerase II. This suggests a coherent program governing neural/eye formation and broader brain development, so the name \"Brain and Eye Development\" captures the core theme.","confidence":"High","size":17,"edges":111,"triangles":375,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":5},{"id":"GO:0022037","count":5},{"id":"GO:0043010","count":5},{"id":"GO:0048706","count":5},{"id":"GO:0048048","count":5}]},{"hash":"87460296376631090","title":"Tissue Development and ECM/Coagulation","description":"The cluster\u2019s terms center on tissue differentiation and development (endodermal differentiation, inner ear development, biomineral tissue development) and extracellular matrix/coagulation processes (collagen catabolic process, blood coagulation, establishment of endothelial barrier). This suggests proteins involved in developmental programs coupled with ECM remodeling and vascular-related functions. Some terms like complement activation or transcriptional regulation may be broader regulatory context, but the dominant theme is developmental tissue formation linked to ECM and coagulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0035987","count":3},{"id":"GO:0045599","count":3},{"id":"GO:0048839","count":3},{"id":"GO:0031214","count":3}]},{"hash":"209432381973980512","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms cluster around developmental processes such as EMT in heart cushion formation, cartilage morphogenesis, pancreas development, placental and trophoblast differentiation, left-right patterning, and endocrine system development, along with transcriptional regulation. Taken together, these terms point to broad roles in embryogenesis and tissue morphogenesis across multiple lineages, justifying a label focused on developmental biology.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":14},{"id":"GO:0000122","count":14},{"id":"GO:0060536","count":14},{"id":"GO:0003323","count":14},{"id":"GO:0060707","count":14}]},{"hash":"203564416874743348","title":"Embryonic development and morphogenesis","description":"The top GO terms cover diverse developmental and morphogenetic processes across multiple tissues (facial/craniofacial development, hair follicle and cartilage morphogenesis, left-right patterning, pancreatic endocrine development, EMT in heart cushion formation) plus general transcriptional regulation, suggesting the cluster represents broad roles in embryonic development and tissue differentiation rather than a single pathway.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0035270","count":4},{"id":"GO:0031069","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0060972","count":4}]},{"hash":"1141653792736786791","title":"Tight Junctions and Synaptic Signaling","description":"The top GO terms show a mix of epithelial junctions (tight/bicellular junctions, endothelial barrier, paranodal junction maintenance) and neural communication (synapse organization, chemical synaptic transmission, auditory hair cell organization), suggesting proteins that uphold cell\u2013cell barriers while supporting neural signaling and sensory functions.","confidence":"High","size":16,"edges":74,"triangles":143,"max_degree":14,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0090557","count":10},{"id":"GO:0071625","count":10},{"id":"GO:1990227","count":9},{"id":"GO:0003096","count":9},{"id":"GO:0070830","count":9}]},{"hash":"517989134252272054","title":"Cell signaling and polarity regulation","description":"The top GO terms highlight signaling activities (peptidyl-tyrosine autophosphorylation; Wnt signaling) and cell polarity (establishment of planar polarity; axonogenesis regulation), along with membrane trafficking processes (transcytosis; Golgi to plasma membrane transport). There are also neural development aspects (dendritic spine morphogenesis) and immune signaling components (B cell maturation; IL-4/IL-7 responses). This mix points to a cluster of proteins involved in signaling cascades and polarity control with roles across neural and immune contexts, supported by trafficking-related functions.","confidence":"Medium","size":16,"edges":41,"triangles":35,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038083","count":15},{"id":"GO:0002344","count":15},{"id":"GO:0042997","count":15},{"id":"GO:0060997","count":15},{"id":"GO:0045056","count":15}]},{"hash":"927113783129324186","title":"Chromatin remodeling and DNA damage response","description":"This cluster shows strong enrichment for chromatin-related processes (nucleosome assembly, chromatin remodeling, histone modification), along with DNA damage response and repair activities (nucleotide-excision repair, UV protection, SOS response). The presence of meiotic recombination regulation and spindle assembly hints at chromatin remodeling roles during cell division as well. Overall, the common theme is chromatin state regulation linked to genome integrity maintenance.","confidence":"High","size":16,"edges":15,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":4},{"id":"GO:0034720","count":4},{"id":"GO:0043044","count":3},{"id":"GO:0051573","count":3},{"id":"GO:0010520","count":3}]},{"hash":"453793208757863107","title":"Cdc42/Rac-driven actin remodeling and cell motility","description":"These terms cluster around small GTPase signaling (Cdc42, Rac, Rab) that regulates actin filament polymerization and structures such as pseudopodia and lamellipodia, driving cytoskeletal remodeling and cell movement. Additional terms point to GPCR signaling and ERK cascade, which often feed into motility and vesicle trafficking pathways. Overall, the dominant theme is actin cytoskeleton dynamics linked to cell motility.","confidence":"High","size":16,"edges":34,"triangles":10,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032488","count":13},{"id":"GO:0030838","count":13},{"id":"GO:0016601","count":13},{"id":"GO:0031274","count":13},{"id":"GO:0010592","count":13}]},{"hash":"1918298273100888945","title":"AMPA receptor clustering and synaptic plasticity","description":"The terms center on glutamatergic synapses and plasticity: dendritic spine morphogenesis, AMPA receptor clustering and activity, and regulation of long-term synaptic plasticity (LTP/LTD). Additional terms point to striatal neuron differentiation and vocalization behavior, indicating involvement of neuronal circuits and receptor-driven plastic changes. This suggests a cohesive cluster of AMPA receptor\u2013mediated synaptic remodeling and plasticity in neurons.","confidence":"High","size":16,"edges":19,"triangles":1,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060997","count":13},{"id":"GO:0050894","count":13},{"id":"GO:0048170","count":13},{"id":"GO:0097113","count":13},{"id":"GO:0021773","count":13}]},{"hash":"15265271563972556","title":"Neuronal synapse formation and signaling","description":"The terms cluster around synaptic organization and neuronal signaling: receptor clustering, dendritic spine morphogenesis, protein localization to the synapse, and Rho-mediated signaling all point to synapse assembly and actin remodeling. Additional terms about grooming behavior and paranodal junction maintenance reinforce a neural context. A single term on renal sodium transport may be an outlier. ","confidence":"High","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0043113","count":12},{"id":"GO:0060997","count":11},{"id":"GO:0008285","count":11},{"id":"GO:0007266","count":11},{"id":"GO:0035418","count":11}]},{"hash":"1409651375144494952","title":"Cytoplasmic Translation and Ribosome Biogenesis","description":"Dominant GO terms are all about protein synthesis, especially cytoplasmic translation, translational initiation/elongation, and ribosome biogenesis, plus selenocysteine incorporation. This points to a core function in the translation machinery and ribosome assembly. Some terms like response to antibiotic and glial cell proliferation are present but not central to the cluster's main theme.","confidence":"High","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0046677","count":6},{"id":"GO:0051301","count":4},{"id":"GO:0001514","count":4},{"id":"GO:2000767","count":4}]},{"hash":"1660603178144619709","title":"Tyrosine phosphatase\u2013regulated MAPK and synaptic signaling","description":"The GO terms show strong emphasis on negative regulation of signaling pathways (ERK/MAPK, PI3K/AKT, T cell receptor) and on tyrosine dephosphorylation, along with neuronal synaptic components (postsynaptic density, synaptic vesicle clustering). This pattern suggests a cluster enriched for protein tyrosine phosphatases that modulate MAPK signaling with roles in both neuronal synapses and immune signaling, and related apoptotic pathways.","confidence":"High","size":16,"edges":117,"triangles":521,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":9},{"id":"GO:0051895","count":9},{"id":"GO:0000200","count":9},{"id":"GO:1903984","count":9},{"id":"GO:0051898","count":9}]},{"hash":"1664680118582222876","title":"Neutrophil and mast cell activation cluster","description":"The top GO terms are dominated by innate immune processes such as neutrophil extravasation, neutrophil clearance, mast cell degranulation, antibody-dependent cellular cytotoxicity, and regulation of mast cell activation, indicating a clear theme of inflammatory leukocyte activation. Some terms about neuron projection and cuticle formation appear ancillary, but the central signal is immune/inflammatory signaling.","confidence":"Medium","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:2000391","count":13},{"id":"GO:0031175","count":13},{"id":"GO:0048675","count":13},{"id":"GO:0043303","count":13},{"id":"GO:0001788","count":13}]},{"hash":"1647870756652522894","title":"Unknown","description":"The top GO terms span gastric secretion, serotonin signaling, cardiac and smooth muscle function, gut development, immune cell movement and differentiation, calcium release, urine regulation, and temperature response, with no single unifying function. This heterogeneity prevents a confident, cohesive high-level label for the cluster.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":11},{"id":"GO:0007208","count":11},{"id":"GO:0055117","count":11},{"id":"GO:0007497","count":11},{"id":"GO:0048245","count":11}]},{"hash":"2216712024407804783","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003342","count":3},{"id":"GO:1904582","count":2},{"id":"GO:0071364","count":2},{"id":"GO:0038066","count":2},{"id":"GO:0048382","count":2}]},{"hash":"850791110367572583","title":"MAPK/ERK Regulation and Cerebellar Development","description":"This cluster is dominated by GO terms for negative regulation of ERK/MAPK signaling and dephosphorylation of tyrosine residues, pointing to phosphatase-mediated control of MAPK activity, along with neural development terms specific to the cerebellum (Bergmann glial differentiation, cerebellar cortex formation). The combination suggests a cohesive theme of signaling modulation linked to cerebellar development, with some supporting general signaling pathway terms (T cell and insulin signaling) that align with broader regulatory roles.","confidence":"High","size":16,"edges":99,"triangles":318,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0000200","count":7},{"id":"GO:0070373","count":7},{"id":"GO:0050860","count":7},{"id":"GO:0035335","count":7},{"id":"GO:0060020","count":6}]},{"hash":"1384936450272953644","title":"Cell cycle and embryonic development","description":"The cluster\u2019s top GO terms strongly center on cell cycle processes (mitotic DNA replication, chromosome segregation, APC-dependent catabolic processes, Okazaki fragment processing) and development (embryonic organ development, adaxial/abaxial patterning), with cilium assembly also tying into developmental signaling. This suggests a cohesive theme around fundamental cell division coupled with developmental programs. ","confidence":"High","size":16,"edges":51,"triangles":63,"max_degree":14,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0060271","count":5},{"id":"GO:2000011","count":4},{"id":"GO:0031930","count":4},{"id":"GO:0045143","count":4},{"id":"GO:0034349","count":4}]},{"hash":"168213171269127390","title":"ER-Golgi trafficking and ribosome biogenesis","description":"The cluster shows strong representation of vesicle transport between the endoplasmic reticulum and Golgi (ER-Golgi, Golgi-ER), plus ribosome biogenesis and rRNA maturation, indicating a growth-related core that coordinates protein synthesis with secretory pathway flux. Additional terms for TORC1 signaling, actin nucleation via Arp2/3, and mRNA transport support a broader cell-growth module tied to cytoskeletal dynamics and translational capacity.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0070262","count":5},{"id":"GO:0051028","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0038202","count":5},{"id":"GO:0006890","count":4}]},{"hash":"1652939484170760480","title":"Amino acid and small molecule transport","description":"This cluster is dominated by GO terms for membrane transport of amino acids and small molecules (arginine, ornithine, leucine, carnitine, GABA, ammonium) and associated osmotic/volume regulation processes, suggesting a transport-centric functional group rather than a signaling pathway.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006527","count":2},{"id":"GO:1902274","count":2},{"id":"GO:0006884","count":2},{"id":"GO:0015812","count":2},{"id":"GO:0002537","count":2}]},{"hash":"302617387572165868","title":"Translation and ribosome biogenesis","description":"The cluster is enriched for cytoplasmic translation, translation, and ribosomal large subunit biogenesis, pointing to proteins involved in protein synthesis and ribosome assembly. Protein phosphorylation suggests regulatory control over these processes, while antiviral/stress-related terms (e.g., interferon response) indicate modulation of translation under stress. Overall, the dominant theme is translation machinery with related regulatory signaling.","confidence":"High","size":16,"edges":11,"triangles":0,"max_degree":4,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006468","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0002181","count":3},{"id":"GO:0045071","count":3},{"id":"GO:0035455","count":3}]},{"hash":"1862161180198388883","title":"Heat-Stress Signaling and Protein Turnover","description":"The cluster shows enrichment for a heat-response (response to heat), ubiquitin-dependent protein catabolic process, and intracellular signal transduction, with supportive hints from calcium signaling and transcription factor regulation (NF-kappaB). While some terms like dendrite development and SNARE regulation are broader, the dominant signals point to stress-induced signaling and protein turnover, suggesting a cohesive theme around cellular stress response and regulatory control. Confidence: Medium","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":3},{"id":"GO:0009408","count":3},{"id":"GO:0032088","count":3},{"id":"GO:0006397","count":3},{"id":"GO:0035556","count":3}]},{"hash":"266487795344069896","title":"Immune synapse and cell\u2013cell adhesion","description":"The top terms cluster around immune cell interactions at contact points between cells: heterophilic adhesion, synapse assembly, actin cytoskeleton remodeling at cell\u2013cell interfaces, and regulation of NK and macrophage activity, along with complement activation and phagocytosis. This points to a theme of immune communication and modulation at intercellular junctions rather than a single enzymatic pathway.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":6},{"id":"GO:0043318","count":6},{"id":"GO:0086072","count":6},{"id":"GO:0051963","count":6},{"id":"GO:0090138","count":6}]},{"hash":"2224209068854016244","title":"Ribosome biogenesis and RNA processing","description":"This cluster is enriched for ribosome-related processes (ribosome biogenesis, large subunit biogenesis) and RNA maturation steps (rRNA processing and spliceosomal mRNA processing), suggesting a core function in RNA maturation and ribosome assembly. A few peripheral terms (mitochondria\u2013nucleus signaling, chromosome segregation, glial apoptotic process) are present but do not redefine the main theme.","confidence":"High","size":16,"edges":22,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0043984","count":2},{"id":"GO:0042273","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0000447","count":2}]},{"hash":"1265277104308069756","title":"Aminoacyl-tRNA Synthetases","description":"Top terms show multiple aminoacyl-tRNA synthetase activities (methionyl-, leucyl-, isoleucyl-, valyl-tRNA aminoacylation) and translation, pointing to a cluster of tRNA charging enzymes involved in protein synthesis; other terms are peripheral. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0061000","count":4},{"id":"GO:0050966","count":3},{"id":"GO:0006431","count":3},{"id":"GO:0006450","count":3},{"id":"GO:0006429","count":3}]},{"hash":"1146742533818639876","title":"Immune receptor signaling and endosomal trafficking","description":"The top terms are dominated by adaptive immune signaling (T cell activation via TCR\u2013MHC, antigen receptor\u2013mediated signaling, B cell affinity maturation) and endosome organization, pointing to proteins involved in immune recognition and receptor trafficking. Additional terms like regulation of Rho signaling support cytoskeletal changes for immune synapse formation. Some terms (sound perception, heart development) are peripheral, likely reflecting shared signaling components rather than a single cohesive function. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0097011","count":4},{"id":"GO:0007032","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0070493","count":4}]},{"hash":"1085451810656118561","title":"Neuronal Development and Synapse Assembly","description":"The top terms point to neuronal morphology and connectivity during embryogenesis (positive regulation of neuron projection development, positive regulation of synapse assembly, lamellipodium assembly, in utero embryonic development) with supporting roles for intracellular signaling and transcription. Apoptosis and DNA damage tolerance appear as broader developmental context but do not define a single cohesive function, so the central theme remains neuronal development and synapse formation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0001701","count":2},{"id":"GO:0010976","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0043046","count":2}]},{"hash":"2120948732665257978","title":"Embryonic morphogenesis and vascular development","description":"Most frequent GO terms point to developmental morphogenesis and tissue formation in embryos: eye morphogenesis, outflow tract morphogenesis, and vasculogenesis. Additional terms like Rho signaling and regulation of cell growth fit into the cellular remodeling and proliferation required during organogenesis. A few terms (snRNA transcription, antiviral defense) appear less central but can reflect broader regulatory roles in developing cells. Overall, the cluster seems to group proteins involved in embryonic morphogenesis and vascular development, with signaling and transcription components.","confidence":"High","size":16,"edges":28,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0030307","count":3},{"id":"GO:0042796","count":3},{"id":"GO:0042795","count":3},{"id":"GO:0007266","count":2},{"id":"GO:0043066","count":2}]},{"hash":"1674596438356599783","title":"Lymphocyte activation and cytokine signaling","description":"Based on GO terms, this cluster centers on activation and regulation of lymphocytes (B cells, NK T cells, T cells), with cytokine-related processes (IL-4 production, IL-7 response) and signaling pathway regulation (Ras, Rac, integrin). The terms cohere around adaptive immune activation and cytokine-mediated control.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0033623","count":9},{"id":"GO:0010572","count":9},{"id":"GO:0006924","count":9},{"id":"GO:0046580","count":8},{"id":"GO:0032633","count":8}]},{"hash":"928160956531058514","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042273","count":3},{"id":"GO:0060770","count":2},{"id":"GO:0007584","count":2},{"id":"GO:0071049","count":2},{"id":"GO:0071038","count":2}]},{"hash":"689364154120572606","title":"ER\u2013Golgi vesicle transport and COPII coating","description":"The top GO terms are strongly centered on ER-to-Golgi vesicle transport, intracellular transport, retrograde Golgi\u2013ER transport, and COPII vesicle coating, indicating a cohesive cluster of proteins involved in ER\u2013Golgi trafficking and COPII coat formation. Other terms like macroautophagy and actin-related processes may reflect broader roles in membrane dynamics, but the primary theme is ER\u2013Golgi transport and COPII assembly.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006888","count":7},{"id":"GO:0006886","count":4},{"id":"GO:0006890","count":4},{"id":"GO:0048208","count":3},{"id":"GO:0016236","count":3}]},{"hash":"2025462544568804618","title":"Rho/Rac Signaling and Neuronal Vesicle Trafficking","description":"This cluster centers on regulation of Rac and Rho GTPase signaling, implying actin remodeling and cytoskeletal control, and on vesicle trafficking processes such as synaptic vesicle budding and endosome-to-Golgi retrograde transport, with additional neural development and behavior terms (spinal cord development, adult locomotory behavior) suggesting a neural-specific functional theme; a few terms are peripheral (e.g., B cell homeostasis), but the core signals point to signaling and trafficking in neurons.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035020","count":3},{"id":"GO:1901998","count":3},{"id":"GO:0008344","count":3},{"id":"GO:0016185","count":3},{"id":"GO:0021510","count":3}]},{"hash":"2155488708724305136","title":"TLR-Mediated Interferon Response","description":"The dominant GO terms point to Toll-like receptor signaling and interferon production (alpha, beta, and type II), with both MyD88-dependent and MyD88-independent pathway regulation. Additional terms cover lipopolysaccharide signaling and phagocytosis, supporting an innate immune response module centered on TLR-driven interferon responses. A term on keratinocyte proliferation may be peripheral context, but overall the cluster reflects TLR-associated interferon signaling and phagocytic activity.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":4},{"id":"GO:0032728","count":3},{"id":"GO:0034127","count":2},{"id":"GO:0034124","count":2},{"id":"GO:0032727","count":2}]},{"hash":"797224129201908524","title":"Actin-Driven Development","description":"This cluster centers on actin filament organization and developmental processes (multicellular development and skin development), with supportive signals from positive regulation of GTPase activity that typically drive cytoskeletal remodeling and morphological changes. Other terms hint at related cellular fusion and invasive growth behaviors, aligning with a broader theme of cytoskeletal dynamics during development. Some terms are noted as obsolete, but the core pattern supports actin-mediated developmental remodeling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0001403","count":3},{"id":"GO:0007015","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0007568","count":2}]},{"hash":"298727586538334077","title":"Vesicle Trafficking and Membrane Targeting","description":"The cluster is dominated by GO terms describing vesicular transport between cytoplasm, vacuole, endosomes, lysosomes, Golgi, and ER, along with exocytosis docking and general protein targeting to membranes. This points to a coherent function group of intracellular vesicle trafficking and membrane targeting, with some terms relating to cell polarity and synaptic remodeling as downstream effects, supporting a representative theme.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032258","count":3},{"id":"GO:0008333","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0006904","count":3},{"id":"GO:2001205","count":2}]},{"hash":"1812039707337440896","title":"Synapse assembly and spine remodeling","description":"This cluster centers on synaptic formation and dendritic spine dynamics, with terms for glutamatergic transmission, synapse assembly, and neuron projection morphogenesis. It also shows cytoskeletal remodeling cues (Rho signaling, podosome/ruffle assembly) that underlie spine morphogenesis and synaptic contacts, with inflammatory cytokine responses (IL-1/IL-6) potentially modulating these processes.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051968","count":3},{"id":"GO:0050821","count":2},{"id":"GO:0071800","count":2},{"id":"GO:1902951","count":2},{"id":"GO:0007266","count":2}]},{"hash":"1161166917671004967","title":"Adaptive Immune Activation and Leukocyte Recruitment","description":"This cluster centers on immune system activity and leukocyte trafficking, with strong signals for adaptive immune response (GO:0002250), T cell proliferation (GO:0042102), chemokine production, monocyte extravasation, phagocytosis recognition, and classical complement activation. The presence of regulatory terms (negative regulation of cytokine production) supports a theme of coordinated immune signaling and cell movement at tissue barriers. Overall, the dominant theme is immune activation and leukocyte recruitment.","confidence":"High","size":16,"edges":15,"triangles":2,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0010765","count":12},{"id":"GO:0050755","count":10},{"id":"GO:0032712","count":10},{"id":"GO:0071656","count":10},{"id":"GO:0006958","count":10}]},{"hash":"1766389263985726765","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"These proteins are enriched for actin-driven processes: assembly of filopodia and lamellipodia, actin cytoskeleton organization, and regulation of integrin activation and Rho signaling, all converging on cell migration and adhesion-dependent spreading. The dominant motif is actin-mediated motility and cytoskeletal remodeling, supporting a high-confidence label for a motility-related cluster.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0046847","count":13},{"id":"GO:0033623","count":12},{"id":"GO:0033622","count":12},{"id":"GO:0035023","count":12},{"id":"GO:0016477","count":12}]},{"hash":"2153618363378874928","title":"Embryonic organogenesis","description":"The proteins are enriched for GO terms spanning embryonic development and organ morphogenesis across craniofacial (roof of mouth), cardiac (outflow tract), neural (midbrain), ocular (lens), endocrine (pituitary), limb (digits), and skeletal development, indicating a cohesive role in embryonic organogenesis. Confidence: High","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0003148","count":5},{"id":"GO:0006958","count":4},{"id":"GO:0035264","count":4}]},{"hash":"1274294398001957316","title":"Embryonic development and organogenesis","description":"The top GO terms cluster around developmental processes spanning endocrine system development, left/right patterning, organ-specific differentiation (pancreatic cells, trophoblasts, placenta, cartilage), and EMT in heart development, indicating a cohesive theme of embryogenesis and organ formation. A few terms on RNA processing and ribosome export appear as supporting cellular machinery but are secondary to the developmental focus.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":10},{"id":"GO:0060972","count":10},{"id":"GO:0003323","count":10},{"id":"GO:0003198","count":10},{"id":"GO:0060707","count":10}]},{"hash":"1313865327231817891","title":"Rho/Rac Signaling in Dendritic Spine Morphogenesis","description":"Most represented GO terms revolve around Rho/Rac GTPase signaling and neuronal synapse regulation\u2014specifically dendritic spine morphogenesis, synapse structural plasticity, and regulation of excitatory postsynaptic potential. This points to a core theme of cytoskeletal remodeling driving spine and synapse development and function. Additional terms on centrosome localization and broader morphogenesis suggest broader roles, but the dominant signal is spine-related neuronal regulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0098779","count":3},{"id":"GO:0061635","count":3},{"id":"GO:1904781","count":3},{"id":"GO:0035176","count":2}]},{"hash":"874985686554099018","title":"Mitochondrial Protein Import and Electron Transport","description":"This cluster centers on mitochondria: many proteins are linked to importing proteins into the mitochondrial matrix and inner membrane, and to electron transport and cytochrome c\u2013mediated apoptosis, indicating a cohesive mitochondrial import/metabolism/apoptosis module.","confidence":"High","size":16,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045039","count":2},{"id":"GO:0000002","count":2},{"id":"GO:0030150","count":2},{"id":"GO:0032094","count":2},{"id":"GO:0045037","count":2}]},{"hash":"168179872438140679","title":"Embryonic Mesodermal and Cardiovascular Morphogenesis","description":"The top GO terms cluster around mesoderm formation and morphogenesis of heart structures and vasculature (vasculogenesis, endocardial cushion morphogenesis, atrioventricular valve morphogenesis, mesoderm development). Other terms point to broader embryonic organogenesis (pancreatic development, palatal roof development, eye morphogenesis). A few entries relate to transcriptional/epigenetic regulation, which can accompany developmental processes. Overall, the proteins appear linked to embryonic tissue patterning and organ formation, particularly mesoderm-derived and cardiovascular tissues.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0003323","count":6},{"id":"GO:0060021","count":5},{"id":"GO:0001707","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0003181","count":4}]},{"hash":"210779088301037088","title":"Embryonic Development and Morphogenesis","description":"This cluster shows a strong enrichment for developmental processes across various tissues, including endocardial cushion EMT, cartilage morphogenesis, endocrine system development, left-right pattern formation, placenta/embryonic differentiation, pancreatic cell development, and trophoblast differentiation. While some terms reference general gene expression machinery (spliceosome, ribosomal export), the dominant theme is embryonic development and tissue morphogenesis.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":14},{"id":"GO:0060536","count":14},{"id":"GO:0003323","count":14},{"id":"GO:0060707","count":14},{"id":"GO:0000398","count":14}]},{"hash":"425713527360134477","title":"Oxidative stress and metabolic regulation","description":"This cluster clusters GO terms for gluconeogenesis regulation, response to glucose, ROS metabolism, and regulation of response to ROS, along with DNA damage signaling via p53, indicating a link between metabolic control and oxidative stress responses.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090526","count":3},{"id":"GO:0000187","count":2},{"id":"GO:0050910","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0030330","count":2}]},{"hash":"1081935552421274521","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":83,"triangles":250,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":15},{"id":"GO:1905608","count":14},{"id":"GO:0051036","count":14},{"id":"GO:0050709","count":14},{"id":"GO:1905869","count":14}]},{"hash":"707580434326450389","title":"Ribosome biogenesis and nuclear export","description":"The cluster shows strong enrichment for GO terms related to ribosome assembly and transport of ribosomal subunits from the nucleus (ribosome biogenesis; ribosomal subunit export). Additional signals about nuclear protein export and regulation of related processes support a theme around ribosome production and nucleocytoplasmic trafficking, with some ancillary terms that may reflect broader cellular context.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000055","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0000056","count":3},{"id":"GO:0030953","count":3}]},{"hash":"613127848582644829","title":"Spliceosome Regulation and mRNA Processing","description":"The top GO terms center on regulation of mRNA splicing via the spliceosome (including alternative splicing), mRNA export, and mRNA modification, plus related post-transcriptional control like stress-associated mRNA stability and regulatory ncRNA-mediated silencing. This cohesive set points to proteins involved in controlling spliceosome activity and downstream mRNA fate, rather than a metabolic or signaling pathway. Confidence in this labeling is High.","confidence":"","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":12},{"id":"GO:0031047","count":11},{"id":"GO:0048026","count":11},{"id":"GO:0000381","count":8},{"id":"GO:1905663","count":8}]},{"hash":"1567524652378207112","title":"RNA Processing and mRNA Decay Machinery","description":"The cluster is dominated by GO terms related to RNA maturation, including transcription termination by RNA polymerase II, mRNA splicing via the spliceosome, and multiple mRNA decay pathways (nonsense-mediated decay and nuclear mRNA decay), plus regulatory ncRNA-mediated gene silencing. A ribosome assembly term is present, but the core signal points to RNA processing and transcript surveillance/ turnover. Confidence: High","confidence":"","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006369","count":11},{"id":"GO:0048026","count":10},{"id":"GO:0000398","count":10},{"id":"GO:0031047","count":9},{"id":"GO:0006306","count":9}]},{"hash":"1873006823986382102","title":"Amino acid and small-molecule metabolism","description":"The dominant signals are amino-acid\u2013related processes (proline biosynthesis; GABA and putrescine catabolism; glutamate/lysine metabolism), with additional hints of retinal/retinol metabolism and broad small-molecule biosynthetic activity; overall, the cluster appears focused on amino acid and related metabolite turnover, though some terms are obsolete or broader in scope.","confidence":"Medium","size":15,"edges":79,"triangles":231,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0055129","count":4},{"id":"GO:0009450","count":4},{"id":"GO:0009447","count":4},{"id":"GO:0006537","count":4},{"id":"GO:0042574","count":4}]},{"hash":"570673717314144535","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0031124","count":14},{"id":"GO:0000466","count":14},{"id":"GO:0071038","count":14},{"id":"GO:0014070","count":14},{"id":"GO:0008306","count":14}]},{"hash":"1527119839333508199","title":"Immune cell activation and migration","description":"This cluster is dominated by GO terms tied to leukocyte activation and movement, including monocyte activation, neutrophil extravasation, thymocyte migration, and thymocyte apoptotic regulation, suggesting a theme of immune cell trafficking and signaling. A subset of terms relates to lipid metabolism or other processes, which may reflect background functions rather than core clustering signals. Overall, the immune cell trafficking theme best captures the commonalities among the terms.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":2},{"id":"GO:0006633","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0042117","count":2},{"id":"GO:0045780","count":2}]},{"hash":"700820294757120829","title":"Cross-tissue developmental regulation","description":"The cluster\u2019s top GO terms center on regulatory processes across diverse tissues\u2014developmental processes (pancreatic, neural fold, hair cycle, intestinal maturation, skeletal muscle differentiation) and broad transcriptional/regulatory control, including responses to drugs, xenobiotics, and hormonal signaling. This suggests a common theme of regulatory control over development and cellular responses across multiple tissues, rather than a single specific pathway.","confidence":"Medium","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0061419","count":15},{"id":"GO:0009410","count":15},{"id":"GO:2000074","count":15},{"id":"GO:0042634","count":15},{"id":"GO:2000323","count":15}]},{"hash":"1864589276123780673","title":"Immune signaling and epidermal differentiation","description":"This cluster is dominated by innate and adaptive immune terms (innate immune response, defense against Gram-positive bacteria, chemotaxis, T cell receptor signaling) and keratinocyte differentiation, pointing to an immune-epithelial module. Additional terms like Wnt signaling, apoptosis, and transcriptional regulation suggest broader regulatory roles, but the immune-epithelial theme appears most representative.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":8},{"id":"GO:0045087","count":8},{"id":"GO:0050830","count":8},{"id":"GO:0006351","count":8},{"id":"GO:0060044","count":7}]},{"hash":"2090232573448044137","title":"Immune signaling and angiogenesis","description":"The cluster shows strong representation of adaptive immune components (adaptive immune response, follicular B cell differentiation, response to fungal origin) together with angiogenesis and endothelial migration (angiogenesis, positive regulation of blood vessel endothelial cell migration). Signaling pathway terms (ERK cascade, Ras regulation, collagen-activated receptor signaling, PI3K-related term) suggest coordinated immune activation and vascular remodeling. This points to a functional module of immune signaling intertwined with angiogenic processes rather than a single isolated pathway.","confidence":"High","size":15,"edges":48,"triangles":68,"max_degree":11,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071226","count":13},{"id":"GO:0038063","count":12},{"id":"GO:0043536","count":11},{"id":"GO:0070374","count":11},{"id":"GO:0002250","count":11}]},{"hash":"1110676679311398671","title":"Ubiquitination in immune signaling","description":"The top GO terms center on ubiquitination (including K6-linked and histone ubiquitination) and immune signaling pathways (TNF, RIG-I), along with lymphocyte development signals (V(D)J recombination, thymic T cell proliferation). This points to a cohesive theme of ubiquitin-mediated regulation of immune responses and related developmental processes, despite some broader embryonic terms in the set.","confidence":"High","size":15,"edges":73,"triangles":163,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0085020","count":7},{"id":"GO:0001701","count":7},{"id":"GO:0090073","count":7},{"id":"GO:0033151","count":7},{"id":"GO:0042981","count":7}]},{"hash":"976729311267623068","title":"Neural development with extracellular matrix remodeling and innate immunity","description":"This cluster centers on neural development signals (positive regulation of synapse assembly, axonal fasciculation) and extracellular matrix remodeling (collagen fibril organization), with additional development terms (endodermal differentiation, multicellular organism development). The presence of innate immune terms (defense response to Gram-positive bacterium, cellular response to lipopolysaccharide, response to exogenous dsRNA, positive regulation of interferon-beta production) suggests concurrent immune signaling. Taken together, the proteins likely participate in neural development processes that interface with ECM dynamics and neuroimmune responses, making this a coherent \u201cneural development + ECM + innate immunity\u201d cluster.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051965","count":5},{"id":"GO:0030199","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0071222","count":5},{"id":"GO:0014068","count":4}]},{"hash":"1438857364434678333","title":"Mitochondrial translation and Fe-S cluster biogenesis","description":"The cluster shows strong signals for mitochondrial translation and ribosome-related processes (translation, ribosomal subunit assembly, translational fidelity) alongside iron-sulfur cluster biology (iron ion homeostasis, Fe-S cluster transfer/assembly) and respiration/ATP synthesis, indicating a cohesive module linking mitochondrial protein synthesis with Fe-S biogenesis and electron transport.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0006879","count":1},{"id":"GO:0097428","count":1},{"id":"GO:0016226","count":1},{"id":"GO:0009399","count":1}]},{"hash":"1184381589868371787","title":"Transmembrane Nutrient and Ion Transport","description":"The top GO terms are dominated by transmembrane transport activities for a variety of substrates, including vitamins, xenobiotics, ions (potassium, phosphate, nitrite), urate, and sugars (trehalose). This points to a cluster of membrane transporters with broad substrate specificity, potentially coupled to nutrient uptake and xenobiotic handling. The metabolic context (glucose starvation response, lactose biosynthesis) further supports a transport/metabolism connection. ","confidence":"High","size":15,"edges":87,"triangles":256,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":15},{"id":"GO:0006855","count":15},{"id":"GO:0042908","count":14},{"id":"GO:0071805","count":14},{"id":"GO:0015747","count":13}]},{"hash":"1576069289828481295","title":"Inflammation and vascular remodeling","description":"This cluster is driven by GO terms related to innate immune responses (response to lipopolysaccharide, IL-8 production regulation) and vascular processes (angiogenesis, leukocyte tethering, fibrinolysis), suggesting a theme of inflammation-associated vascular remodeling. Some development terms appear but are secondary to the immune-angiogenesis signals.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0030901","count":6},{"id":"GO:0032496","count":5},{"id":"GO:0055123","count":5},{"id":"GO:0045415","count":4}]},{"hash":"207277540594515126","title":"Immune activation and antigen presentation","description":"This cluster is enriched for both innate and adaptive immune processes: B cell receptor signaling and activation, phagocytosis and its recognition, complement activation, and T cell\u2013mediated cytotoxicity, plus antigen processing and presentation via MHC class I. Together, these terms indicate a cohesive module of immune activation and antigen presentation, with a potential noise term related to bitter taste detection.","confidence":"High","size":15,"edges":74,"triangles":159,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0006958","count":9},{"id":"GO:0006911","count":9},{"id":"GO:0050871","count":9}]},{"hash":"896297983342065039","title":"Multisystem signaling and contraction","description":"Top GO terms span serotonin-PLC signaling, calcium release, and contraction of cardiac and smooth muscles, plus regulatory processes for urine volume and gastric acid secretion. They also include development and immune-related terms and a temperature response, indicating broad systemic signaling across tissues rather than a single pathway. This supports a label of Multisystem signaling and contraction.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035810","count":11},{"id":"GO:0001697","count":10},{"id":"GO:0007208","count":10},{"id":"GO:0055117","count":10},{"id":"GO:0007497","count":10}]},{"hash":"243120376555557061","title":"Mammary Lipid and Hormone Metabolism","description":"Top terms cluster around lipid metabolism and steroid hormone biosynthesis (prostaglandin, cholesterol, triglyceride, cortisol), vitamin D response, and P450 omega-hydroxylation, with links to mammary gland development and parturition. This suggests a cohesive theme of lipid- and hormone-related pathways active in mammary/reproductive biology.","confidence":"High","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":6},{"id":"GO:0033280","count":6},{"id":"GO:0070989","count":5},{"id":"GO:0060137","count":5},{"id":"GO:0030879","count":5}]},{"hash":"1612237478584678134","title":"Ribosome biogenesis and translation","description":"The top GO terms are centered on translation and ribosome assembly/biogenesis (translation, ribosomal large subunit biogenesis, maturation of SSU-rRNA, ribosomal subunit assembly), indicating proteins involved in ribosome production and protein synthesis. A few DNA damage response terms appear but are secondary to the dominant ribosome/translation theme.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":15},{"id":"GO:0000027","count":5},{"id":"GO:0006415","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0045727","count":2}]},{"hash":"1880201789171315932","title":"Post-transcriptional RNA processing and export","description":"Top terms show heavy enrichment for mRNA splicing regulation, polyadenylation, mRNA modification, and nuclear export, with supporting signals from translation initiation and ncRNA-mediated gene silencing. This pattern suggests a cohesive group of proteins involved in post-transcriptional RNA maturation and control, rather than transcriptional regulation or protein degradation. Therefore, the label Post-transcriptional RNA processing and export captures the cluster's shared function.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1900363","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0048026","count":8},{"id":"GO:0002188","count":8},{"id":"GO:0001731","count":8}]},{"hash":"435196720743898128","title":"Ribosome Biogenesis and Translation","description":"This cluster is strongly enriched for ribosome-related processes: ribosome biogenesis, ribosomal subunit biogenesis, cytoplasmic translation, and tRNA modification, plus export of ribosomal large subunits from the nucleus. The inclusion of cell cycle and cell septum assembly terms suggests coordination between growth, ribosome production, and division. While a couple of terms relate to stress responses, the dominant theme is ribosome assembly and protein synthesis, making this label representative. ","confidence":"High","size":15,"edges":20,"triangles":2,"max_degree":6,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0042254","count":12},{"id":"GO:0006400","count":12},{"id":"GO:0002181","count":12},{"id":"GO:0007049","count":12},{"id":"GO:0042274","count":12}]},{"hash":"1771747838049474860","title":"Cardiac contraction and calcium signaling","description":"The cluster is dominated by GO terms related to cardiac muscle contraction, calcium ion dynamics, and adrenergic signaling (epinephrine response, adenylate cyclase activation, calcium detection, left ventricular morphogenesis), pointing to proteins involved in calcium-regulated cardiac function. Some terms like axonogenesis or visual perception may be incidental or broader annotations, but the core theme centers on heart muscle contraction and calcium signaling. ","confidence":"Medium","size":15,"edges":21,"triangles":1,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0098735","count":8},{"id":"GO:0010881","count":8},{"id":"GO:0048741","count":8},{"id":"GO:0005513","count":8},{"id":"GO:0007409","count":7}]},{"hash":"67560772806530336","title":"Systemic stimulus-response signaling","description":"The GO terms point to a broad set of physiological responses to stimuli (temperature, pain, histamine), alongside GPCR signaling, sensory perception, and basic energy/metabolic processes. This suggests a general, systemic signaling/theme rather than a single, cohesive pathway, so the label reflects the cluster\u2019s diverse but related functions.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":7},{"id":"GO:0010579","count":7},{"id":"GO:0022900","count":7},{"id":"GO:0045777","count":7},{"id":"GO:0007596","count":7}]},{"hash":"1859357334091079722","title":"Innate and Humoral Immune Response with Autophagy","description":"The terms show a strong emphasis on innate immune signaling (innate immune response, RIG-I pathway), antibacterial/humoral defenses (defense against Gram-positive bacteria, antibacterial humoral response, B cell receptor signaling), and autophagy, suggesting a cohesive cluster of immune defense functions with autophagic involvement. The B cell term is present but less dominant, so the label highlights both innate and humoral aspects plus autophagy.","confidence":"High","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0050853","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0019731","count":4},{"id":"GO:0033280","count":4}]},{"hash":"1978365599713022097","title":"Cellular stress response","description":"Most of the top GO terms describe responses to stress and damage (response to hypoxia, response to toxic substance, cellular response to hydrogen peroxide) and apoptosis, pointing to a shared role in coping with cellular stress. A few terms (protein heterooligomerization, insulin stimulus, phosphate transport, eye development, sperm binding) are more general or context-specific annotations and may reflect multifunctional proteins or annotation noise, but the dominant signal is stress response.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001666","count":5},{"id":"GO:0009636","count":4},{"id":"GO:0070301","count":4},{"id":"GO:0051291","count":4},{"id":"GO:0007339","count":3}]},{"hash":"1111928852893710676","title":"Adipogenesis and metabolic signaling","description":"The cluster is enriched for fat cell differentiation, regulation of insulin signaling, and glucose metabolism, pointing to adipocyte development and energy homeostasis. The coexistence of negative regulation of TLR4 signaling and lysosomal enzyme secretion regulation suggests immune-metabolic interactions typical of adipose tissue. This combination supports a theme of adipogenesis coupled with metabolic control.","confidence":"High","size":15,"edges":30,"triangles":23,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045444","count":7},{"id":"GO:2000253","count":5},{"id":"GO:0034144","count":5},{"id":"GO:0072369","count":5},{"id":"GO:0090341","count":5}]},{"hash":"1956528047980302916","title":"Developmental morphogenesis and cell migration","description":"The GO terms point to embryonic development and morphogenesis across multiple tissues, including heart (mitral valve morphogenesis, endocardial cushion EMT), neural crest migration and axon guidance, limb development, lymphatic vessel development, and axis specification. The presence of miRNA transcription regulation and extrinsic apoptotic signaling aligns with developmental gene regulation and cell fate decisions. Together, they suggest a cohesive theme of developmental patterning and tissue formation rather than a single molecular function.","confidence":"High","size":15,"edges":14,"triangles":1,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0001945","count":3},{"id":"GO:0031290","count":3},{"id":"GO:0001755","count":3},{"id":"GO:0003183","count":3},{"id":"GO:0008358","count":2}]},{"hash":"108495092476842857","title":"Vascular signaling and blood pressure regulation","description":"The cluster\u2019s top GO terms cluster around cardiovascular control: positive regulation of blood pressure, vasoconstriction, smooth muscle contraction, and GPCR-mediated adenylate cyclase signaling, all pointing to vascular tone and hemodynamics, with coagulation also appearing as related hemostatic processes. A few outliers (electronic transport, visual learning, LPS response) may be noise, but the dominant pattern fits vascular signaling and blood pressure regulation.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":9},{"id":"GO:0010579","count":9},{"id":"GO:0022900","count":9},{"id":"GO:0008542","count":8},{"id":"GO:0040015","count":8}]},{"hash":"1901462364237234790","title":"Calcium-Driven Signaling Across Physiological Systems","description":"This cluster centers on GO terms for release of sequestered calcium into cytosol (calcium signaling) and includes a range of calcium-dependent physiological processes across tissues (thermogenesis, phototransduction, pain perception, coagulation, gastric secretion, PLC signaling, cardiac contraction). The common theme is calcium-mediated signaling across diverse systems, making this label representative.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051281","count":9},{"id":"GO:0051209","count":8},{"id":"GO:0071502","count":8},{"id":"GO:0002024","count":8},{"id":"GO:0007603","count":8}]},{"hash":"317172117821291411","title":"Inflammation and vascular signaling","description":"The top GO terms show inflammatory responses (inflammatory response, response to lipopolysaccharide, pain perception) together with vascular regulation (vasoconstriction, blood coagulation, regulation of smooth muscle contraction) and GPCR-mediated signaling (serotonin receptor pathway via phospholipase C). This points to immune-vascular crosstalk where inflammatory mediators influence vascular tone and coagulation. Some terms (like appetite regulation) may be secondary or noise, but the core theme is inflammation linked to vascular responses. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045907","count":10},{"id":"GO:0032496","count":10},{"id":"GO:0050728","count":10},{"id":"GO:0007596","count":10},{"id":"GO:0032100","count":10}]},{"hash":"398704763404005884","title":"Ubiquitination-Driven Protein Degradation and TNF Signaling","description":"The cluster is dominated by GO terms for ubiquitin-dependent protein catabolic processes, ERAD-related degradation, and specific ubiquitin linkages (K48, K6), along with positive regulation of TNF-mediated signaling and apoptosis, pointing to a cohesive theme of ubiquitin\u2011proteasome\u2013mediated protein turnover linked to TNF signaling.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:1903265","count":9},{"id":"GO:0051865","count":9},{"id":"GO:0030433","count":8},{"id":"GO:0070936","count":8}]},{"hash":"257328542249174584","title":"Synaptic signaling with local translation","description":"This cluster combines terms tied to synaptic signaling and plasticity (regulation of NMDA receptor activity, ephrin signaling regulation, and regulation of synaptic plasticity by receptor localization to the synapse) with those about local protein synthesis (translation and translational initiation) and cytoskeletal remodeling (actin filament bundle assembly), plus inflammatory cues (IL-6 and TNF responses). Together, these lines of GO terms suggest a theme of neurons modulating synaptic strength via local translation and receptor signaling, supported by actin dynamics.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006413","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0006412","count":2},{"id":"GO:1901187","count":2},{"id":"GO:1900383","count":2}]},{"hash":"1299635816135832952","title":"Synapse assembly and actin cytoskeleton remodeling","description":"These proteins are united by processes that build and reorganize synaptic and motile structures. The top GO terms emphasize assembly of synapses, lamellipodia, and podosomes, along with regulation of Rho-mediated signaling, which drive actin remodeling essential for neurite outgrowth and spine formation. While a few terms touch on translation initiation or developmental signaling, the dominant theme is assembly/remodeling of cytoskeletal and synaptic structures.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007416","count":3},{"id":"GO:1903679","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0042993","count":3},{"id":"GO:0035023","count":3}]},{"hash":"1627335758051057272","title":"Mitochondrial lipid metabolism and membrane organization","description":"The top GO terms cluster around mitochondrial membranes and lipid regulation, notably inner mitochondrial membrane organization, cardiolipin metabolic process, cholesterol biosynthesis regulation, and SREBP signaling, which together point to maintenance of mitochondrial membrane composition and lipid homeostasis. A few terms related to neuronal signaling and immune activity appear, but the dominant signal supports a mitochondrial lipid/membrane-focused function for this protein group.","confidence":"High","size":15,"edges":37,"triangles":39,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:2000049","count":5},{"id":"GO:0032226","count":5},{"id":"GO:0007588","count":5},{"id":"GO:0001302","count":5},{"id":"GO:0045541","count":5}]},{"hash":"796945846447029047","title":"Ribosome Biogenesis and Cell Division","description":"The cluster is dominated by GO terms for ribosome biogenesis, translation initiation/reinitiation, and tRNA modification, with multiple terms related to cell cycle and septum formation, suggesting proteins tied to protein synthesis and cell division coordination. A few terms hint at broader growth responses, but the core signal points to translational machinery linked to cell proliferation.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000747","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0006400","count":3}]},{"hash":"2300190733773921635","title":"Golgi vesicle trafficking and SNARE-mediated exocytosis","description":"Top GO terms indicate ER-to-Golgi and intra-Golgi vesicle transport, Golgi ribbon formation, and SNARE complex assembly, pointing to vesicle trafficking and membrane fusion. Additional terms about exocytic insertion of neurotransmitter receptors and synaptic potentiation tie the cluster to neuronal vesicle cycling at the synapse. This combination supports a cohesive role in Golgi-based trafficking and SNARE-driven exocytosis with a neuronal signaling facet.","confidence":"High","size":15,"edges":63,"triangles":134,"max_degree":14,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0048280","count":15},{"id":"GO:0006888","count":15},{"id":"GO:0090161","count":15},{"id":"GO:0006891","count":15},{"id":"GO:0006896","count":14}]},{"hash":"1496560468761131903","title":"Ribosome Biogenesis and rRNA Maturation","description":"The Top Terms are dominated by ribosome-related processes: ribosome biogenesis, large subunit assembly, and maturation of LSU/SSU rRNA, plus rRNA methylation and preribosome/large subunit precursor assembly. These convergent terms suggest a cluster of proteins involved in ribosome assembly and rRNA processing. An outlier term (neural tube closure) is present but does not fit the main theme. Overall, the cluster represents ribosome biogenesis and rRNA maturation functions.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030488","count":2},{"id":"GO:0031591","count":1},{"id":"GO:0000466","count":1},{"id":"GO:0000055","count":1},{"id":"GO:1902626","count":1}]},{"hash":"2240580607482899152","title":"Innate immune defense and coagulation","description":"The top GO terms center on complement activation (classical and lectin pathways), defense against bacteria (Gram-positive, LPS response), and blood coagulation, pointing to an inflammation/immune-coagulation theme. While there are additional terms like Wnt signaling and collagen catabolic process, the core pattern is innate immune defense coupled with coagulation.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0044130","count":3},{"id":"GO:0050830","count":3}]},{"hash":"1527290169570447496","title":"Inflammation-driven immune cell chemotaxis and wound angiogenesis","description":"This cluster centers on immune cell recruitment (mast cells, eosinophils, T cells), inflammatory response, collagen biosynthesis, and angiogenesis in wound healing, with motifs of cell motility (ruffle organization). The common theme is inflammation coordinating leukocyte trafficking and tissue repair.","confidence":"High","size":15,"edges":94,"triangles":329,"max_degree":14,"top_function":"wound healing","top_go_terms":[{"id":"GO:0050729","count":15},{"id":"GO:0014068","count":15},{"id":"GO:0032967","count":15},{"id":"GO:0002551","count":15},{"id":"GO:0060055","count":15}]},{"hash":"667623343134242716","title":"Leukocyte adhesion and adaptive immunity","description":"This cluster shows several immune-related terms: heterophilic cell-cell adhesion, monocyte extravasation, chemokine production, phagocytosis recognition, complement activation, and adaptive immune response including T cell proliferation. The combination suggests proteins involved in leukocyte recruitment, adhesion to endothelium, and activation of adaptive immunity, hence a cohesive theme around immune cell interaction and response.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":5},{"id":"GO:0006958","count":4},{"id":"GO:0006910","count":4},{"id":"GO:0050755","count":3},{"id":"GO:0032712","count":3}]},{"hash":"2077375200930095099","title":"Phospholipid metabolism and signaling","description":"The top GO terms cluster around phospholipid biosynthesis, remodeling, and related lipid mediators (phosphatidylcholine, ether lipids, platelet activating factor), pointing to a cohesive phospholipid metabolism and signaling theme. Immune-related terms such as IL-2 production and regulation of T cell survival align with lipid-mediated signaling pathways, while mitochondrial ATP synthesis suggests the energy context for lipid processes. Some terms appear broader or cross-kingdom, but the lipid-related signals dominate the functional signal of this cluster.","confidence":"Medium","size":15,"edges":41,"triangles":60,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:2001246","count":7},{"id":"GO:0021587","count":7},{"id":"GO:0036151","count":7},{"id":"GO:0002071","count":7},{"id":"GO:0010143","count":7}]},{"hash":"2121554356280249125","title":"Auditory Ion Transport and Membrane Potential","description":"This cluster is dominated by GO terms for sodium and potassium ion transport, transmembrane transport, and membrane depolarization, along with terms tying to sound detection and sensory perception of hearing. The recurring theme is ion-channel\u2013driven control of membrane potential that underpins auditory transduction and neuronal signaling, suggesting these proteins collectively support hearing-related ion homeostasis and excitability.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000649","count":4},{"id":"GO:0060079","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0051899","count":3}]},{"hash":"867094559538535145","title":"Spermatogenesis and chromatin remodeling","description":"The top GO terms emphasize germ-cell development, including spermatid nucleus differentiation and transcriptional regulation in spermatogenesis, along with chromatin remodeling processes like nucleosome assembly and epigenetic regulation. Although a few terms touch broader development (organ and placenta morphogenesis), the predominant signal is spermatogenesis linked with chromatin control.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902064","count":3},{"id":"GO:0005978","count":2},{"id":"GO:0006011","count":2},{"id":"GO:0006048","count":2},{"id":"GO:0010216","count":2}]},{"hash":"817681978275540086","title":"Ubiquitin-Dependent Protein Degradation","description":"The cluster is dominated by GO terms for ubiquitin-mediated proteolysis and polyubiquitination, including SCF-dependent proteasomal ubiquitin\u2011dependent catabolic processes, indicating a core role in the ubiquitin-proteasome system. Additional terms point to broader regulatory functions (transcription repression, apoptosis/necroptosis regulation, circadian rhythm, cadmium response, synapse assembly), suggesting these proteins act as proteostasis-linked regulators across multiple pathways. Overall, the common theme is ubiquitin-dependent protein degradation and proteostasis with regulatory implications.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0000209","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0043066","count":3},{"id":"GO:0031146","count":2}]},{"hash":"1029619989889968125","title":"Neural synapse development and plasticity","description":"Most terms center on neuronal synapse development and function (dendritic spine morphogenesis, excitatory postsynaptic potential, LTD) and behaviors (social and vocalization), suggesting a neural connectivity theme. A few terms relate to general cell biology or barriers (Golgi/centrosome localization, tight junctions, endothelial barrier), which introduces some non-neuronal context.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051683","count":5},{"id":"GO:0051660","count":5},{"id":"GO:1903760","count":5},{"id":"GO:2000463","count":5},{"id":"GO:0070830","count":5}]},{"hash":"793439332682418798","title":"Splicing and cell-cycle regulation","description":"The cluster is driven by RNA processing (spliceosome-mediated splicing and branch-site recognition) and transcription-related terms, together with APC/C-dependent chromosome segregation and mitotic processes, indicating a module linking RNA processing to cell-cycle control. While other terms such as hypoxia response, taste perception, and plant patterning appear, the core signal is RNA processing and cell division, with mitochondrial-nucleus signaling contributing to broader regulatory context.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0071456","count":4},{"id":"GO:0050909","count":4},{"id":"GO:2000011","count":3},{"id":"GO:0031930","count":3}]},{"hash":"1372868058886233899","title":"Diverse small-molecule metabolism and stress responses","description":"The top GO terms indicate broad metabolic processing of retinoids (retinol), lipids (cholesterol), and carbohydrates (D-glucuronate, arabinose), with additional stress-response terms (cellular response to cadmium ion, cellular response to jasmonic acid stimulus) and an endothelial apoptotic process. This pattern suggests a cluster of proteins involved in diverse small-molecule catabolism and context-dependent stress responses rather than a single cohesive pathway.","confidence":"Medium","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0042574","count":14},{"id":"GO:0042572","count":14},{"id":"GO:0042840","count":8},{"id":"GO:0006707","count":8},{"id":"GO:0019568","count":8}]},{"hash":"1700082314157026014","title":"Ribosome Biogenesis and Translation","description":"This cluster shows strong representation of ribosome-related processes (ribosome biogenesis, cytoplasmic translational initiation, and ribosomal small subunit export) and RNA transcription/processing factors such as tRNA transcription by RNA polymerase III and RNA-templated transcription, pointing to a cohesive role in ribosome assembly and protein synthesis. A few terms (e.g., oligodendrocyte development, antibiotic response) may reflect broader or species-specific annotations, but the dominant theme is ribosome biology and translation.","confidence":"High","size":14,"edges":80,"triangles":266,"max_degree":13,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0019509","count":2},{"id":"GO:0019284","count":2}]},{"hash":"1056769395471263718","title":"Spliceosome-Mediated RNA Processing","description":"The cluster shows strong enrichment for spliceosome-driven mRNA splicing and related RNA-processing steps, with additional signals for rRNA processing and ribosome assembly, pointing to a cohesive RNA-processing module centered on splicing.","confidence":"High","size":14,"edges":79,"triangles":250,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":10},{"id":"GO:0000398","count":10},{"id":"GO:0071035","count":9},{"id":"GO:0042255","count":9},{"id":"GO:0009432","count":9}]},{"hash":"811840893538540311","title":"Cardiac Adrenergic GPCR-cAMP Signaling","description":"The cluster is dominated by GO terms for adenylate cyclase-activating GPCR signaling pathways (adrenergic, dopaminergic receptor signaling), activation of adenylate cyclase, and arrows to heart development and positive regulation of blood pressure, pointing to GPCR-mediated signaling in cardiac tissue with cAMP as a key readout. Energy metabolism terms like electron transport chain align with cardiac energy needs, while PLC-related signaling and PI biosynthesis reflect broader GPCR signal transduction. A single phototransduction term is present but fits within the broader GPCR signaling theme. Overall, the data converge on a cardiac GPCR-cAMP signaling axis with metabolic support. ","confidence":"High","size":14,"edges":4,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":11},{"id":"GO:0022900","count":11},{"id":"GO:0045777","count":11},{"id":"GO:0007507","count":10},{"id":"GO:0043547","count":10}]},{"hash":"563483142412179676","title":"Nervous system development and axon growth via ERK/MAPK","description":"The cluster\u2019s top GO terms cluster around nervous system development, axon extension/regulation, and ERK/MAPK signaling (positive regulation of ERK cascade, axon extension, focal adhesion regulation), suggesting a cohesive role in neuronal differentiation and axon growth driven by MAPK signaling. Some terms (mitotic cell cycle, beta selection) may be less directly related noise.","confidence":"High","size":14,"edges":45,"triangles":60,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000186","count":12},{"id":"GO:0000278","count":11},{"id":"GO:0070374","count":10},{"id":"GO:0033138","count":10},{"id":"GO:0045773","count":10}]},{"hash":"832626983216618819","title":"Inflammation and immune-mediated apoptosis signaling","description":"The top GO terms cluster around inflammatory response, LPS response, and extrinsic apoptotic signaling with T cell death and cytokine production, indicating a cohesive theme of immune activation and programmed cell death under stress. Secondary terms for mechanical stimulus, hyperoxia, and development likely reflect stress remodeling rather than a central function, so the dominant signal is immune/inflammatory signaling coupled to apoptosis.","confidence":"Medium","size":14,"edges":46,"triangles":66,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":11},{"id":"GO:0006924","count":10},{"id":"GO:2001241","count":10},{"id":"GO:0032496","count":9},{"id":"GO:0071260","count":9}]},{"hash":"1713664680794091114","title":"Adaptive Immune Activation and Phagocytosis","description":"GO terms converge on adaptive immunity (adaptive immune response, T/B cell activation and maturation, interferon production) and effector processes like phagocytosis and cytoskeletal remodeling. ERK cascade engagement and peptidyl-tyrosine autophosphorylation point to receptor-initiated signaling. Overall, the cluster appears to group proteins involved in immune activation and antigen processing through phagocytic and signaling pathways.","confidence":"High","size":14,"edges":24,"triangles":12,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038083","count":13},{"id":"GO:2000251","count":13},{"id":"GO:0006909","count":13},{"id":"GO:0043536","count":13},{"id":"GO:0046725","count":13}]},{"hash":"844428824249563914","title":"RNA processing and signaling regulation","description":"Enrichment spans RNA metabolism (translation, tRNA and pre-miRNA processing) and signaling pathways (ERK cascade and VEGF receptor signaling), with regulatory terms for kinase activity and cellular stress responses. The items hint at a cluster of RNA-processing proteins that also interact with or modulate signaling networks, rather than a single coherent function.","confidence":"Medium","size":14,"edges":47,"triangles":54,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0045071","count":3},{"id":"GO:0044387","count":3},{"id":"GO:0009636","count":3},{"id":"GO:0014068","count":2}]},{"hash":"339907338690099607","title":"Transmembrane solute transporters","description":"This cluster is defined by GO terms for transmembrane transport of diverse substrates (nitrite, nitrate, various sugars, phosphate, potassium, vitamins, etc.), indicating membrane transporter proteins with a broad substrate range.","confidence":"High","size":14,"edges":13,"triangles":5,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":4},{"id":"GO:0006004","count":4},{"id":"GO:1900754","count":4},{"id":"GO:0015706","count":4},{"id":"GO:0071805","count":4}]},{"hash":"1793265054530375919","title":"Cell Adhesion and Morphogenesis Signaling","description":"This cluster is dominated by GO terms related to cell adhesion and signaling (integrin-mediated signaling, podosome and tight junction assembly) and developmental processes (animal organ morphogenesis, TGF-\u03b2 signaling). While there is a miscellaneous immune term and neuronal signaling terms, the strongest common theme ties to adhesion/migration machinery and development, suggesting a role in shaping tissue organization and signaling during morphogenesis.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0071800","count":2},{"id":"GO:0070830","count":2},{"id":"GO:0007229","count":2}]},{"hash":"1442271387550764043","title":"mRNA processing and splicing regulation","description":"This cluster is dominated by post-transcriptional RNA processing terms, including translation, alternative splicing via the spliceosome, mRNA export, and RNA modification. The convergence on splicing regulation alongside export and translation suggests a cohesive role in mRNA maturation and control of gene expression at the RNA level.","confidence":"High","size":14,"edges":58,"triangles":166,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0000381","count":3},{"id":"GO:1905663","count":3},{"id":"GO:0016556","count":3},{"id":"GO:1903586","count":3}]},{"hash":"43438312105597489","title":"Lipid and pigment biosynthesis","description":"This cluster features several GO terms tied to biosynthetic and metabolic processes, notably very long-chain fatty acid biosynthesis, polyhydroxybutyrate biosynthesis, retinal metabolism, and melanin biosynthesis. While there are also stress-response and hormone-related terms, the strongest cohesive signal is metabolic and biosynthetic activity related to lipids and pigments, so the label reflects the core theme. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0042619","count":8},{"id":"GO:0006710","count":6},{"id":"GO:0046677","count":6},{"id":"GO:0008209","count":6}]},{"hash":"105379946571422233","title":"Regulatory signaling in inflammation and differentiation","description":"These terms collectively point to broader signaling and regulatory networks rather than a single enzymatic activity. Key themes include SMAD/TGF-beta signaling regulation, p53-mediated DNA damage response, IL-1\u2013related cellular responses, and differentiation programs for endothelial, osteoblast, and osteoclast lineages, with additional hints of stress-related translation regulation (diphthamide modification). This suggests a cluster of proteins involved in coordinating inflammatory signaling with tissue development and remodeling, rather than a narrow metabolic pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017183","count":1},{"id":"GO:1903955","count":1},{"id":"GO:0030330","count":1},{"id":"GO:0045603","count":1},{"id":"GO:0045668","count":1}]},{"hash":"683981171238032798","title":"Mitotic Regulation and Embryonic Development Signaling","description":"Proteins here are enriched for mitotic control (cytokinesis checkpoint, chromatid biorientation) and embryonic development (in utero development), with accompanying signals affecting adhesion, vascular permeability, and major signaling pathways (MAPK, PI3K/AKT) and apoptosis. This suggests a cohesive module coordinating cell division with developmental signaling and tissue remodeling.","confidence":"High","size":14,"edges":75,"triangles":238,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0044878","count":8},{"id":"GO:0051895","count":8},{"id":"GO:0043117","count":8},{"id":"GO:0031031","count":8},{"id":"GO:0098783","count":8}]},{"hash":"697671952868178479","title":"Innate and Cytotoxic Immune Defense","description":"The cluster is dominated by innate immune response and cytotoxic lymphocyte activity terms, including complement activation (classical pathway), NK cell\u2013mediated cytotoxicity, and antigen processing/presentation via MHC class I. This points to a cohesive program of innate defense and cytotoxic T/NK cell functions, with additional defensin-like roles against Gram-negative bacteria, suggesting a focused immune-response cluster. The bitter taste receptor term likely reflects pleiotropy or annotation noise rather than a primary theme.","confidence":"High","size":14,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":13},{"id":"GO:0006958","count":13},{"id":"GO:0001916","count":12},{"id":"GO:0001580","count":12},{"id":"GO:0002480","count":12}]},{"hash":"402871462317906998","title":"Cardiac electrophysiology and heart-rate regulation","description":"These proteins are enriched for GO terms tied to cardiac electrical activity: AV node action potential, depolarization/repolarization of atrial and ventricular cardiac muscle cells, and regulation of heart rate via cardiac conduction. The presence of sodium ion transport aligns with ion-channel\u2013mediated excitability. While other terms (bone development, cortisol biosynthesis, temperature response) appear, the dominant signal is cardiac action potentials and rhythm control, justifying a label focused on cardiac electrophysiology.","confidence":"High","size":14,"edges":16,"triangles":5,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0086016","count":8},{"id":"GO:0060371","count":8},{"id":"GO:0086091","count":8},{"id":"GO:0060307","count":8},{"id":"GO:0007275","count":7}]},{"hash":"419979730325372294","title":"Plant cell wall polysaccharide biosynthesis and mucilage","description":"This cluster is dominated by GO terms for plant cell wall organization, glucuronoxylan biosynthesis, and secondary cell wall biogenesis, along with mucilage biosynthesis and related glycosylation and sugar metabolism. These collectively indicate a focus on assembling plant cell wall polysaccharides (and mucilage), despite some noise terms; thus the name reflects the core function.","confidence":"High","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":4},{"id":"GO:0010417","count":4},{"id":"GO:0009834","count":4},{"id":"GO:0051290","count":3},{"id":"GO:0007420","count":3}]},{"hash":"1641663458323793455","title":"Growth signaling and genome maintenance regulation","description":"These proteins appear linked to signals that govern cell growth and differentiation (positive regulation of TGF-beta signaling; regulation of growth by extracellular stimulus; monocyte differentiation) and development (urinary bladder development), with supporting roles in gene expression and protein modification (mRNA export, sumoylation). They also touch on genome integrity processes (error-free postreplication DNA repair, telomere maintenance via recombination, apoptotic chromosome condensation). The combination suggests a cluster coordinating growth/differentiation signals with genome maintenance, hence the chosen label.","confidence":"Medium","size":14,"edges":23,"triangles":9,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":2},{"id":"GO:1904706","count":2},{"id":"GO:0030511","count":2},{"id":"GO:0001560","count":2},{"id":"GO:0016925","count":2}]},{"hash":"1114222394852699772","title":"Neural development and calcium signaling","description":"The cluster is dominated by terms tied to neuronal development and function (axonogenesis, long-term synaptic potentiation, excitatory postsynaptic potential) and calcium-responsive signaling (cellular response to calcium ion), with an additional theme of differentiation and organ development (G1 to G0 transition, adenohypophysis morphogenesis, nephron development). This suggests a coherent theme of developmental signaling with emphasis on neural differentiation and calcium-mediated signaling, despite some broader organogenesis terms that reflect shared developmental processes across tissues.","confidence":"High","size":14,"edges":59,"triangles":124,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070315","count":12},{"id":"GO:0009738","count":12},{"id":"GO:0007409","count":12},{"id":"GO:0060291","count":12},{"id":"GO:0048855","count":12}]},{"hash":"1262602401187451790","title":"Diverse transmembrane nutrient transport","description":"The top GO terms point to transmembrane transport of a wide range of substrates (nitrite, nitrate, various sugars like arabinose and galactose, phosphate, vitamins, 4-hydroxyphenylacetate, potassium, etc.), indicating a common theme of membrane transport of diverse nutrients and metabolites rather than a specific substrate. With no edges among proteins, the cluster appears to group transport-related functions. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":3},{"id":"GO:0006004","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0015706","count":3},{"id":"GO:0071805","count":3}]},{"hash":"1485903615617449461","title":"Craniofacial and inner-ear development","description":"The terms are dominated by embryonic development of head structures: embryonic cranial skeleton morphogenesis, pharyngeal system development, and inner ear-related terms (semicircular canal formation, inner ear development). Additional terms point to early embryogenesis (primitive streak formation) and other cranial structures like pituitary gland development and peripheral nervous system neuron development. The inclusion of transcriptional regulation of RNA polymerase II hints at regulatory mechanisms driving these developmental programs. Taken together, these proteins likely participate in craniofacial patterning and sensory organ formation.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0090009","count":6},{"id":"GO:0048935","count":5},{"id":"GO:0048839","count":5},{"id":"GO:0021983","count":5}]},{"hash":"846386009500606874","title":"Neuronal development and synapse assembly","description":"Top GO terms emphasize nervous system development, synapse assembly, and regulation of synaptic vesicle clustering, with strong signals for cell-cell adhesion. While there are also terms related to bone and kidney development, the dominant theme is neuronal connectivity and synaptic organization, suggesting the cluster largely represents proteins involved in neural development and synapse formation.","confidence":"High","size":14,"edges":12,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":11},{"id":"GO:0043931","count":11},{"id":"GO:0007157","count":11},{"id":"GO:0007399","count":10},{"id":"GO:0051965","count":10}]},{"hash":"1045081737580384335","title":"Transcription Initiation and RNA Processing Machinery","description":"This cluster is dominated by GO terms tied to transcription initiation and RNA processing, including DNA-templated transcription initiation, RNA polymerase II preinitiation complex assembly, and box C/D snoRNP assembly. While there are also terms related to defense responses and metal transport, the core signal points to transcription machinery and RNA processing as the shared function among the proteins. ","confidence":"Medium","size":14,"edges":13,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0000492","count":2},{"id":"GO:0051123","count":2},{"id":"GO:0006352","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0046839","count":2}]},{"hash":"1838234033717643836","title":"Mitochondrial respiration and transport","description":"The cluster is dominated by terms tied to mitochondria\u2014assembly of the respiratory chain complex IV, mitochondrial ATP transmembrane transport, and multiple membrane localization/transport processes\u2014indicating a cohesive theme of mitochondrial energy production and metabolite flux. While a heart development term appears, the core signal centers on mitochondrial function.","confidence":"High","size":14,"edges":19,"triangles":5,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":5},{"id":"GO:0007507","count":3},{"id":"GO:0036233","count":3},{"id":"GO:0090152","count":3},{"id":"GO:0000066","count":3}]},{"hash":"1254453195303633567","title":"Protein Catabolism and Ubiquitin Recycling","description":"This cluster is enriched for protein catabolic processes and ubiquitin recycling, including hormone and insulin catabolism, and factors that regulate proteolysis, suggesting a core theme of protein turnover via the ubiquitin-proteasome system, with some related transport or host-interaction terms as peripheral signals.","confidence":"Medium","size":14,"edges":52,"triangles":83,"max_degree":12,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:1902600","count":4},{"id":"GO:0046718","count":3},{"id":"GO:0044257","count":3},{"id":"GO:0045861","count":3},{"id":"GO:0010992","count":3}]},{"hash":"1622693412731749233","title":"EGFR-MAPK signaling in development and EMT","description":"This cluster is enriched for EGFR signaling, ERK/MAPK cascade regulation, and small GTPase\u2013mediated signaling, along with development-related terms (kidney development, ossification, cell division). These together point to growth-factor\u2013driven MAPK signaling coordinating proliferation and differentiation, including EMT. Therefore the name fits.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":2},{"id":"GO:0060684","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0007173","count":2},{"id":"GO:0001822","count":2}]},{"hash":"1709117527547654777","title":"Diverse Metabolic Processes","description":"The top GO terms cover a wide range of metabolic activities (flavonoid, catecholamine, estrogen, bile acid, ethanol, N-acetylglucosamine, and heparan sulfate proteoglycan biosynthesis) plus a regulatory process (angiotensin levels). This points to a cluster enriched for general metabolism across diverse substrates rather than a single pathway, so a label emphasizing broad metabolic activity is appropriate.","confidence":"Medium","size":14,"edges":33,"triangles":31,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0009812","count":8},{"id":"GO:0030206","count":8},{"id":"GO:0000103","count":8},{"id":"GO:0006584","count":8},{"id":"GO:0006711","count":8}]},{"hash":"219922617815819403","title":"ER-Golgi-Endosome Vesicle Trafficking and Exosome Regulation","description":"The cluster centers on ER-to-Golgi and endosome-to-Golgi trafficking, including retrograde transport and membrane fission, and extends to exosome biogenesis/regulation and host control of viral release. Nuclear membrane reassembly and nuclear organization terms suggest broader membrane remodeling tied to trafficking, plus apoptotic processes that may accompany cellular stress. Overall, this set points to a cohesive vesicle trafficking/exosome- biogenesis theme, with some ancillary nuclear remodeling signals.","confidence":"Medium","size":14,"edges":12,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0042147","count":4},{"id":"GO:0006890","count":4},{"id":"GO:0090148","count":4},{"id":"GO:0006997","count":4}]},{"hash":"991776577310737912","title":"Neural development and Wnt signaling with adherens junctions","description":"These terms point to neural development and growth, with strong emphasis on Wnt/planar cell polarity signaling and adherens junctions. CNS development and stem cell differentiation indicate neurodevelopmental programs, while dendritic spine maintenance and actin-cytoskeleton\u2013related terms reflect cytoskeletal remodeling in neurons. Peptidyl-tyrosine autophosphorylation and Ras signaling modulation suggest active tyrosine kinase signaling and growth regulation that couple signaling with adhesion and cell\u2013cell interactions. Overall, the cluster centers on neurodevelopment shaped by Wnt signaling and cell adhesion.","confidence":"High","size":14,"edges":35,"triangles":40,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":12},{"id":"GO:2000096","count":12},{"id":"GO:0007417","count":12},{"id":"GO:0034332","count":12},{"id":"GO:0035264","count":12}]},{"hash":"1835926844923840977","title":"Immune antigen presentation and endocytosis","description":"The top GO terms point to immune-related processes: antigen processing and presentation via MHC class I (TAP-independent), B cell receptor signaling, and T cell cytotoxicity regulation, as well as cellular defense responses and responses to Gram-negative bacteria and xenobiotics. There is also positive regulation of receptor-mediated endocytosis, suggesting coordinated uptake and processing of antigens for adaptive immunity. The bitter taste receptor term may reflect GPCRs with immune-related or endocytic signaling roles, but the overall pattern aligns with antigen presentation and immune defense pathways.","confidence":"High","size":14,"edges":58,"triangles":122,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0048260","count":13},{"id":"GO:0001916","count":12},{"id":"GO:0001580","count":12},{"id":"GO:0002480","count":12},{"id":"GO:0071283","count":12}]},{"hash":"1745444825269211139","title":"Nuclear transport and RNA processing","description":"This cluster\u2019s top GO terms are dominated by nuclear import/export and RNA metabolism activities: protein import/export from/to the nucleus, localization to the nuclear pore, and poly(A)+ mRNA export from the nucleus, plus deadenylation-dependent decay. While there are a couple of terms related to mitotic cytokinesis and microtubule regulation, the overall signal points to proteins involved in shuttling molecules across the nuclear envelope and processing RNA, rather than a single cytoskeletal or signaling pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000281","count":2},{"id":"GO:0007026","count":2},{"id":"GO:0045657","count":2},{"id":"GO:0000288","count":2},{"id":"GO:0006606","count":1}]},{"hash":"613685471491446459","title":"Lipid metabolism and membrane biosynthesis","description":"The top GO terms are dominated by lipid-related processes: unsaturated fatty acid biosynthesis, ergosterol (membrane sterol) metabolism, sphingolipid metabolism, and lipid-rich tissue functions like sebaceous gland differentiation and myelin maintenance. Although a couple terms relate to development or mitochondrial inheritance, the common thread is lipid metabolism and membrane homeostasis across organisms, which justifies this label.","confidence":"Medium","size":14,"edges":20,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001949","count":4},{"id":"GO:0032286","count":4},{"id":"GO:0006636","count":4},{"id":"GO:0006675","count":4},{"id":"GO:0000001","count":4}]},{"hash":"1048730603621239539","title":"Endomembrane trafficking and lipid translocation","description":"Based on the enrichment of GO terms such as protein localization to endosome, positive regulation of protein exit from the endoplasmic reticulum, phospholipid translocation, and regulation of vacuole organization, the cluster appears to group proteins involved in vesicle trafficking and membrane lipid dynamics within the endomembrane system. Some outliers (sulfur compound metabolism, chlorophyll metabolism, sebaceous gland differentiation) may reflect noise or broad annotations, but the core theme is cohesive around intracellular transport and membrane remodeling.","confidence":"Medium","size":14,"edges":13,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0045332","count":2},{"id":"GO:0044088","count":2},{"id":"GO:0036010","count":2},{"id":"GO:0006855","count":2}]},{"hash":"1932288398685694876","title":"Developmental patterning and stress responses","description":"This cluster includes GO terms tied to developmental patterning (retina development, adaxial/abaxial pattern formation) and cell proliferation, alongside stress and inflammatory signaling (hypoxia response, inflammatory response) and signaling-related processes (GTPase activity regulation, mitochondria-nucleus signaling). The mix suggests proteins involved in early developmental patterning coordinated with cellular stress and signaling pathways, rather than a single specific function.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007568","count":3},{"id":"GO:0071456","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0060041","count":3}]},{"hash":"2007469119771541877","title":"Embryonic Craniofacial Skeletal Development","description":"The top GO terms are dominated by embryonic development of craniofacial and skeletal structures\u2014roof of mouth/palate, cranial skeleton, cartilage, pharyngeal system, joint morphogenesis, and related morphogenetic processes\u2014suggesting a cohesive theme of craniofacial skeletal formation during embryogenesis. Some terms also point to broader embryonic development, but the strongest signal centers on craniofacial skeletal morphogenesis.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0003323","count":5},{"id":"GO:0051216","count":4},{"id":"GO:0021983","count":4},{"id":"GO:0060037","count":4}]},{"hash":"1944369026389196209","title":"Embryonic Development and Tissue Patterning","description":"The top GO terms cover diverse developmental processes across multiple tissues (heart EMT, cartilage morphogenesis, trophoblast/placental development, endocrine system development, left-right patterning). There is no single molecular function but a unifying theme of embryonic development and lineage specification, with some general transcription activity\u2014suggesting a cluster of proteins involved in broad developmental programs.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0060806","count":3}]},{"hash":"926402182335284267","title":"Embryonic morphogenesis and patterning","description":"The cluster centers on a cohesive set of GO terms tied to embryonic development and tissue morphogenesis, including craniofacial (roof of mouth) and mesodermal/cardiac EMT processes, cartilage formation, left-right patterning, placenta-related development, and endocrine system development, indicating a broad embryogenesis/morphogenesis theme.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":12},{"id":"GO:0003198","count":12},{"id":"GO:0060536","count":12},{"id":"GO:0003323","count":12},{"id":"GO:0060707","count":12}]},{"hash":"2067372388890256843","title":"Neural development and Rho signaling cluster","description":"This cluster is driven by strong signals for neural development (forebrain development, neural tube closure) and Rho pathway activity (Rho protein signal transduction, regulation of Rho signaling), with supporting terms on receptor clustering and post-translational regulation (protein dephosphorylation, nitric oxide response). Together these indicate proteins involved in neural patterning and cytoskeletal signaling modulated by Rho pathways, with additional regulatory processes shaping signaling networks.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0007266","count":3},{"id":"GO:0071732","count":3},{"id":"GO:0043113","count":3}]},{"hash":"1299837362204383276","title":"ECM Remodeling and Coagulation in Inflammation","description":"This cluster centers on extracellular matrix organization and secretion, collagen fibril assembly, and coagulation/fibrinolysis processes, all of which are core to tissue remodeling during inflammation. It also includes acute-phase responses and endothelial/endothelial cell survival signals, with nitric oxide and reactive oxygen species regulation, suggesting a vascular-inflammatory ECM-coagulation module. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein maturation","top_go_terms":[{"id":"GO:0030199","count":5},{"id":"GO:1902042","count":5},{"id":"GO:2000352","count":5},{"id":"GO:0045429","count":5},{"id":"GO:0032930","count":5}]},{"hash":"548311884705237709","title":"mRNA Splicing and Processing","description":"This cluster is enriched for GO terms related to mRNA splicing via the spliceosome, including alternative splicing, splicing regulation, mRNA export, and modification, indicating a cohesive role in spliceosome-mediated mRNA maturation.","confidence":"High","size":13,"edges":13,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":3},{"id":"GO:0006378","count":3},{"id":"GO:0046782","count":3},{"id":"GO:0000381","count":2},{"id":"GO:1905663","count":2}]},{"hash":"1174697381673551215","title":"Transcription and RNA processing regulators","description":"This cluster is enriched for GO terms tied to transcriptional control and RNA metabolism, including DNA-templated transcription, transcription antitermination, pre-miRNA processing, miRNA catabolic processes, and regulation of mRNA splicing and stabilization. These indicate a cohesive group of proteins involved in both transcription regulation and post-transcriptional RNA processing, with some supportive signals from splicing regulation and RNA stability. Confidence in this being a cohesive RNA/ transcription-focused cluster is Moderate, given the overall thematic coherence but some outliers related to stress or development terms.","confidence":"Medium","size":13,"edges":50,"triangles":85,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060567","count":5},{"id":"GO:1901724","count":5},{"id":"GO:0010587","count":5},{"id":"GO:0031054","count":5},{"id":"GO:1902219","count":5}]},{"hash":"1311841504419720846","title":"GPCR Signaling and Proliferation","description":"This cluster shows strong enrichment for GPCR-related signaling: dopamine receptor signaling, serotonin receptor signaling, prostaglandin response, and histamine-associated pathways. It also includes terms for cell proliferation and its positive regulation, plus regulation of cardiac muscle contraction and retina development, suggesting GPCR-mediated signaling with downstream effects on growth and tissue-specific functions. The xenobiotic response aligns with broad stimulus-responsive signaling, reinforcing the GPCR-centric theme. Overall, the common thread is GPCR-driven signal transduction linked to proliferation and organ-system regulation.","confidence":"High","size":13,"edges":31,"triangles":25,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008283","count":12},{"id":"GO:0043547","count":11},{"id":"GO:0071380","count":11},{"id":"GO:0042493","count":11},{"id":"GO:0008284","count":11}]},{"hash":"92790578292312071","title":"Translation machinery and regulation","description":"The top GO terms are all directly linked to protein synthesis and ribosome function: multiple facets of translation (initiation, elongation, termination), ribosome disassembly, and even selenocysteine incorporation and mitochondrial translation. The presence of 'response to antibiotic' likely reflects translation-targeting antibiotics. Taken together, these terms point to a cluster centered on translation and ribosomal dynamics rather than a single specific sub-process.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":10},{"id":"GO:0046677","count":5},{"id":"GO:0045903","count":4},{"id":"GO:0032790","count":3},{"id":"GO:0001514","count":3}]},{"hash":"2115931491242931139","title":"Mitotic Chromosome Segregation and DNA Repair","description":"This cluster is dominated by mitosis-related processes: chromosome segregation, G2/M transition, exit from mitosis, and mitotic spindle dynamics, along with SCF-dependent ubiquitin-proteasome degradation. Additional terms reflect genome maintenance via nucleotide-excision repair and meiotic recombination, suggesting a broader theme of chromosome handling and DNA repair during cell division. ","confidence":"High","size":13,"edges":76,"triangles":265,"max_degree":12,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0007059","count":13},{"id":"GO:0070911","count":13},{"id":"GO:0031146","count":13},{"id":"GO:0010458","count":13},{"id":"GO:0000086","count":13}]},{"hash":"2163012185712364517","title":"Developmental, Neuronal, and Immune Signaling","description":"The GO terms cluster around receptor-mediated signaling pathways (ephrin signaling, TGF-beta response, GTPase regulation, tyrosine phosphorylation) and processes related to development (spinal cord development, cell polarity, angiogenesis), as well as neuronal and immune signaling (neurotransmitter receptor transport, T cell receptor signaling). This suggests a common theme of signaling networks that coordinate development and intercellular communication across tissues, despite the term outliers.","confidence":"Medium","size":13,"edges":5,"triangles":0,"max_degree":5,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0071560","count":7},{"id":"GO:0050731","count":7},{"id":"GO:0048013","count":6},{"id":"GO:0090334","count":6}]},{"hash":"115490593037804620","title":"Vesicle trafficking and signaling","description":"The cluster is dominated by GO terms tied to the endomembrane system and signaling: Rab protein signal transduction, GPCR signaling pathway, Golgi\u2013ER and ER\u2013Golgi vesicle transport, lysosomal membrane organization, and tubulin complex assembly. Positive regulation of ERK1/ERK2 ties signaling to trafficking, while tight junction assembly points to polarity\u2014together suggesting a core theme of vesicle trafficking and membrane signaling. The cortical neuron migration term may reflect developmental contexts where these processes are active.","confidence":"High","size":13,"edges":5,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032482","count":13},{"id":"GO:0007186","count":13},{"id":"GO:0070830","count":13},{"id":"GO:0006890","count":13},{"id":"GO:0097212","count":13}]},{"hash":"1601346973703323471","title":"ER Stress and Protein Folding","description":"This cluster centers on unfolded protein response, ER protein folding, and chaperone-assisted refolding, indicating a cohesive ER-centric proteostasis program. The presence of redox/oxidative stress terms (hydrogen peroxide response, redox homeostasis) supports accompanying ER stress signaling. Overall, the dominant theme is ER stress-driven protein folding and quality control.","confidence":"High","size":13,"edges":38,"triangles":32,"max_degree":9,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0006986","count":7},{"id":"GO:0045454","count":7},{"id":"GO:0034975","count":7},{"id":"GO:0070389","count":6},{"id":"GO:0036494","count":6}]},{"hash":"1095306710653167371","title":"Mitochondrial metabolism and neural development","description":"The cluster\u2019s GO terms center on mitochondrial metabolism (ubiquinone biosynthesis, TCA cycle, branched-chain amino acid catabolism, acetyl-CoA biosynthesis) suggesting a metabolic core. In addition, several terms point to neural development (cerebellar cortex, olfactory bulb Mitral cell layer, pyramidal neuron development), indicating a link between mitochondrial function and neural differentiation. Some outliers (antibiotic biosynthetic process) exist, but the shared theme appears to be mitochondrial energy pathways coupled with neural development processes.","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006744","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0061732","count":1}]},{"hash":"1689070671387015348","title":"Steroid, Lipid, and Pigment Biosynthesis","description":"The cluster is dominated by GO terms for biosynthesis and metabolism of steroids (androgen/estrogen), lipids (very long-chain fatty acids), and pigments (retinal and melanin), plus related catabolic and storage processes (acetoin, poly-hydroxybutyrate). While there are a few drug-response terms, the common thread is biosynthesis/metabolism of steroids, lipids, and pigments, indicating a cohesive metabolic theme rather than unrelated functions.","confidence":"Medium","size":13,"edges":33,"triangles":21,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006710","count":8},{"id":"GO:0046677","count":8},{"id":"GO:0008209","count":8},{"id":"GO:0045150","count":8},{"id":"GO:0042619","count":8}]},{"hash":"1107613667649339197","title":"Neurovascular development and synaptic function","description":"The top terms point to coordinated development of neural tissues (retina layer formation, memory, synaptic plasticity) with vascular processes (heart development, branching in blood vessel morphogenesis, proliferation) and neural signaling (neur neurotransmitter secretion, vesicle endocytosis). The inclusion of hypoxia response aligns with neurovascular contexts where oxygen availability influences neural and vascular development. Altogether, this cluster seems to reflect neurodevelopment coupled with synaptic signaling and vascular remodeling rather than a single narrow function.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010842","count":11},{"id":"GO:1900242","count":11},{"id":"GO:0007507","count":10},{"id":"GO:0043065","count":9},{"id":"GO:0048168","count":9}]},{"hash":"505671048454804160","title":"Osteoimmunology Signaling Regulators","description":"The top terms cluster around inflammatory signaling (negative regulation of inflammatory response; regulation of NF-kappaB), bone remodeling (negative regulation of osteoclast development; bone resorption), and signaling-associated processes, suggesting a theme centered on osteoimmune regulation, with accompanying ion-transport signaling aspects.  ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":3},{"id":"GO:0007566","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0051899","count":3}]},{"hash":"728897564131443326","title":"Tissue-specific developmental transcriptional regulation","description":"These proteins are enriched for GO terms tied to transcriptional control (DNA-templated transcription; negative regulation of RNA Pol II preinitiation complex assembly) and a variety of tissue development processes (skeletal muscle differentiation, tracheal cartilage development, endocrine pancreas development, melanocyte differentiation, gonad development, Harderian gland development). The mix points to a cluster centered on developmental gene expression regulation across multiple tissues rather than a single pathway. The IL-4 response term suggests some regulatory signaling context, but the dominant signal is transcriptional regulation linked to differentiation programs.","confidence":"Medium","size":13,"edges":69,"triangles":205,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0035914","count":6},{"id":"GO:0060534","count":6},{"id":"GO:0071353","count":5},{"id":"GO:2000020","count":5}]},{"hash":"456418929631168286","title":"ER Stress\u2013Linked Protein Processing and Signaling","description":"The cluster\u2019s top GO terms emphasize ER-associated processes (N-linked glycosylation via asparagine, ubiquitin-dependent degradation through the multivesicular body pathway) and regulation of unfolded protein response signaling (PERK, p38MAPK), plus related signaling pathways (insulin and T cell receptor signaling, postsynaptic density assembly) that can intersect with cellular stress responses. This suggests a core theme around protein processing and quality control in the context of cellular signaling, with some related but less tightly connected processes. Confidence is moderate due to heterogeneity among terms.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018279","count":3},{"id":"GO:0043162","count":3},{"id":"GO:0007049","count":3},{"id":"GO:1902237","count":3},{"id":"GO:0090557","count":3}]},{"hash":"979492738104902402","title":"Developmental transcriptional regulation","description":"The top terms emphasize RNA polymerase II\u2013mediated transcription and its negative regulation, while the developmental terms span multiple tissues (lung, pituitary, spinal cord, pancreas, craniofacial, muscle, and neural lineages), pointing to proteins involved in controlling gene expression during development across diverse lineages.","confidence":"High","size":13,"edges":69,"triangles":203,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":6},{"id":"GO:0000122","count":5},{"id":"GO:0060435","count":5},{"id":"GO:0021983","count":5},{"id":"GO:0021530","count":5}]},{"hash":"882425158212801784","title":"Embryonic organogenesis and heart morphogenesis","description":"The cluster is dominated by GO terms tied to embryonic development and organ morphogenesis across multiple tissues (heart, placenta, eye, hindlimb, habenula, gonads, prostate), with a note of transcriptional regulation, suggesting a cohesive role in coordinating gene expression during embryogenesis and organ formation rather than a single pathway.","confidence":"High","size":13,"edges":65,"triangles":164,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:2000288","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0060527","count":5},{"id":"GO:0001890","count":5}]},{"hash":"1814340724266577918","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0070389","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0036494","count":2},{"id":"GO:0060613","count":2},{"id":"GO:0006366","count":2}]},{"hash":"1423750150737999150","title":"Brain development and neuronal signaling","description":"The terms point to neural development and neuronal signaling, with cerebral cortex cell migration, subpallium development, and regulation of dopamine secretion indicating brain-specific processes. Phosphatidylinositol signaling and GTPase activity also support coordinated cellular signaling and cytoskeletal dynamics relevant to neural development. While some terms describe non-neural processes, the brain-related terms are the strongest pattern in this cluster.","confidence":"Medium","size":13,"edges":74,"triangles":243,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0048015","count":4},{"id":"GO:0045445","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0034517","count":3}]},{"hash":"1915941081930884528","title":"Calcium Signaling and Muscle Contraction","description":"The top GO terms cluster around calcium signaling components (release of Ca2+ into cytosol, PLC-activated signaling) and muscle-related processes (cardiac and intestinal smooth muscle contraction), as well as secretory activity like histamine-induced gastric acid secretion. These points suggest a common theme of calcium-dependent signaling governing contraction and secretion across tissues, with broader roles in immune and developmental contexts reflected by the remaining terms. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":12},{"id":"GO:0007208","count":12},{"id":"GO:0055117","count":12},{"id":"GO:0007497","count":12},{"id":"GO:0048245","count":12}]},{"hash":"155445393640523009","title":"Tissue remodeling and morphogenesis","description":"Proteins here center on growth, adhesion, and structural remodeling of tissues, including bone resorption, tissue homeostasis, adherens junction organization, and morphogenesis (e.g., lung development). Although some terms touch vesicle trafficking and neural development, the prevalent theme is how cells coordinate adhesion, signaling, and mechanical cues to shape and maintain tissues.","confidence":"Medium","size":13,"edges":5,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045453","count":5},{"id":"GO:0048873","count":5},{"id":"GO:0032889","count":5},{"id":"GO:0050771","count":5},{"id":"GO:0035264","count":5}]},{"hash":"1968731057393153342","title":"Calcium-Driven GI and Immune Signaling","description":"The terms point to calcium-dependent signaling that regulates muscle contraction (intestine smooth muscle, cardiac muscle) and related secretory processes (gastric acid secretion), with supporting signaling pathways (PLC/serotonin signaling) and some immune-related functions (eosinophil chemotaxis, CD8 T cell differentiation). The common thread seems to be calcium-mediated signaling impacting muscle function in the GI/cardiac context and modulating immune responses, making a calcium-centered functional module a plausible label.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":13},{"id":"GO:0007208","count":13},{"id":"GO:0055117","count":13},{"id":"GO:0007497","count":13},{"id":"GO:0048245","count":13}]},{"hash":"596487224861284817","title":"Transmembrane Ion and Metabolite Transporters","description":"The GO terms are dominated by transmembrane transport activities, including sodium and potassium ion transport as well as monoatomic anion transport, and metabolite transport (malate, citrate, succinate) with broader transmembrane transport and phosphate transport regulation. This points to proteins functioning as membrane transporters that move ions and small metabolites across cellular membranes.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0006814","count":4},{"id":"GO:0098656","count":4},{"id":"GO:0015743","count":4},{"id":"GO:0015746","count":4},{"id":"GO:0015744","count":4}]},{"hash":"2011359475503677070","title":"Histone Modification and Chromatin Regulation","description":"Based on the top GO terms, the cluster is enriched for histone acetylation (H4 and H3) and regulation of H3K27 methylation, pointing to chromatin remodeling and epigenetic control of gene expression. While there are additional terms related to trafficking and behavior, the strongest signals pertain to chromatin modification, suggesting the cluster centers on epigenetic regulation rather than a single metabolic pathway.","confidence":"Medium","size":13,"edges":20,"triangles":5,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0043982","count":2},{"id":"GO:0043966","count":2},{"id":"GO:0043981","count":2},{"id":"GO:0061087","count":2}]},{"hash":"297745794396212210","title":"Developmental signaling and growth regulation","description":"The top GO terms indicate roles in multicellular organism development (including skin and neuron projection development) and in regulation of signaling (GTPase activity, autophosphorylation), alongside cell cycle and proliferation. Additional terms for hypoxia response and mRNA transport suggest broader regulatory functions in gene expression and environmental response. Together, these imply a cluster of proteins that coordinate developmental signaling and tissue growth rather than a single enzymatic activity. ","confidence":"Medium","size":13,"edges":24,"triangles":14,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051260","count":6},{"id":"GO:0007275","count":5},{"id":"GO:0031175","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0000278","count":4}]},{"hash":"1990475551224710523","title":"mRNA Splicing and Processing","description":"The terms are dominated by spliceosome-mediated splicing and other mRNA processing steps (export, modification), suggesting these proteins function mainly in post-transcriptional RNA processing. A couple of unrelated terms appear but are minor.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0046677","count":2},{"id":"GO:1905663","count":1}]},{"hash":"766591190766571751","title":"Mitochondrial translation and protein import","description":"The top GO terms are strongly centered on mitochondrial function: mitochondrial translation, positive regulation of mitochondrial translation, mitochondrial translation, and protein import into the mitochondrial matrix, plus translational fidelity. While a few other terms (DNA repair, UV response, meiotic processes) appear, they are much less represented and do not define the cluster. Thus the proteins likely form a cohesive group involved in mitochondrial protein synthesis and import pathways.","confidence":"High","size":13,"edges":77,"triangles":275,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0045903","count":2},{"id":"GO:0009235","count":2},{"id":"GO:0070131","count":2},{"id":"GO:0032543","count":2},{"id":"GO:0030150","count":2}]},{"hash":"305918558440765485","title":"Diverse Substrate Membrane Transporters","description":"The GO terms point to membrane transport of a wide range of substrates (sodium, sugars like galactose and fucose, sialic acid, vitamins, nitrate, xenobiotics) and vesicular neurotransmitter loading, indicating a cluster of transporter proteins with broad substrate specificity rather than a single pathway. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":7},{"id":"GO:0035725","count":7},{"id":"GO:0015739","count":7},{"id":"GO:0015757","count":7},{"id":"GO:0006855","count":7}]},{"hash":"2263686282159280442","title":"Drosophila development and morphogenesis","description":"The terms point to broad developmental and morphogenetic processes in Drosophila: nervous system development, tracheal outgrowth and delamination/pit formation (key morphogenesis events), and cytoskeletal regulation (stress fiber assembly, cell spreading). Additional terms like melanosome transport and phototaxis align with pigmentation movement and behavior typical of Drosophila, suggesting a cohesive theme of development, morphogenesis, and associated cellular dynamics rather than a single specific pathway. Confidence reflects the plausible Drosophila-focused developmental theme but acknowledges heterogeneity across terms.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900026","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0051496","count":2},{"id":"GO:0030521","count":2},{"id":"GO:0035900","count":2}]},{"hash":"180876547408885272","title":"Serine Phosphorylation and Fatty Acid Metabolism","description":"The cluster is driven by terms related to serine phosphorylation (peptidyl-serine phosphorylation, protein autophosphorylation) and various fatty acid metabolism processes (acyl-CoA metabolism, long-chain fatty-acyl-CoA biosynthesis/catabolism, negative regulation of fatty acid biosynthesis). Some outlier terms (uterus development, enterobactin biosynthesis) appear noise, but the dominant theme ties phosphorylation signaling to lipid metabolism. ","confidence":"Medium","size":13,"edges":19,"triangles":10,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":4},{"id":"GO:0018105","count":3},{"id":"GO:0046777","count":3},{"id":"GO:0051792","count":2},{"id":"GO:0009239","count":2}]},{"hash":"284486084740314545","title":"Eye and vasculature morphogenesis","description":"The cluster is enriched for eye-related development terms (camera-type eye development, retina development, embryonic eye morphogenesis) and vascular/morphogenesis terms (venous blood vessel development, vascular wound healing, left/right pattern formation), suggesting proteins involved in eye and blood vessel formation and tissue patterning. A unifying label like Eye and vasculature morphogenesis captures this theme without overgeneralizing.","confidence":"High","size":13,"edges":75,"triangles":254,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":8},{"id":"GO:0035470","count":6},{"id":"GO:0043010","count":5},{"id":"GO:0048048","count":5},{"id":"GO:0060441","count":5}]},{"hash":"1149987906293721998","title":"Immune Activation and Phagocytosis","description":"This cluster is dominated by immune-related GO terms: complement activation, innate immune response, phagocytosis (recognition and engulfment), and signaling for T and B cell activation/proliferation, indicating proteins mainly function in immune recognition and immune cell communication. A couple of heart-related terms are present but do not define the cluster's core function.","confidence":"High","size":13,"edges":15,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":5},{"id":"GO:0042102","count":5},{"id":"GO:0006910","count":5},{"id":"GO:0007156","count":5},{"id":"GO:0086014","count":5}]},{"hash":"1150165353884378725","title":"Ubiquitin-Dependent Protein Turnover","description":"The cluster is named Ubiquitin-Dependent Protein Turnover because the top GO terms are strongly centered on ubiquitination processes (ubiquitin-dependent protein catabolic process, regulation of protein ubiquitination, and K33-linked ubiquitination), indicating a common function in tagging and removing proteins. A few terms related to immune signaling and organ development appear, likely reflecting pleiotropy or incidental annotations rather than a cohesive alternative theme.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0050853","count":5},{"id":"GO:0002467","count":4},{"id":"GO:0031397","count":4},{"id":"GO:0070294","count":4}]},{"hash":"874443729964232073","title":"Embryonic Development and Morphogenesis","description":"Top GO terms indicate broad embryonic development across multiple tissues (endocrine system, cartilage, mesoderm, hair follicles, placenta, pancreas, palate) with patterning and EMT events, suggesting a general role in embryogenesis and organ morphogenesis rather than a tissue-specific pathway.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":11},{"id":"GO:0060536","count":11},{"id":"GO:0060972","count":11},{"id":"GO:0003323","count":11},{"id":"GO:0003198","count":11}]},{"hash":"1861477311386032695","title":"Embryonic development and organ morphogenesis","description":"The GO terms cluster around embryogenesis and tissue/organ morphogenesis\u2014including mesoderm development, endocardial cushion EMT, cartilage morphogenesis, left-right patterning, roof of mouth formation, placental/trophoblast differentiation, and endocrine system development\u2014suggesting proteins involved in developmental morphogenesis rather than mature cell functions.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":12},{"id":"GO:0060536","count":12},{"id":"GO:0003323","count":12},{"id":"GO:0060707","count":12},{"id":"GO:0010957","count":12}]},{"hash":"1329964135848571072","title":"Skin development and keratinocyte dynamics","description":"This cluster is dominated by GO terms related to epidermal development, including establishment of skin barrier, hair follicle morphogenesis, and keratinocyte migration, which together point to skin formation and keratinocyte behavior as the main theme. Additional terms for general transcription regulation and innate immune signaling may reflect shared regulatory roles or annotation breadth rather than a core function of the cluster. Confidence: Medium","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0061436","count":3},{"id":"GO:0031069","count":3},{"id":"GO:0031081","count":3},{"id":"GO:0021510","count":3},{"id":"GO:0006355","count":3}]},{"hash":"1024370091191091952","title":"Neural Sensory Signaling and Temperature Response","description":"The cluster shows enrichment for temperature-related responses (cellular response to temperature stimulus, diet-induced thermogenesis) and sensory processes (pain, vision) along with GPCR-cGMP signaling and membrane potential regulation, pointing to neural signaling and sensory processing modulated by temperature cues. A few terms on digestion, cardiac function, and development may reflect broader tissue signaling but do not outweigh the core neural/sensory theme.","confidence":"Medium","size":12,"edges":39,"triangles":50,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":7},{"id":"GO:0002024","count":7},{"id":"GO:0019233","count":7},{"id":"GO:0042391","count":6},{"id":"GO:0007199","count":5}]},{"hash":"2138456770244515535","title":"Dopaminergic reward signaling and drug response","description":"This cluster centers on dopaminergic synaptic transmission and behaviors linked to drug responses (morphine, cocaine), with accompanying regulation of ERK1/ERK2 signaling and GTPase activity\u2014key for synaptic plasticity. Although terms like heart development and visual perception appear, the dominant theme is neural signaling in reward pathways and their modulation by drugs. Thus, the label captures the core function of this group.","confidence":"Medium","size":12,"edges":65,"triangles":210,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":11},{"id":"GO:0070374","count":11},{"id":"GO:0043547","count":11},{"id":"GO:0001963","count":11},{"id":"GO:0043278","count":11}]},{"hash":"871456684004687872","title":"Keratinocyte differentiation and growth signaling","description":"This cluster is strongly enriched for keratinocyte differentiation and growth-regulating pathways, notably Wnt signaling and Hippo signaling, along with apoptosis. Together these terms suggest a cohesive theme of epidermal differentiation and proliferation/survival control, with additional signaling components (tyrosine autophosphorylation) and immune-associated terms that fit within skin-related signaling networks.","confidence":"High","size":12,"edges":48,"triangles":101,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060044","count":10},{"id":"GO:0090263","count":10},{"id":"GO:0006915","count":10},{"id":"GO:0046827","count":10},{"id":"GO:0030216","count":10}]},{"hash":"2225182846388686234","title":"Amino Acid Metabolism and Heme Biosynthesis","description":"This cluster centers on amino acid metabolism\u2014alanine, tyrosine, lysine, and glutamate catabolic/biosynthetic processes\u2014and porphyrin/heme biosynthesis (protoporphyrinogen IX and heme). Oxaloacetate metabolism ties into central carbon metabolism, reinforcing a metabolic module focused on amino acid flux and heme production. A few terms like transcription and fatty acid transport are present but do not define the core theme. Overall, the shared functions point to coordinated amino acid turnover and heme biosynthesis.","confidence":"Medium","size":12,"edges":28,"triangles":45,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042853","count":7},{"id":"GO:0006571","count":6},{"id":"GO:0019878","count":6},{"id":"GO:0006107","count":5},{"id":"GO:0006351","count":5}]},{"hash":"1043909683515025067","title":"Multifaceted kinase signaling and cytoskeleton dynamics","description":"The top GO terms center on kinase activity (peptidyl-tyrosine autophosphorylation), cytoskeletal regulation (actin reorganization), and various signaling cascades (PI3K, osmosensory signaling) that influence cell migration, proliferation, and stress responses. While the terms span different contexts (yeast osmolarity sensing to mammalian angiogenesis and cardiac regulation), they collectively point to diverse signaling pathways modulating cytoskeletal dynamics and cellular behavior. Confidence reflects a reasonable link to signaling/cytoskeletal processes without a single cohesive function.","confidence":"Medium","size":12,"edges":22,"triangles":12,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038083","count":12},{"id":"GO:2000251","count":12},{"id":"GO:0060044","count":12},{"id":"GO:0014068","count":12},{"id":"GO:0001806","count":12}]},{"hash":"371044136734722756","title":"Developmental Signaling and Morphogenesis","description":"The GO terms point to signaling pathways (Wnt, GPCR), regulation of angiogenesis and cell migration, and developmental processes such as bone ossification and neuronal migration, indicating proteins involved in developmental signaling and morphogenesis across tissues. Some terms reflect broader contexts, but the core theme is signaling-driven development.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0016525","count":3},{"id":"GO:0033138","count":3},{"id":"GO:0022028","count":3},{"id":"GO:0090051","count":3}]},{"hash":"783246159548836676","title":"Plant lipid and secondary metabolite biosynthesis","description":"The top GO terms cluster around diverse biosynthetic pathways in plants\u2014lipids (sterol, long-chain fatty-acyl-CoA), SAM-related methylation, and various secondary metabolite and cell-wall\u2013related routes (phenylpropanoid, UDP-L-arabinose, sporopollenin). A minor signal for innate immune response suggests defense connections, but the dominant pattern points to broad plant biosynthesis rather than a single unified process. Confidence: Medium","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0035336","count":1},{"id":"GO:0033358","count":1},{"id":"GO:0009699","count":1}]},{"hash":"1780495675397546600","title":"Innate Immune Signaling and Lymphangiogenesis","description":"The top terms cluster around immune activation and recognition (basophil activation, Fc-gamma receptor signaling, complement activation, response to fungal origin) and lymphatic vessel formation (lymph vessel morphogenesis). Some terms reflect broader developmental contexts (cartilage condensation, mesonephric duct development), but the dominant signal points to innate immune signaling linked to lymphatic development, making this a coherent label. ","confidence":"Medium","size":12,"edges":13,"triangles":0,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060355","count":7},{"id":"GO:0001502","count":7},{"id":"GO:2000502","count":7},{"id":"GO:0071226","count":7},{"id":"GO:0051873","count":7}]},{"hash":"1583696778220650465","title":"Unknown","description":"The top GO terms span fertilization, hypoxia response, proteolysis/ubiquitin pathways, translation initiation/reinitiation, brain development, and plant pattern formation. This mix suggests there is no single shared function driving the cluster, despite some emphasis on protein turnover and translation. The lack of a unifying biological theme makes it hard to assign a cohesive label.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007338","count":3},{"id":"GO:0031146","count":3},{"id":"GO:0071456","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0001731","count":3}]},{"hash":"739342280431378231","title":"SMAD-regulated mesenchymal development","description":"The cluster centers on SMAD protein signal transduction and mesenchyme development, with several differentiation and organogenesis terms (cardiac atrium formation, valve morphogenesis, osteoblast differentiation, lens fiber cell differentiation, myelination). This suggests a developmental program where SMAD/TGF-\u03b2 signaling guides mesenchymal differentiation across multiple tissues, with transcriptional activity via RNA polymerase II driving these processes.","confidence":"Medium","size":12,"edges":38,"triangles":84,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":8},{"id":"GO:0003184","count":5},{"id":"GO:0045669","count":5},{"id":"GO:0042552","count":5},{"id":"GO:0060395","count":4}]},{"hash":"919023295954972674","title":"Mammary lipid and steroid hormone metabolism","description":"The cluster features strong signals for lipid and steroid hormone pathways: cholesterol catabolic process, triglyceride metabolic process, omega-hydroxylase P450 pathway, cortisol biosynthetic process, and androgen metabolic process. It also includes mammary gland development and maternal processes involved in parturition, suggesting a coordinated program of lipid/hormone metabolism during mammary gland development and lactation. The presence of cell-cycle regulation terms aligns with proliferative phases in mammary tissue. Overall, a cohesive mammary-focused metabolic and developmental theme fits these terms well.","confidence":"High","size":12,"edges":19,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0070989","count":7},{"id":"GO:0060137","count":7},{"id":"GO:0030879","count":7},{"id":"GO:0006707","count":7},{"id":"GO:0010760","count":7}]},{"hash":"625042149923820809","title":"Unknown","description":"The top GO terms are highly diverse (gastric acid secretion, serotonin receptor signaling, cardiac muscle contraction, midgut development, eosinophil chemotaxis, smooth muscle contraction, urine volume regulation, T cell differentiation, calcium release, and temperature response) with no clear single function tying the proteins together. This scatter suggests no cohesive theme for a meaningful label, so Unknown with no confidence.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":6},{"id":"GO:0007208","count":6},{"id":"GO:0055117","count":6},{"id":"GO:0007497","count":6},{"id":"GO:0048245","count":6}]},{"hash":"2204003784613247456","title":"Mammalian developmental differentiation and RA signaling","description":"The cluster\u2019s terms center on diverse vertebrate development processes (mammary gland, Leydig cell, vagina, face, fat cell development) together with transcriptional regulation (DNA-templated transcription) and signaling pathways (p38 MAPK, cellular response to retinoic acid). This points to a cohesive theme of developmental differentiation regulated by transcriptional and signaling mechanisms, with retinoic acid signaling playing a notable role. Therefore, the label reflects a group of proteins involved in mammalian development and differentiation with RA-associated signaling.","confidence":"Medium","size":12,"edges":5,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0060749","count":5},{"id":"GO:0033327","count":5},{"id":"GO:0060068","count":4},{"id":"GO:0090188","count":4}]},{"hash":"2126373843473060935","title":"Cardiac development and neural signaling","description":"This cluster centers on cardiac morphogenesis and heart-field signaling (Notch in heart field, atrial morphogenesis, venous endothelial differentiation, cardiac proliferation control) but also includes neural-related processes (synaptic plasticity regulation, axon fasciculation, ephrin signaling). The combination suggests proteins involved in cardiovascular development with complementary neural signaling/connectivity roles, hence a dual-theme label.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1900383","count":4},{"id":"GO:0003270","count":4},{"id":"GO:0033280","count":4},{"id":"GO:0003213","count":4},{"id":"GO:0060843","count":4}]},{"hash":"848146088657767363","title":"Epidermal Keratinocyte Migration and Keratinization","description":"The cluster\u2019s top GO terms cluster around keratinocytes and epithelial biology: keratinocyte proliferation, migration, keratinization, and establishment of epithelial cell polarity, pointing to epidermal differentiation and movement. Peripheral terms about apoptosis in hepatocytes and myeloid cells and other processes appear less central. Overall, the dominant theme is epidermal/keratinocyte dynamics, justifying this label.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":4},{"id":"GO:0033028","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0090162","count":2},{"id":"GO:0007205","count":2}]},{"hash":"1800290082982524555","title":"mRNA processing and spliceosome regulation","description":"The cluster is dominated by terms related to RNA maturation\u2014polyadenylation, mRNA splicing via the spliceosome, and regulation of alternative splicing\u2014as well as translation initiation/reinitiation, pointing to a cohesive group of RNA processing and translation-control factors. A small, separate signal for defense response to Gram-positive bacteria appears but does not define the primary theme. ","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":4},{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0048025","count":3},{"id":"GO:0045292","count":3}]},{"hash":"1321315852272824584","title":"Lymphocyte activation and signaling","description":"These terms cluster around adaptive immunity (B cell maturation, IL-4 production, NK T cell differentiation) and immune signaling pathways (GTPase/Ras/Rac) with regulation at ubiquitin and miRNA levels, suggesting a protein group involved in lymphocyte activation and downstream signaling control.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0045737","count":2},{"id":"GO:0090630","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0035278","count":2}]},{"hash":"481060111875164565","title":"Neuronal signaling and mitochondrial dynamics","description":"The top GO terms cluster around neuronal function\u2014adult locomotory behavior, dendritic spine morphogenesis, neurotransmitter secretion, and epinephrine response\u2014while also highlighting mitochondrial organization/assembly and endosome-lysosome trafficking, suggesting coordinated neuronal signaling with mitochondrial dynamics and receptor trafficking.","confidence":"Medium","size":12,"edges":12,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0008344","count":3},{"id":"GO:0033617","count":2},{"id":"GO:0008333","count":2},{"id":"GO:0061003","count":2},{"id":"GO:1990172","count":2}]},{"hash":"1135359533270950830","title":"Neural Development and Energy Metabolism","description":"The terms indicate neural development (cerebellar cortex and olfactory bulb layer formation, pyramidal neuron development, neuronal migration) together with core metabolic processes (TCA cycle, glycolysis, glucose metabolism, branched-chain amino acid catabolism, glyoxylate metabolism), suggesting a cluster of proteins involved in neurodevelopmental programs and neuronal energy production.","confidence":"High","size":12,"edges":64,"triangles":201,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0061732","count":1},{"id":"GO:0021695","count":1},{"id":"GO:0061034","count":1},{"id":"GO:0009083","count":1},{"id":"GO:0006099","count":1}]},{"hash":"1490916914047762959","title":"Germinal center and adaptive immune signaling","description":"The cluster shows GO terms centered on germinal center formation, B cell receptor signaling, memory T cell differentiation, type 2 immune response, and isotype switching regulation, indicating a cohesive theme of adaptive immune activation and regulation. Additional terms related to mast cell cytokine production and protein ubiquitination regulation fit into immune signaling control, reinforcing the overall immune-focused function.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0002467","count":3},{"id":"GO:1900477","count":3},{"id":"GO:0032764","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0031397","count":3}]},{"hash":"1311811763562072541","title":"Lymphocyte development and cytokine signaling","description":"The top GO terms cluster around immune system processes: interleukin-4 production, B cell affinity maturation, NK T cell differentiation, and cellular response to interleukin-7, with supporting terms on insulin receptor signaling and cell migration. This points to a cohesive theme of lymphocyte development and cytokine-driven signaling, with some metabolic signaling cross-talk reflected by insulin signaling terms. Confidence in this label is Moderate because a few terms (e.g., heart development) are less clearly connected to the core immune functions.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032633","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0002344","count":3},{"id":"GO:0001865","count":3},{"id":"GO:0046626","count":3}]},{"hash":"689331368634903151","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":15,"triangles":0,"max_degree":7,"top_function":"autophagy","top_go_terms":[{"id":"GO:0035372","count":8},{"id":"GO:1902187","count":8},{"id":"GO:0007014","count":8},{"id":"GO:0046597","count":8},{"id":"GO:0006914","count":8}]},{"hash":"769782070871730139","title":"Adaptive immune signaling and vascular development","description":"The cluster shows strong representation of adaptive immune signaling terms (B cell receptor signaling, Fc-epsilon receptor signaling, T cell receptor signaling regulation, adaptive immune response) and related vascular/hematopoietic development terms (angiogenesis, megakaryocyte and heart development), suggesting a group of proteins coordinating immune receptor signaling with hematopoietic-vascular processes.","confidence":"Medium","size":12,"edges":12,"triangles":1,"max_degree":5,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043552","count":8},{"id":"GO:0050853","count":7},{"id":"GO:0035023","count":7},{"id":"GO:0007507","count":6},{"id":"GO:0070374","count":6}]},{"hash":"1047328422246207528","title":"Immune signaling and epigenetic regulation","description":"This cluster highlights immune-related processes (neutrophil clearance, dendritic cell differentiation, IgA isotype switching) alongside signaling (TGF-beta and Wnt) and transcriptional/epigenetic control (DNA-templated transcription, histone/DNA methylation). While some development-related terms may be annotation noise, the dominant pattern points to immune signaling with transcriptional/epigenetic regulation. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097350","count":6},{"id":"GO:0071560","count":6},{"id":"GO:0043046","count":5},{"id":"GO:0003290","count":5},{"id":"GO:0048298","count":5}]},{"hash":"1861807470920576005","title":"Unknown","description":"The top GO terms are highly heterogeneous (maternal axis specification; DNA catabolic process and recombination; apoptotic process; cellular response to peptide hormone stimulus; xenobiotic response; cell cycle regulation), with no clear shared function or pathway linking the proteins. The lack of interactions (edges 0) further supports that a cohesive, specific label cannot be assigned.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007311","count":2},{"id":"GO:0006308","count":1},{"id":"GO:0006915","count":1},{"id":"GO:2000466","count":1},{"id":"GO:0071375","count":1}]},{"hash":"753266396620607894","title":"TLR-driven innate inflammation and IL-1 regulation","description":"This cluster centers on innate immune signaling and inflammatory control, highlighted by GO terms for Toll-like receptor signaling (including TLR10), lipopolysaccharide-mediated signaling, defense against Gram-negative bacteria, and both positive and negative regulation of IL-1 production and inflammatory responses. The presence of SCF-dependent ubiquitin-proteasome\u2013mediated protein catabolism aligns with regulated signaling turnover in immune pathways, reinforcing a theme of tightly controlled inflammation.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":3},{"id":"GO:0050711","count":2},{"id":"GO:0050729","count":2},{"id":"GO:0050829","count":2},{"id":"GO:0031663","count":2}]},{"hash":"2120185940897408157","title":"Aminoacyl-tRNA Synthetases and Translation Machinery","description":"The cluster is enriched for translation-related terms and multiple aminoacyl-tRNA synthetase activities (prolyl-, glutaminyl-, glutamyl-tRNA charging), along with tRNA modification and selenocysteine incorporation, pointing to a cohesive set of proteins involved in translation and tRNA charging. Developmental terms may reflect expression contexts but do not define the core function of the group.","confidence":"High","size":12,"edges":10,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0030324","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0046785","count":2},{"id":"GO:0006400","count":1}]},{"hash":"416162207359233471","title":"Immune signaling in developmental morphogenesis","description":"This cluster mixes immune activation and signaling terms (basophil activation, Fc-gamma receptor signaling, phagocytosis recognition, NK cell chemotaxis regulation, platelet activation) with developmental and morphogenetic terms (mesonephric duct and metanephric organ development, lymph vessel morphogenesis, cartilage condensation, cell adhesion molecule regulation). The common theme appears to be immune signaling intersecting with developmental/vascular/lymphatic morphogenesis, though the connection is broad and somewhat heterogeneous. ","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0072177","count":12},{"id":"GO:0045575","count":12},{"id":"GO:0060355","count":12},{"id":"GO:0038094","count":12},{"id":"GO:0036303","count":12}]},{"hash":"775674758145207555","title":"Multi-tissue Development and Differentiation","description":"The terms span epidermal keratinization and differentiation across neural, hepatic, cardiac, spinal cord, kidney, cartilage, and muscle contexts, suggesting a broad developmental/differentiation theme rather than a single pathway.","confidence":"Medium","size":12,"edges":42,"triangles":86,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":8},{"id":"GO:0021642","count":3},{"id":"GO:0061017","count":3},{"id":"GO:0021544","count":3},{"id":"GO:0051216","count":3}]},{"hash":"721160260414453047","title":"Craniofacial and neural development","description":"The terms cluster around embryonic development of craniofacial structures and neural tissues (roof of mouth, inner ear, midbrain, cranial skeleton morphogenesis, cartilage, pituitary, mesoderm), with an accompanying transcriptional regulatory function. This points to a cohesive theme of developmental programs in craniofacial/ neural contexts and their regulation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0060021","count":4},{"id":"GO:0048839","count":4},{"id":"GO:1903142","count":3},{"id":"GO:0030901","count":3}]},{"hash":"674047204062942429","title":"Embryonic morphogenesis and mesoderm development","description":"Top GO terms point to embryonic development and tissue morphogenesis, especially mesoderm-derived processes such as palate (roof of mouth) development, cartilage morphogenesis, and left-right pattern formation. Terms like endocardial cushion EMT and mesoderm development reinforce a mesodermal morphogenesis theme, with regulatory terms suggesting developmental control rather than core structural roles.","confidence":"High","size":12,"edges":5,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":10},{"id":"GO:0000122","count":8},{"id":"GO:0003198","count":7},{"id":"GO:0060536","count":7},{"id":"GO:0003323","count":7}]},{"hash":"2197636590282256493","title":"Innate Immune Signaling and Neutrophil Activation","description":"This cluster is dominated by GO terms for innate immune response, cellular response to lipopolysaccharide, and neutrophil degranulation, pointing to neutrophil-driven innate immunity. Additional terms indicate signal transduction roles (ERK cascade, STAT phosphorylation) and intercellular signaling, consistent with a coordinated immune response to pathogens and viral defense. Some terms (neuropeptide signaling, NAD+ catabolic process) may be ancillary, but do not override the central theme of innate immune signaling and neutrophil function.","confidence":"High","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0043312","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0007218","count":2}]},{"hash":"484099518179650486","title":"Neural autophagy and signaling","description":"The terms cluster around autophagy regulation (positive regulation of macroautophagy, cellular response to chloroquine), neural development processes (myelination, axonogenesis), and various signaling/inflammatory pathways (CAMKK-AMPK signaling, receptor tyrosine kinase signaling, inflammatory defense). This suggests a theme of autophagy-linked signaling in neural development and immune-related responses, rather than a single tightly defined process.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016239","count":2},{"id":"GO:1902350","count":2},{"id":"GO:0042552","count":2},{"id":"GO:0050729","count":1},{"id":"GO:1905289","count":1}]},{"hash":"2294268184606226324","title":"Muscle fiber assembly and mitochondrial energy","description":"The top terms are dominated by skeletal muscle-related processes (thin filament assembly, muscle fiber adaptation) and mitochondrial localization, suggesting the proteins are primarily involved in muscle structure and energy distribution. While there are additional terms touching chromatin remodeling and other tissues, the strongest, most representative signal is muscle fiber organization and mitochondrial energy management.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0030240","count":10},{"id":"GO:0006348","count":10},{"id":"GO:0043983","count":10},{"id":"GO:0000011","count":10},{"id":"GO:0006909","count":10}]},{"hash":"1591466885522703795","title":"Spliceosome-driven RNA processing and mRNA decay","description":"The top GO terms cluster around RNA maturation and processing: spliceosome assembly and mRNA splicing via spliceosome, tRNA processing, P-body assembly, and deadenylation-dependent decapping of nuclear-transcribed mRNA, plus rRNA maturation and nuclear import. These together point to a cohesive RNA-processing and surveillance module, with auxiliary links to chromatin and stress-related regulation. Confidence is High.","confidence":"","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0000245","count":10},{"id":"GO:0045292","count":9},{"id":"GO:0009414","count":8},{"id":"GO:0008033","count":8},{"id":"GO:1990141","count":8}]},{"hash":"1305948694124200577","title":"Spliceosome-mediated mRNA processing and export","description":"The cluster is enriched for GO terms centered on spliceosome-driven splicing (including regulation of alternative and general splicing) as well as mRNA export, modification, and translation initiation regulation, indicating proteins involved in post-transcriptional mRNA processing and nuclear export rather than transcriptional activity.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":5},{"id":"GO:1905663","count":5},{"id":"GO:0016556","count":5},{"id":"GO:1903586","count":5},{"id":"GO:0006406","count":5}]},{"hash":"448875426633363318","title":"Mitochondrial apoptosis regulation","description":"This cluster is driven by GO terms tied to apoptosis control and mitochondrial signaling, notably regulation of cytochrome c release from mitochondria, apoptotic DNA fragmentation, and related transcriptional and signaling pathway modulation (TNF and TGF-beta). While a few terms touch on transcription regulation and lipid metabolism, the strongest shared signal is orchestration of cell death via mitochondrial pathways, suggesting a cohesive apoptosis-regulatory role.","confidence":"High","size":11,"edges":26,"triangles":21,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0097202","count":2},{"id":"GO:1902511","count":2},{"id":"GO:0030263","count":2},{"id":"GO:0032720","count":2}]},{"hash":"368387398481286148","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000447","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0005987","count":2},{"id":"GO:0061412","count":2}]},{"hash":"2207191055819544764","title":"Ubiquitin-Dependent Proteolysis in Mitosis","description":"This cluster centers on ubiquitin-mediated protein turnover during cell division, with terms for K11-linked ubiquitination, APC/C- and SCF-dependent proteolysis, mitotic cell cycle, and ubiquitin-dependent protein catabolic processes.","confidence":"High","size":11,"edges":30,"triangles":25,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070979","count":7},{"id":"GO:0031145","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0042787","count":6},{"id":"GO:0000278","count":6}]},{"hash":"222117195839427536","title":"Mitochondrial metabolism and xenobiotic response","description":"The top GO terms emphasize energy-related processes (mitochondrial electron transport) and breakdown of small molecules (propylene, uracil, halogen catabolism) together with responses to xenobiotics and fungicides, suggesting a cluster focused on metabolism and chemical stress responses. Some neural development terms appear as less-consistent outliers, but overall the theme centers on metabolism and detoxification.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034720","count":3},{"id":"GO:0006120","count":2},{"id":"GO:0042208","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0070276","count":2}]},{"hash":"401704653344522579","title":"Immune and sensory signaling with transcriptional regulation","description":"This cluster mixes immune-related signaling (T cell receptor signaling, GM-CSF response, LPS response), GPCR/cGMP\u2013pathway regulation (sensory perception of smell, cellular response to cGMP, receptor guanylyl cyclase signaling), and transcriptional control (DNA-templated transcription and its regulation). The convergence on stimulus-responsive signaling and downstream transcriptional changes suggests proteins involved in translating external cues (immune and sensory stimuli) into cellular responses.","confidence":"Medium","size":11,"edges":10,"triangles":5,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0007608","count":6},{"id":"GO:0071321","count":6},{"id":"GO:0010754","count":6},{"id":"GO:0071560","count":5}]},{"hash":"1979945582306921121","title":"Cytoskeleton Dynamics and Organelle Inheritance","description":"These proteins cluster around actin- and cytoskeleton-related processes (actin cortical patch assembly, cell polarity/shape maintenance, thin filament assembly) and the inheritance of organelles (vacuole and mitochondrion inheritance), plus phagocytosis, all of which depend on the cytoskeleton. Although some chromatin-related terms appear, the dominant theme is cytoskeletal dynamics governing organelle distribution and related endocytic processes. ","confidence":"High","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0000011","count":6},{"id":"GO:0071963","count":6},{"id":"GO:0000147","count":6},{"id":"GO:0000001","count":6},{"id":"GO:0030240","count":5}]},{"hash":"1883699416370575279","title":"DNA Damage Response and Repair","description":"Based on the GO terms, the cluster is enriched for DNA repair, DNA replication, and mitotic G2 DNA damage checkpoint signaling, along with apoptosis and PAR-related ATP generation, all hallmark components of the DNA damage response and repair pathways that coordinate replication, repair, and cell fate after genomic stress. Some terms like cerebral cortex development appear incidental or broader in scope, but the core theme is DDR. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0009611","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0071375","count":3},{"id":"GO:0006281","count":3},{"id":"GO:1990966","count":3}]},{"hash":"1111561383568707135","title":"Mitochondrial apoptosis and Golgi dynamics","description":"Proteins in this cluster show motifs of intrinsic apoptotic signaling in response to DNA damage and cytochrome c release, alongside Golgi-related processes such as establishment of Golgi localization and Golgi reassembly, suggesting a theme around mitochondrial apoptosis coupled with Golgi trafficking/organization. Some terms in the list are less directly connected (e.g., keratinization, cortical development), but the core signal centers on apoptotic signaling and Golgi dynamics.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0051291","count":8},{"id":"GO:0051683","count":7},{"id":"GO:0006977","count":7},{"id":"GO:0043154","count":7},{"id":"GO:0006713","count":7}]},{"hash":"2077600101924253537","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":4},{"id":"GO:0006108","count":3},{"id":"GO:0044209","count":3},{"id":"GO:0006169","count":3},{"id":"GO:0006175","count":3}]},{"hash":"933567630097831857","title":"Chemical stress response and heme biosynthesis","description":"The top GO terms cluster around responses to diverse chemical stimuli (lipopolysaccharide, metal ions, xenobiotics, ethanol, vitamin B1) and together with protoporphyrinogen IX and heme biosynthetic processes, suggesting proteins involved in chemical stress adaptation and heme metabolism.","confidence":"Medium","size":11,"edges":24,"triangles":30,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":6},{"id":"GO:0010044","count":6},{"id":"GO:0006782","count":6},{"id":"GO:0070541","count":6},{"id":"GO:0006783","count":6}]},{"hash":"2155173217295492213","title":"ER stress\u2013driven translation and signaling cluster","description":"This group has strong hints of ER stress and translation control, with core terms like response to unfolded protein, cellular response to ER stress, and positive regulation of translation initiation in response to ER stress. Other terms such as interferon-alpha response, and even mitotic cell cycle or neuronal signaling terms, suggest these proteins may be multifunctional or participate in broader signaling networks. The central theme appears to be ER stress\u2013related signaling and translation regulation, with additional, less-specific regulatory roles.","confidence":"Medium","size":11,"edges":6,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0060079","count":3},{"id":"GO:0003073","count":3},{"id":"GO:0031400","count":2},{"id":"GO:0016576","count":2}]},{"hash":"279664471556138812","title":"Heterochromatin formation and chromatin silencing","description":"This cluster is dominated by GO terms tied to heterochromatin formation, DNA methylation-dependent and constitutive silencing, histone deacetylation, and localization to heterochromatic regions (subtelomeres, pericentromeres, and rDNA repeats), indicating a coherent epigenetic silencing module.","confidence":"High","size":11,"edges":52,"triangles":140,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045668","count":11},{"id":"GO:0070933","count":11},{"id":"GO:0070845","count":11},{"id":"GO:1902894","count":11},{"id":"GO:0034503","count":11}]},{"hash":"1574429447457092413","title":"Ubiquitin-Dependent Protein Degradation (ERAD)","description":"The top GO terms cluster around ubiquitin-dependent proteolysis and ER-associated degradation (ERAD), including ubiquitination and APC-dependent catabolic processes. Immune-defense terms may reflect downstream regulation by ubiquitin systems, but the core theme is protein turnover via ubiquitin-mediated degradation.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030433","count":6},{"id":"GO:0042787","count":6},{"id":"GO:0045087","count":4},{"id":"GO:0051607","count":4},{"id":"GO:0033280","count":4}]},{"hash":"1475356294159275346","title":"Nucleotide Biosynthesis and Phosphorylation","description":"The cluster is dominated by GO terms tied to nucleotide metabolism (AMP biosynthesis, hypoxanthine biosynthetic, nucleoside metabolic processes, PRPP biosynthetic) and phosphorylation, suggesting a set of proteins involved in nucleotide production and regulation of phosphorylation states. A few terms reference development (bone, nervous system, organ regeneration), which may reflect broader roles or annotation overlap, but the strongest signal points to nucleotide metabolism and phosphorylation. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":5},{"id":"GO:0060348","count":3},{"id":"GO:0034418","count":3},{"id":"GO:0006015","count":3},{"id":"GO:0043086","count":3}]},{"hash":"196214257057803781","title":"Erythrocyte differentiation and hemoglobin metabolism","description":"The cluster is dominated by GO terms tied to red blood cell biology\u2014erythrocyte differentiation, hemopoiesis, and hemoglobin metabolic process\u2014pointing to a erythroid/hemoglobin-related function. Additional terms reflect general protein processing and mitochondrial metabolism that may support erythroid cells, but the erythroid theme is the strongest signal.","confidence":"High","size":11,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0009249","count":1},{"id":"GO:0019464","count":1},{"id":"GO:0006457","count":1},{"id":"GO:0030218","count":1},{"id":"GO:0030097","count":1}]},{"hash":"20830490950959443","title":"Developmental Differentiation Regulators","description":"The top GO terms point to developmental and differentiation processes across organisms (nephric duct elongation, nephron tubule differentiation, ectoderm formation, phloem development) and to regulatory signaling events (NFAT signaling, oskar mRNA localization, T cell homeostasis). This mix suggests proteins involved in cell fate decisions and tissue development rather than a single pathway, so a general label capturing developmental differentiation roles fits best.","confidence":"Medium","size":11,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035849","count":10},{"id":"GO:0021521","count":10},{"id":"GO:2000768","count":10},{"id":"GO:0001705","count":10},{"id":"GO:0046013","count":10}]},{"hash":"2074604648675328130","title":"Transcription Regulation and Cell Stress","description":"The top GO terms include DNA-templated transcription and negative regulation of transcription by RNA Pol II, indicating transcriptional control themes. Concurrently, terms related to endothelial apoptotic processes and hydrogen peroxide biosynthesis point to cellular stress and vascular signaling. Platelet activation and skin development suggest broader tissue contexts but still align with vascular/dermal cell function. No single dominant process emerges, so this label reflects the dual theme of transcriptional regulation and cell stress in vascular-related contexts.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000353","count":2},{"id":"GO:0030168","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0071230","count":2},{"id":"GO:0046022","count":2}]},{"hash":"559471707431494693","title":"ER-Golgi Vesicle Trafficking and SNARE Assembly","description":"The cluster is dominated by GO terms related to ER-to-Golgi vesicle transport, Golgi retention, intralumenal vesicle formation, Golgi-to-ER retrograde transport, vesicle fusion with the Golgi, and SNARE complex assembly, indicating a cohesive role in intracellular trafficking between ER and Golgi and SNARE-mediated fusion. Some terms like vacuolar targeting and a few others may reflect related trafficking processes, but the core signal is vesicle traffic at the ER-Golgi axis.","confidence":"High","size":11,"edges":12,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0045053","count":2},{"id":"GO:0070676","count":2},{"id":"GO:0048280","count":2}]},{"hash":"2074893888973604555","title":"Hypoxia-Driven Developmental Transcription and Signaling","description":"The GO terms cluster around regulation of gene expression (mRNA splicing, transcription, histone methylation) and stress/growth-factor signals (hypoxia response, p38 MAPK cascade, responses to EGF/FGF), with developmental roles in mesendoderm and proepicardium formation. Together, they suggest a transcriptional/epigenetic program coordinating heart-related development under hypoxic and growth-factor conditions. The lack of direct interaction data means the link is inferred from functional categories rather than physical associations; thus, confidence Medium.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0051567","count":3},{"id":"GO:0071456","count":3},{"id":"GO:0006351","count":3},{"id":"GO:1904582","count":2}]},{"hash":"1150774124051655331","title":"Receptor Tyrosine Kinase Signaling in Development","description":"This cluster features GO terms centered on receptor tyrosine kinase activity and autophosphorylation, indicating RTK-driven signaling. Associated developmental terms\u2014heart development, embryonic morphogenesis, and synapse organization\u2014suggest RTK pathways guiding embryogenesis and neural development. Other terms reflect common downstream processes in RTK signaling. Overall, the set represents RTK-mediated signaling with developmental roles.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0038083","count":8},{"id":"GO:0007161","count":8},{"id":"GO:0045162","count":8},{"id":"GO:0007169","count":8},{"id":"GO:0006915","count":8}]},{"hash":"2056556188027749254","title":"Receptor tyrosine kinase signaling in development","description":"Top GO terms point to peptidyl-tyrosine autophosphorylation and cell surface receptor protein tyrosine kinase signaling, coupled with heart development, embryonic morphogenesis, and synapse organization. This pattern supports a core theme of RTK-driven signaling that governs adhesion, development, and neural/synaptic organization, with some apoptotic context. The cluster seems to be tied to RTK-mediated developmental signaling and associated structural processes.","confidence":"High","size":11,"edges":53,"triangles":148,"max_degree":10,"top_function":"autophagy","top_go_terms":[{"id":"GO:0038083","count":9},{"id":"GO:0007161","count":9},{"id":"GO:0007169","count":9},{"id":"GO:0045162","count":9},{"id":"GO:0006915","count":9}]},{"hash":"1390316210817288352","title":"RTK signaling and morphogenesis","description":"The cluster is enriched for receptor tyrosine kinase signaling terms (GO:0007169, GO:0038083) including autophosphorylation, along with adhesion, synapse organization, and developmental processes (heart development, embryonic morphogenesis). This points to a set of proteins functioning in RTK-driven signaling that coordinates adhesion, neural/synaptic organization, and morphogenesis during development.","confidence":"High","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0038083","count":4},{"id":"GO:0007161","count":4},{"id":"GO:0045162","count":4},{"id":"GO:0007169","count":4},{"id":"GO:0006915","count":4}]},{"hash":"1429115211631350631","title":"Nervous system development and myelination","description":"Top GO terms indicate neural development, paranode localization, synapse organization, myelination, and nerve impulse transmission, with supportive Hedgehog signaling, suggesting proteins function in neuronal development and myelination.","confidence":"High","size":11,"edges":50,"triangles":125,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0002175","count":6},{"id":"GO:0050808","count":6},{"id":"GO:0001525","count":6},{"id":"GO:0007224","count":6},{"id":"GO:0007422","count":6}]},{"hash":"365479783195262786","title":"Axon Guidance and Neural Development","description":"The top GO terms cluster around neuronal development and guidance of axons, including branchiomotor neuron axon guidance, optic vesicle formation, positive regulation of axonogenesis, and postganglionic parasympathetic fiber development, with semaphorin-plexin signaling and receptor tyrosine kinase signaling supporting guidance cue signaling. Despite a couple of obsolete entries, the dominant theme is neurite outgrowth and axon pathfinding.","confidence":"High","size":11,"edges":9,"triangles":0,"max_degree":5,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0007169","count":4},{"id":"GO:1900220","count":3},{"id":"GO:0006893","count":3},{"id":"GO:2000305","count":3},{"id":"GO:0021785","count":3}]},{"hash":"2024560746100490505","title":"Quinone and Tetrapyrrole Cofactor Biosynthesis","description":"Most of the top GO terms describe biosynthetic processes for quinones (phylloquinone, menaquinone, plastoquinone, ubiquinone) and tetrapyrroles (heme O, chlorophyll). This suggests the proteins cluster around cofactor biosynthesis for photosynthetic/electron transport functions, with a few unrelated terms noise. Confidence reflects a strong, representative theme.","confidence":"High","size":11,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0042372","count":1},{"id":"GO:0042371","count":1},{"id":"GO:0009234","count":1},{"id":"GO:0048034","count":1},{"id":"GO:0015995","count":1}]},{"hash":"660429588021584641","title":"Cardiac and skeletal muscle development","description":"These terms cluster around developmental processes with a clear emphasis on heart and skeletal muscle formation and function, including heart development, skeletal muscle fiber development, and regulation of cardiac muscle contraction. Supporting signals (NF-kappaB signaling, kinase activity regulation) and responses (epinephrine) suggest a cohesive theme of developmental regulation of cardiac and skeletal muscle tissue, with broader multicellular development and neural crest involvement reflecting shared developmental pathways.","confidence":"Medium","size":11,"edges":11,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0014029","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0007601","count":3}]},{"hash":"1523298075145469407","title":"Ciliary Transport and Developmental Cytoskeleton","description":"This cluster centers on ciliary function and cytoskeletal dynamics: intraciliary retrograde transport and microtubule-based movement, together with mitotic spindle assembly and actin filament depolymerization. It also includes developmental themes (multicellular development, left-right symmetry, skin development), suggesting a shared role in cytoskeletal organization that supports development and cellular architecture. The mixture of cilia-related transport and developmental processes points to a cohesive theme around how cytoskeletal dynamics drive development and ciliary function.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007018","count":3},{"id":"GO:0035721","count":3},{"id":"GO:0031954","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0030433","count":3}]},{"hash":"1506418079981524645","title":"Unknown","description":"The top GO terms are a mix of xenobiotic response, cell cycle checkpoint signaling, general signal transduction, metal ion response, transcription, ribosome export, vitamin biosynthesis, post-translational modification, RNA methylation, and lipid biosynthesis, with no single cohesive function tying the proteins together. This lack of a clear shared theme makes it unreliable to assign a concise, representative label.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":3},{"id":"GO:0031578","count":3},{"id":"GO:0007165","count":3},{"id":"GO:0032026","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1112581547413490169","title":"Vertebrate neural development and stress responses","description":"The top GO terms cluster around vertebrate development (forebrain development, neural tube closure, skeletal system development, multicellular organism development), with associated cellular stress responses (ER stress\u2013related apoptotic signaling, hypoxia, cadmium response). While there is some immune-related term, the dominant signal points to developmental programs in neural/vertebrate tissues that also engage stress signaling pathways.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":7},{"id":"GO:0001501","count":7},{"id":"GO:0050830","count":7},{"id":"GO:0030900","count":7},{"id":"GO:0001843","count":6}]},{"hash":"18112374446494489","title":"Cell Cycle Regulation and Protein Homeostasis","description":"Based on the top GO terms, the cluster centers on mitotic processes (Okazaki fragment processing in mitotic DNA replication, APC-dependent catabolic process, chromosome segregation) with supporting roles for protein quality control (ubiquitin-dependent ERAD) and intracellular trafficking (Golgi to ER), plus cell growth signaling (TORC1). This suggests a general theme of cell-cycle control coupled with protein quality and trafficking housekeeping, rather than a single narrowly defined pathway. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1904263","count":9},{"id":"GO:0030433","count":8},{"id":"GO:2000011","count":7},{"id":"GO:0031930","count":7},{"id":"GO:0045143","count":7}]},{"hash":"281907205041171585","title":"Epithelial Polarity and Branching Morphogenesis","description":"Top GO terms cluster around epithelial cell polarity establishment, cytoskeletal remodeling (actin filament bundles), small GTPase signaling, and branching morphogenesis in epithelia, including labyrinthine layer and mammary gland duct development, with concurrent EGFR signaling. These suggest a cohesive theme of epithelial polarity-directed migration and morphogenesis, despite some peripheral terms and lack of direct interactions in this cluster. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032212","count":3},{"id":"GO:0016477","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0007173","count":2},{"id":"GO:0032088","count":2}]},{"hash":"178290742510003051","title":"ER stress-driven unfolded protein response and translation regulation","description":"This cluster centers on ER stress and protein quality control, highlighted by terms for unfolded protein response, intracellular ER-related translation initiation in response to ER stress, and general protein modification regulation, with peripheral hints from mitochondrial distribution and interferon signaling annotations. The core signal supports a coherent ER stress/protein homeostasis theme.","confidence":"High","size":11,"edges":10,"triangles":0,"max_degree":10,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0048312","count":5},{"id":"GO:0072189","count":5},{"id":"GO:0031400","count":4},{"id":"GO:0035955","count":4},{"id":"GO:0009938","count":4}]},{"hash":"695965454935883018","title":"Inflammation and immune signaling","description":"The proteins show enrichment for inflammatory and immune processes, including positive regulation of inflammatory response, defense against Gram-negative bacteria, and IL-8 production, along with receptor tyrosine kinase signaling and cell migration. While terms like axonogenesis or angiogenesis regulation appear, the prevailing theme centers on inflammatory/immune signaling and leukocyte movement.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050729","count":2},{"id":"GO:1905289","count":2},{"id":"GO:0050829","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0007169","count":2}]},{"hash":"426814590286723335","title":"Sphingolipid and sterol biosynthesis","description":"The cluster shows strong enrichment for sphingolipid-related terms (MIPC metabolic process, sphinganine metabolic process, mannosyl-inositol phosphorylceramide metabolism) and sterol biosynthesis (regulation of ergosterol biosynthetic process, ergosterol biosynthetic process), along with fatty acid biosynthesis terms. This points to a coherent lipid metabolism theme, particularly involving sphingolipids and sterols (likely fungal), with a few ancillary non-lipid terms. Therefore, a label reflecting sphingolipid and sterol biosynthesis best captures the cluster\u2019s core function.","confidence":"High","size":11,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001949","count":3},{"id":"GO:0032286","count":3},{"id":"GO:0006636","count":3},{"id":"GO:0006675","count":3},{"id":"GO:0000001","count":3}]},{"hash":"2096234067716445820","title":"Translation Initiation and Ribosome Assembly","description":"The top GO terms indicate strong enrichment for translation initiation (preinitiation complex formation, cytoplasmic initiation complex, general translation) and ribosome assembly, suggesting these proteins function together in initiating protein synthesis and assembling the translation machinery. A couple of DNA repair terms appear but are likely incidental background. Overall, the cluster is best described by the translation initiation/ribosome assembly theme.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0002176","count":2},{"id":"GO:0001732","count":2},{"id":"GO:0006413","count":2},{"id":"GO:0045947","count":2}]},{"hash":"267116773232019778","title":"Mitochondrial dynamics and apoptosis","description":"The terms strongly point to mitochondrial remodeling and apoptotic signaling, including mitochondrial fragmentation in apoptosis, mitochondrial fusion, and regulation of membrane potential, as well as cytochrome c release. A few non-mitochondrial terms appear but do not define the core theme. This cluster most coherently represents proteins involved in mitochondrial dynamics and apoptotic regulation.","confidence":"Medium","size":11,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":2},{"id":"GO:0016998","count":2},{"id":"GO:0070584","count":2},{"id":"GO:0043653","count":2},{"id":"GO:0045636","count":2}]},{"hash":"1198140173448998306","title":"Epithelial polarity and junction-cytoskeleton signaling","description":"The cluster centers on epithelial cell polarity and tight junction assembly, with strong involvement of actin cytoskeleton dynamics (filopodium and crosslink formation), small GTPase regulation, and membrane trafficking processes (endocytosis and engulfment of apoptotic cells). It also includes signaling pathways (Wnt, EGFR) that interface with junctional and polarity cues, suggesting a cohesive module coordinating epithelial surface organization, with possible roles in heart development.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0070830","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0051764","count":3},{"id":"GO:0043652","count":3}]},{"hash":"895726998168025960","title":"Innate Immune Activation and Inflammation","description":"This cluster is dominated by GO terms related to innate immunity and inflammatory signaling\u2014innate immune response, mast cell degranulation, response to lipopolysaccharide, granulocyte chemotaxis, and positive regulation of inflammatory response\u2014indicating a cohesive immune-activation theme. Regulatory terms such as regulation of transcription and translation appear ancillary rather than core drivers.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043303","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0002377","count":2}]},{"hash":"1624388756286534949","title":"Innate Immune Defense and LPS Response","description":"Enriched terms point to innate immunity and bacterial defense, especially responses to lipopolysaccharide and Gram bacteria, indicating a core innate defense theme. Co-occurring GPCR signaling and T-helper 1 terms suggest signaling regulation within immune responses, with other terms implying broader cell signaling context but no contradiction to the immune focus.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0071222","count":5},{"id":"GO:0007186","count":4},{"id":"GO:1903351","count":4}]},{"hash":"1616057643933201448","title":"Mitochondrial Translation and Cofactor Biosynthesis","description":"The top GO terms cluster around mitochondrial protein synthesis (mitochondrial tRNA aminoacylation and translation) and cofactor biosynthesis (CoA and NAD+ pathways), implying involvement in mitochondrial translation and energy metabolism. Angiogenesis-related terms appear secondary and less cohesive with the core translation/cofactor theme.","confidence":"High","size":11,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0015937","count":3},{"id":"GO:0070184","count":2},{"id":"GO:0070183","count":2},{"id":"GO:0001570","count":2},{"id":"GO:0006412","count":2}]},{"hash":"701964297979268563","title":"Cytokine-driven inflammatory response","description":"The top GO terms converge on innate immune defense and cytokine production, including defense responses to protozoan and to virus, and specific cytokines IL-1\u03b2 and IL-18 production, plus positive regulation of cytokine production in inflammatory response. While there are a few terms related to neural contexts (glial differentiation and NMJ assembly), the dominant signal is inflammatory/immune signaling via cytokines.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042832","count":10},{"id":"GO:0050702","count":9},{"id":"GO:0045687","count":9},{"id":"GO:0007029","count":9},{"id":"GO:1900017","count":9}]},{"hash":"1410007230307556671","title":"Intracellular transport and membrane dynamics","description":"This cluster is dominated by terms related to intracellular transport and membrane dynamics (endosome to melanosome transport, mRNA transport, GTPase activity regulation, mitotic nuclear membrane reassembly). Although a few terms touch chromatin regulation or immune degranulation, the strongest signal points to vesicle trafficking and membrane-associated regulation as the cluster's core function.","confidence":"Medium","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:1903538","count":1},{"id":"GO:0035646","count":1},{"id":"GO:0070262","count":1},{"id":"GO:0007084","count":1}]},{"hash":"1855683946997880759","title":"Eye Development and Embryogenesis","description":"The cluster strongly features GO terms for camera-type eye development and embryonic eye morphogenesis, plus related developmental processes (primitive streak formation, trochlear nerve formation, peripheral nervous system neuron development) and transcriptional regulation, suggesting a vertebrate embryonic development theme focused on eye formation.","confidence":"High","size":11,"edges":5,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":7},{"id":"GO:0043010","count":7},{"id":"GO:0048048","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0060441","count":7}]},{"hash":"797094404146355096","title":"Mitochondrial respiration and metabolite transport","description":"The Top Terms are largely about mitochondrial function (mitochondrial respiratory chain complex IV assembly and respirasome assembly) and a set of membrane transporter activities for nutrients (glucose, biotin, myo-inositol, pantothenate) and ions. This combination suggests a cluster centered on mitochondrial energy production and cellular uptake of metabolites, with a minor note of ER stress and cytochrome c release regulation. Overall, the cluster seems best described as mitochondrial function with associated transport processes.","confidence":"Medium","size":11,"edges":11,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":3},{"id":"GO:0008292","count":3},{"id":"GO:1904659","count":3},{"id":"GO:0015878","count":3},{"id":"GO:0015798","count":3}]},{"hash":"1722671943324926613","title":"Developmental transcriptional regulation","description":"The cluster shows enrichment for transcription-related GO terms (negative regulation of transcription by RNA polymerase II and DNA-templated transcription) alongside diverse development/differentiation terms (male gonad development, spermatid nucleus differentiation, trachea cartilage development, endothelial and endocardial differentiation, Harderian gland development). This suggests the proteins collectively participate in regulating gene expression during developmental processes.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0006351","count":3},{"id":"GO:2000020","count":3},{"id":"GO:0046533","count":3},{"id":"GO:0070384","count":3}]},{"hash":"1702643923561250502","title":"Neuronal projection and synaptic remodeling","description":"The terms cluster around neuron projection development, dendritic spine regulation, and synaptic plasticity (e.g., long-term synaptic depression, negative regulation of spine maintenance), with supporting processes in cytoskeletal/membrane dynamics (podosome assembly, membrane invagination) and related signaling (cAMP response, insulin signaling). This points to a theme of neuronal development and synaptic remodeling rather than a single housekeeping pathway.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010324","count":3},{"id":"GO:0010976","count":3},{"id":"GO:0006348","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0051660","count":3}]},{"hash":"902144276182652348","title":"Ubiquitin-Dependent Immune Signaling","description":"The top GO terms cluster around immune system activity (innate and adaptive) and ubiquitin-related regulation (ubiquitin-dependent protein catabolic process, various ubiquitination types, and associated histone modifications). This suggests the proteins function together to modulate immune responses through ubiquitin signaling, impacting antiviral sensing (RIG-I), TNF-mediated pathways, and V(D)J recombination in adaptive immunity.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0033151","count":5},{"id":"GO:0039536","count":5},{"id":"GO:0070535","count":5},{"id":"GO:0070512","count":5}]},{"hash":"1693812148725735221","title":"Neuronal development and synapse organization","description":"This cluster is strongly enriched for terms related to neuronal growth and function, including microtubule organization for polarity, presynaptic active zone assembly, neuronal cell adhesion, and GABAergic synaptic transmission, suggesting roles in neural development, polarity establishment, and synapse formation. Additional terms on apical localization and integrin signaling support a broader view of cell polarity and adhesion underpinning neural tissue organization.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090176","count":11},{"id":"GO:1904071","count":11},{"id":"GO:0045176","count":11},{"id":"GO:0048105","count":11},{"id":"GO:0060488","count":11}]},{"hash":"1484421430419237625","title":"Mitochondrial Transport and Energy Regulation","description":"The cluster is driven by multiple GO terms tied to transport across membranes and mitochondrial energy processes: several substrates and co-factors (glycine, thiosulfate, heme, ornithine) being moved across membranes, mitochondrial ATP transmembrane transport, and regulation of mitochondrial membrane permeability. The presence of adaptive thermogenesis and links to cellular energy signaling (e.g., insulin secretion regulation, necroptosis inhibition) supports a cohesive theme centered on mitochondrial transporters and energy metabolism. ","confidence":"High","size":11,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0036233","count":10},{"id":"GO:0090152","count":10},{"id":"GO:0000066","count":10},{"id":"GO:0060546","count":10},{"id":"GO:0061179","count":10}]},{"hash":"69381099526072892","title":"Organogenesis and tissue morphogenesis","description":"Based on the dominant GO terms, this cluster centers on developmental and morphogenetic processes across multiple tissues (retina, inner ear, heart, midgut), rather than a single tissue-specific pathway, with some accompanying metabolic activities. The diverse but development-focused terms suggest a general organogenesis module, supported by the dense interaction network.","confidence":"Medium","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0042574","count":10},{"id":"GO:0042572","count":10},{"id":"GO:0055129","count":9},{"id":"GO:0042472","count":9},{"id":"GO:0048738","count":9}]},{"hash":"393609554982153547","title":"Nuclear RNA processing and genome maintenance","description":"The top GO terms cluster around nuclear processes: RNA maturation and decay via nuclear polyadenylation, transcription termination, ribosome assembly, and genome maintenance activities such as telomere maintenance and chromatin-related regulation. Although several terms are labeled obsolete, the core theme points to involvement in RNA processing and genome stability rather than a single, specific pathway.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006306","count":10},{"id":"GO:0071035","count":10},{"id":"GO:0042255","count":10},{"id":"GO:0009432","count":10},{"id":"GO:0006369","count":10}]},{"hash":"302913450507299355","title":"Rho GTPase signaling in development","description":"This cluster centers on Rho-mediated signal transduction and regulation of GTPase activity, with related exocytosis processes, and is enriched for broad developmental terms such as heart, brain, nervous system, and skeletal development, suggesting a developmental signaling role. Some terms like pseudohyphal growth and ABA-activated signaling appear as outliers, indicating possible cross-species annotations.","confidence":"Medium","size":10,"edges":42,"triangles":98,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0001302","count":9},{"id":"GO:0007124","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0043547","count":9},{"id":"GO:0045956","count":9}]},{"hash":"233228999829433249","title":"Developmental gene regulation and differentiation","description":"These proteins show GO terms strongly tied to development and tissue differentiation, including placenta, vagina, and face development, fat cell differentiation, and retinoic acid signaling, along with DNA-templated transcription. This pattern points to a developmental gene regulation program governing lineage specification and organogenesis. Some terms are peripheral, but the core theme is developmental regulation.","confidence":"High","size":10,"edges":7,"triangles":1,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046827","count":3},{"id":"GO:0090188","count":3},{"id":"GO:0001893","count":3},{"id":"GO:0045444","count":3},{"id":"GO:0043433","count":3}]},{"hash":"829849981283311560","title":"Neuronal development and ion channel signaling","description":"Most top GO terms cluster around neural development and neuron function: dendrite morphogenesis, sensory perception of pain, chemotaxis in guidance, potassium ion transport supporting neuronal excitability, and transcriptional/kinase signaling that modulates growth and differentiation. While a few terms are broad or obsolete, the recurring theme points to neuronal development and signaling with ion-channel involvement. ","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":10},{"id":"GO:0007275","count":10},{"id":"GO:0043552","count":10},{"id":"GO:0019233","count":10},{"id":"GO:0048813","count":10}]},{"hash":"392366317940932657","title":"Polysaccharide biosynthesis and cell wall assembly","description":"These GO terms cluster around biosynthetic pathways for carbohydrate polymers and surface components: glycogen; lipopolysaccharide and O antigen; GDP-mannose and UDP-N-acetylglucosamine biosynthesis; glucose-1-phosphate metabolism; and cell wall organization. Together, they point to polymer production and envelope assembly rather than a single enzymatic complex. Some terms like mRNA export may be annotation noise, but the dominant signal supports carbohydrate-based cell surface biosynthesis.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":3},{"id":"GO:0009103","count":3},{"id":"GO:0006406","count":2},{"id":"GO:0009243","count":2},{"id":"GO:0009298","count":2}]},{"hash":"624450139683868262","title":"Embryonic organogenesis and neurogenesis","description":"The top GO terms point to embryonic development and tissue morphogenesis across multiple organs (eye/retina, adipogenesis, genitalia) with neurogenesis and apoptotic regulation, indicating a broad developmental program rather than a single tissue-specific function.","confidence":"High","size":10,"edges":18,"triangles":12,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0050872","count":5},{"id":"GO:0021846","count":5},{"id":"GO:0060059","count":5},{"id":"GO:0048807","count":5},{"id":"GO:0006915","count":5}]},{"hash":"424308388347608338","title":"Pollen development and anther maturation","description":"The strongest signals are pollen-related: pollen exine formation and anther dehiscence, which indicate pollen maturation and release. Additional terms point to supporting cellular processes such as polarized cell shape, actin organization, and organelle inheritance that facilitate pollen development, while glycosylation and nucleotide catabolism reflect common cellular machinery. Overall, the cluster centers on plant pollen development and its maturation steps, with relevant cytoskeletal and cellular maintenance processes.","confidence":"Medium","size":10,"edges":41,"triangles":94,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0000011","count":3},{"id":"GO:0071963","count":3},{"id":"GO:0000147","count":3},{"id":"GO:0000001","count":3},{"id":"GO:0006487","count":3}]},{"hash":"1343197960759692025","title":"Ubiquitin-Proteasome Regulation of Cell Cycle and Meiosis","description":"Based on the dominant GO terms, this cluster centers on ubiquitin-dependent protein turnover regulating the mitotic cell cycle and meiotic processes, including SCF-mediated proteasomal degradation, autoubiquitination, and K11-linked ubiquitination. The presence of embryonic development and ERAD-related terms suggests broader developmental regulation and protein quality control, but the core signal is ubiquitin-proteasome pathway control of cell cycle progression.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":9},{"id":"GO:0031146","count":9},{"id":"GO:0001701","count":9},{"id":"GO:0030433","count":9},{"id":"GO:0051865","count":9}]},{"hash":"137968089621117352","title":"Ribosome biogenesis and translation","description":"Dominant GO terms are translation and ribosome assembly, with rRNA processing (ITS2 cleavage) also present, pointing to a cluster centered on ribosome production and function. Although several metabolic and biosynthetic terms appear, they are less representative of the cluster\u2019s main theme compared to translation-related processes.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0046677","count":3},{"id":"GO:0042255","count":2},{"id":"GO:0000448","count":2},{"id":"GO:0006085","count":1}]},{"hash":"424457275959050252","title":"Nitric oxide and nitrosative stress response","description":"This cluster is led by terms like response to toxic substance, cellular response to nitrosative stress, positive regulation of nitric oxide biosynthetic process, and response to xenobiotic stimulus, indicating a common function in detoxification and signaling through NO and related reactive species. Additional terms such as hydrogen sulfide biosynthesis and nitrate catabolism support a broader context of gasotransmitter\u2013driven stress responses, while flavonoid metabolism and IL-8 production reflect related defensive pathways. Overall, the dominant theme is stress- and xenobiotic-related signaling and detoxification, with NO/nitrosative signaling as a central motif. ","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":5},{"id":"GO:0045429","count":5},{"id":"GO:0071500","count":4},{"id":"GO:0043154","count":4},{"id":"GO:0009812","count":4}]},{"hash":"1804721376843112441","title":"Diverse solute membrane transporters","description":"This cluster is dominated by GO terms for transmembrane transport across a wide range of substrates (vitamins, xenobiotics, nitrite/nitrate, various sugars, potassium), indicating a group of membrane transporter proteins with diverse substrate specificities rather than a single, unified function. The terms suggest general transporter activity rather than a specific transporter family.","confidence":"High","size":10,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":7},{"id":"GO:0006855","count":7},{"id":"GO:0015707","count":6},{"id":"GO:0006004","count":6},{"id":"GO:1900754","count":6}]},{"hash":"2173092881464233270","title":"Neural crest migration and axon guidance","description":"The GO terms cluster around neural crest\u2013derived development and neural wiring: neural crest migration (ventral trunk), trigeminal nerve organization, branchiomotor neuron axon guidance, sympathetic neuron projection guidance/extension, and semaphorin-plexin\u2013mediated axon guidance, with supporting roles for heterophilic cell\u2013cell adhesion and overall nervous system development. The ossification term aligns with craniofacial bone formation commonly linked to neural crest derivatives, reinforcing a craniofacial neural development theme.","confidence":"High","size":10,"edges":15,"triangles":9,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0043931","count":6},{"id":"GO:0036486","count":6},{"id":"GO:0021637","count":6}]},{"hash":"1203970582974127849","title":"DNA Replication and Telomere Maintenance","description":"The top GO terms cluster around core genome maintenance processes\u2014DNA replication, recombination, repair, and mitotic checkpoint signaling\u2014with several terms specifically controlling telomere maintenance and telomere length via telomerase. A few translation-related terms appear, but the dominant signal is genome integrity during replication and telomere regulation, justifying a label focused on replication and telomere maintenance.","confidence":"High","size":10,"edges":15,"triangles":7,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0006310","count":2},{"id":"GO:0007093","count":2},{"id":"GO:0032212","count":2},{"id":"GO:0006281","count":2}]},{"hash":"1680764592325971076","title":"Fatty acid metabolism and siderophore biosynthesis","description":"Based on the top GO terms, the proteins cluster around fatty acid biosynthesis and CoA-conjugated fatty acid metabolism (long- and medium-chain) with both biosynthetic and catabolic steps, including palmitic acid. The presence of enterobactin biosynthesis indicates a bacterial context and additional metabolism related to iron acquisition, suggesting a lipid metabolism module in bacteria that also touches on siderophore production.","confidence":"Medium","size":10,"edges":11,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":3},{"id":"GO:0051792","count":2},{"id":"GO:0009239","count":2},{"id":"GO:0045892","count":2},{"id":"GO:0036116","count":2}]},{"hash":"1183662958603971261","title":"Developmental Regulation and Signaling","description":"This cluster is enriched for GO terms pointing to broad regulatory roles in development (e.g., bone marrow proliferation, lung and airway tissue formation, floral development) alongside transcriptional regulation and calcium signaling (DNA-templated transcription and cellular response to calcium). The mix suggests a theme of general developmental control and signaling rather than a single tissue-specific function.","confidence":"Medium","size":10,"edges":37,"triangles":70,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071864","count":9},{"id":"GO:0060532","count":9},{"id":"GO:0061145","count":9},{"id":"GO:0060534","count":9},{"id":"GO:0006351","count":9}]},{"hash":"2061030094662365409","title":"RNA and protein methylation","description":"The top GO terms are dominated by various methylation processes, including rRNA, tRNA, and multiple protein methylation activities (peptidyl-lysine dimethylation, N-terminal trimethylation, arginine dimethylation, and wobble uridine modification). This points to a cluster of methyltransferases and modification pathways affecting both RNA and proteins. Some terms like nodulation or cobalamin biosynthesis appear less central to the core theme. Confidence reflects a coherent methylation-focused group, hence High. ","confidence":"High","size":10,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031167","count":8},{"id":"GO:0018027","count":7},{"id":"GO:0018012","count":5},{"id":"GO:0030488","count":5},{"id":"GO:0019919","count":5}]},{"hash":"2055599674810917979","title":"Inflammatory GPCR-ERK signaling and angiogenesis regulation","description":"The cluster is enriched for inflammatory signaling terms (positive regulation of inflammatory response, TNF production), GPCR signaling, and ERK cascade regulation, plus non-canonical NF-kappaB signaling. It also includes negative regulation of angiogenesis, indicating a link between pro-inflammatory signaling and vascular remodeling. This pattern suggests a cohesive module of GPCR-driven inflammatory signaling with ERK/NF-\u03baB involvement and angiogenesis modulation.","confidence":"High","size":10,"edges":29,"triangles":42,"max_degree":9,"top_function":"wound healing","top_go_terms":[{"id":"GO:0070374","count":5},{"id":"GO:1902230","count":4},{"id":"GO:0032760","count":4},{"id":"GO:0050729","count":4},{"id":"GO:0014068","count":4}]},{"hash":"36214187010185485","title":"Endothelial barrier regulation and inflammation","description":"The top GO terms center on establishing and modulating the endothelial barrier (GO:1903142), leukocyte rolling/adhesion (GO:1903238), and angiogenesis (GO:0045766), with accompanying signals for innate immune defense (LPS response, Gram-positive defense) and fibrinolysis. This pattern points to a cohesive theme of vascular-immune crosstalk and barrier maintenance, rather than a single- pathway function.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903142","count":5},{"id":"GO:0050830","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0032496","count":3},{"id":"GO:0045415","count":3}]},{"hash":"2241165634694552354","title":"Multi-lineage cell differentiation","description":"The top GO terms center on differentiation of various cell types (Bergmann glial cells, ventricular cardiac muscle cells, fat cells) and supporting developmental processes like cell polarity, migration, and signaling. While some terms touch on general cellular regulation (mRNA processing, CDK activity), the dominant theme is differentiation across multiple lineages, suggesting proteins in this cluster participate in broad developmental programs. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060020","count":7},{"id":"GO:0055015","count":7},{"id":"GO:2000114","count":5},{"id":"GO:0035994","count":5},{"id":"GO:0016477","count":5}]},{"hash":"932327384491060772","title":"Immune signaling and vesicle trafficking","description":"This cluster combines terms tied to innate immune sensing (NOD2 signaling, response to muramyl dipeptide) and downstream signaling (NF-kappaB regulation), with processes of protein regulation (ubiquitination) and vesicle docking/tethering/exocytosis, plus associated cell movement terms, suggesting a cohesive theme of immune signaling intertwined with intracellular transport. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0090307","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0071225","count":2},{"id":"GO:0016567","count":2}]},{"hash":"2095428542143320165","title":"Developmental morphogenesis and organogenesis","description":"The top GO terms indicate a broad set of embryonic development and tissue formation processes across multiple organs (palate, endocardial cushion EMT, placenta, cartilage, pancreas, thyroid). The inclusion of transcriptional regulation during development reinforces a theme of coordinated gene control in organogenesis, making \u201cDevelopmental morphogenesis and organogenesis\u201d a coherent label.","confidence":"Medium","size":10,"edges":13,"triangles":3,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":9},{"id":"GO:0000122","count":6},{"id":"GO:0003198","count":6},{"id":"GO:0060707","count":6},{"id":"GO:0060806","count":6}]},{"hash":"112629910940143394","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":17,"triangles":12,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000183","count":2},{"id":"GO:0042413","count":1},{"id":"GO:0043427","count":1},{"id":"GO:0033611","count":1},{"id":"GO:0031426","count":1}]},{"hash":"1667207857810307007","title":"Cell Cycle and Development Signaling","description":"The top GO terms point to core cell cycle activities (DNA replication, mitotic cell cycle, cell division), while also highlighting development and signaling roles (nervous system and hippocampus development, axon extension, insulin receptor signaling, T cell receptor signaling). This mix suggests a cluster of proteins that bridge cell proliferation with developmental signaling processes, rather than a single narrow pathway.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0051301","count":5},{"id":"GO:0008286","count":5},{"id":"GO:0033138","count":5},{"id":"GO:0021766","count":5}]},{"hash":"198678122877872889","title":"Wnt- and Calcium-Mediated Signaling","description":"This cluster is dominated by signaling-related GO terms, notably Wnt signaling (GO:0016055) and intracellular signal transduction (GO:0035556), and it includes calcium release into the cytosol (GO:0051209), indicating a core theme of signal initiation and propagation. Additional terms point to broader regulatory and developmental contexts (e.g., NF-kappaB sequestration, SNARE regulation, wing hair organization, hepatocyte apoptosis), but they sit within a general signaling/regulatory framework. Therefore, the label reflects a signaling-centric cluster with calcium dynamics as a specific highlight.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0035556","count":3},{"id":"GO:0010845","count":2},{"id":"GO:0035544","count":2}]},{"hash":"633259135104910026","title":"Keratinization and Ubiquitin Signaling","description":"The strongest signals are keratinization and the hair cycle, pointing to epidermal differentiation and skin/follicle biology. Supporting terms include ubiquitination (polyubiquitination and K6-linked), and microtubule localization, suggesting cytoskeletal and post-translational regulation relevant to keratinocyte function. Additional terms about NF-kappaB signaling and antiviral host responses align with innate-immune aspects that can accompany skin barrier biology. Altogether, this cluster seems centered on epidermal differentiation with protein regulation and antiviral/immune modulations.","confidence":"Medium","size":10,"edges":17,"triangles":8,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045843","count":4},{"id":"GO:0006376","count":4},{"id":"GO:0031424","count":2},{"id":"GO:0042633","count":2},{"id":"GO:0035372","count":1}]},{"hash":"676024242597826115","title":"Brain ion transport and CSF homeostasis","description":"This cluster\u2019s GO terms center on bicarbonate and borate transport, fluid transport, CSF secretion, and regulation of intracellular pH, which all point to ion and fluid balance in the brain. Additional terms for brain morphogenesis and pyramidal neuron development, along with CNS-related functions like blood pressure regulation and exploration behavior, suggest a broader CNS context that includes development and function. Overall, the proteins seem to be tied to brain ion transport and CSF regulation, with some developmental roles.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015701","count":1},{"id":"GO:0003073","count":1},{"id":"GO:0035641","count":1},{"id":"GO:0021860","count":1},{"id":"GO:0048854","count":1}]},{"hash":"1106633485232248238","title":"Rho/Rac signaling and lamellipodium dynamics","description":"The strongest GO signals are Rho and Rac protein signaling and neutrophil chemotaxis, along with lamellipodium assembly, pointing to a module centered on Rho GTPase\u2013driven cytoskeletal remodeling and cell migration. Some other terms (M-band localization, heart-related pathways, vitellogenesis, and B cell differentiation) are less coherent with this core theme, suggesting a primary focus on actin dynamics with incidental associations. Overall, the cluster seems best described as a Rho/Rac-driven motility and cytoskeletal remodeling group.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007266","count":3},{"id":"GO:0030593","count":3},{"id":"GO:0016601","count":3},{"id":"GO:2000297","count":2},{"id":"GO:2000973","count":2}]},{"hash":"660657213041491273","title":"Ubiquitin-Proteasome Regulation of Cell Cycle","description":"The top GO terms indicate a strong emphasis on ubiquitination and proteasomal degradation, including protein deubiquitination, SCF-dependent ubiquitin\u2011mediated degradation, and APC\u2011dependent catabolic processes. This points to a core function in protein turnover that governs the cell cycle, notably negative regulation of G2/M. The presence of Wnt and TNF signaling terms suggests that proteolysis also modulates these signaling pathways. Overall, the cluster appears to capture ubiquitin\u2013proteasome\u2013mediated regulation of cell-cycle and signaling components.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":6},{"id":"GO:0031146","count":5},{"id":"GO:0090263","count":5},{"id":"GO:0031145","count":5},{"id":"GO:0010950","count":5}]},{"hash":"723636496173104919","title":"Mitochondrial transport and energy regulation","description":"The proteins cluster around mitochondrial transport and membrane functions, with GO terms for mitochondrial ATP transmembrane transport, regulation of mitochondrial membrane permeability, and adaptive thermogenesis, plus various membrane transporters (glycine, ornithine, thiosulfate, heme). This points to a cohesive module focused on mitochondrial transport and energy homeostasis rather than unrelated pathways.","confidence":"High","size":10,"edges":10,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0036233","count":2},{"id":"GO:0090152","count":2},{"id":"GO:0000066","count":2},{"id":"GO:0060546","count":2},{"id":"GO:0061179","count":2}]},{"hash":"2206584016443889487","title":"Inflammatory cytokine production and neutrophil recruitment","description":"The cluster centers on cytokine production and inflammatory signaling, including IL-10/IL-6/IL-8/IL-23/IL-18, and processes that promote neutrophil recruitment and dendritic cell cytokine output, especially in defense against Gram-negative bacteria. This suggests a coherent pro-inflammatory innate immune module.","confidence":"High","size":10,"edges":6,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032613","count":6},{"id":"GO:0010572","count":6},{"id":"GO:0050729","count":4},{"id":"GO:0050829","count":4},{"id":"GO:0045416","count":4}]},{"hash":"1863225884100342305","title":"Mitochondrial Transporters and Membrane Regulation","description":"The cluster is dominated by GO terms for transport across membranes and mitochondrial functions (glycine import, ornithine and heme transport, thiosulfate transport, mitochondrial ATP transport) plus regulation of mitochondrial membrane permeability and related energy processes like adaptive thermogenesis, indicating a cohesive theme of mitochondrial transport and metabolic regulation.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036233","count":9},{"id":"GO:0090152","count":9},{"id":"GO:0000066","count":9},{"id":"GO:0060546","count":9},{"id":"GO:0061179","count":9}]},{"hash":"1040183312063411192","title":"Immune Cell Lipid Remodeling and Signaling","description":"This cluster centers on innate immune functions (neutrophil-mediated immunity, regulation of T cell proliferation, foam cell differentiation) and lipid metabolism/remodeling (phosphatidic acid biosynthesis, PI and PC acyl-chain remodeling, cholesterol efflux regulation) with inflammatory signaling (prostaglandin secretion, ERK cascade). The recurring theme is immune-cell\u2013driven inflammation linked to dynamic lipid remodeling and signaling pathways.","confidence":"Medium","size":10,"edges":10,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0002446","count":3},{"id":"GO:0006654","count":3},{"id":"GO:0032308","count":3},{"id":"GO:0090370","count":3},{"id":"GO:0036149","count":3}]},{"hash":"1939583306716601702","title":"ERK/MAPK Growth Factor Signaling","description":"This cluster is enriched for GO terms tied to the ERK1/ERK2 cascade and responses to multiple growth factors (insulin, PDGF, TGF-beta, M-CSF) as well as calcium signaling. The convergence on positive regulation of ERK signaling, growth factor\u2013stimulated responses, and calcium-mediated signaling suggests a coherent module of MAPK-driven growth factor signaling and calcium cross-talk.","confidence":"High","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":"wound healing","top_go_terms":[{"id":"GO:0070374","count":10},{"id":"GO:0007267","count":10},{"id":"GO:0032869","count":10},{"id":"GO:0036120","count":10},{"id":"GO:0050850","count":10}]},{"hash":"1153156318959666224","title":"Immune Activation and Leukocyte Recruitment","description":"The cluster centers on immune responses, including adaptive immunity (adaptive immune response, T cell proliferation), innate processes (monocyte extravasation, phagocytosis recognition, neutrophil homeostasis), chemokine production, and complement activation, indicating coordinated immune activation and leukocyte trafficking to inflammation sites.","confidence":"High","size":10,"edges":42,"triangles":99,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0050755","count":4},{"id":"GO:0032712","count":4},{"id":"GO:0071656","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0035696","count":4}]},{"hash":"1458836480203423028","title":"Embryonic mesodermal and placental development","description":"The top GO terms cluster around embryonic development: mesoderm formation, palate (roof of mouth) development, cartilage morphogenesis, endocardial cushion EMT, and placenta-related lineages (trophoblast giant cell differentiation). These suggest proteins functioning in early development and tissue differentiation, especially mesodermal and placental processes.","confidence":"High","size":10,"edges":10,"triangles":0,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":9},{"id":"GO:0000122","count":7},{"id":"GO:0003198","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0003323","count":6}]},{"hash":"934147004143999828","title":"Multi-system signaling regulation","description":"The top GO terms point to neural plasticity (long-term potentiation, memory), vascular and extracellular matrix processes (angiogenesis, collagen biosynthesis), heart rate regulation, Hedgehog pathway regulation, and immune responses (T cell and interferon regulation) along with xenobiotic response and general catalytic regulation. These collectively suggest proteins that modulate signaling and responses across neural, vascular, and immune contexts, rather than a single pathway, supporting a cross-system regulatory theme. ","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":2},{"id":"GO:0007614","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0002027","count":2},{"id":"GO:0032964","count":2}]},{"hash":"368835593345580832","title":"Unknown","description":"Top GO terms span development (lung, bone), transcription regulation, immune responses (interferon signaling, biotic stimulus, host-symbiont interactions), and metabolic/neural processes, with no single clear function tying all proteins together, so Unknown.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030324","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0009607","count":2},{"id":"GO:0030282","count":2},{"id":"GO:0035456","count":2}]},{"hash":"1099021196015779754","title":"Calcium signaling in muscle and immune responses","description":"The shared thread across the terms is calcium signaling: PLC-activating pathways drive IP3-mediated Ca2+ release, and Ca2+ is central to muscle contraction (cardiac and smooth muscle), secretion (gastric acid), urine regulation, and immune cell functions (eosinophil chemotaxis, CD8 T cell differentiation). The presence of the explicit calcium release term plus these related processes supports a unifying theme of Ca2+-dependent signaling across muscle, secretory, developmental, and immune contexts.","confidence":"Medium","size":10,"edges":4,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":8},{"id":"GO:0007208","count":8},{"id":"GO:0055117","count":8},{"id":"GO:0007497","count":8},{"id":"GO:0048245","count":8}]},{"hash":"266545023589723899","title":"Developmental signaling and morphogenesis","description":"The GO terms point to broad developmental processes (eye morphogenesis, sympathetic nervous system and smooth muscle development, left-right axis formation) as well as signaling components (GTPase activity and Rac signaling). A few terms fall outside strict development (peroxisome autophagy, preprophase band assembly), but the dominant signal is developmental signaling and morphogenesis, suggesting proteins involved in shaping tissues and coordinating signaling during development. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0030242","count":2},{"id":"GO:0048593","count":2},{"id":"GO:0048485","count":2},{"id":"GO:0070493","count":2}]},{"hash":"927777265023138999","title":"Plasma membrane signaling in adipose metabolism","description":"The cluster\u2019s top terms highlight plasma membrane localization (GO:0072661), cell-cell signaling (GO:0007267), insulin receptor signaling (GO:0008286), and adipose tissue development (GO:0060612), suggesting a theme of membrane-associated signaling pathways tied to adipose/metabolic regulation. However, several terms are obsolete and the connections are not strongly cohesive, so the label is cautiously representative rather than definitive.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014070","count":2},{"id":"GO:0051770","count":2},{"id":"GO:0072661","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0060612","count":1}]},{"hash":"487939247438264619","title":"Epigenetic Chromatin Regulation","description":"The terms cluster around DNA-templated transcription and epigenetic control, including DNA methylation-dependent heterochromatin formation and histone modifications (methylation/acetylation). This suggests a shared function in regulating gene expression via chromatin state, despite a few unrelated or obsolete annotations like otolith morphogenesis.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0051571","count":2},{"id":"GO:0032474","count":2},{"id":"GO:0043045","count":1},{"id":"GO:0045190","count":1}]},{"hash":"1337506609002686649","title":"Spliceosome-Mediated mRNA Processing","description":"The cluster is dominated by GO terms related to splicing and post-transcriptional mRNA handling: regulation and alternative splicing via the spliceosome, other splicing-related processes, and mRNA export from the nucleus, plus mRNA modification and translation regulation of a specific mRNA (oskar). This points to a cohesive theme around mRNA maturation, processing, and export, rather than unrelated stress responses.","confidence":"High","size":9,"edges":18,"triangles":21,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":6},{"id":"GO:1905663","count":6},{"id":"GO:0016556","count":6},{"id":"GO:1903586","count":6},{"id":"GO:0006406","count":6}]},{"hash":"2290010369760962088","title":"Ribosome biogenesis and translation","description":"The proteins cluster around ribosome production and function\u2014terms include ribosome biogenesis, small subunit assembly and maturation of SSU-rRNA, and cytoplasmic translation\u2014indicating a shared theme of ribosome assembly and active protein synthesis.","confidence":"High","size":9,"edges":18,"triangles":16,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0042254","count":3},{"id":"GO:0000028","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0006400","count":2}]},{"hash":"2175499405301941965","title":"Spliceosome-Mediated mRNA Splicing and Export","description":"These proteins cluster around nuclear mRNA processing, with GO terms strongly indicating spliceosome-driven regulation of alternative splicing, various forms of mRNA splicing via the spliceosome, and mRNA export from the nucleus, plus related mRNA modification. The coherence of these terms suggests a functional module focused on pre-mRNA processing and nuclear mRNA handling.","confidence":"High","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":4},{"id":"GO:0006406","count":4},{"id":"GO:1901407","count":4},{"id":"GO:1905663","count":3},{"id":"GO:0016556","count":3}]},{"hash":"1025305920784280446","title":"Mitochondrial Respiration and Cofactor Biosynthesis","description":"Dominant signals are mitochondrial electron transport (NADH to ubiquinone) and multiple biosynthetic pathways for cofactors and amino acid precursors (thiamine, lipoate, 2-oxoglutarate, glutamate). A lipopolysaccharide response term appears but is less representative. Overall the cluster centers on energy metabolism in mitochondria and biosynthesis of essential cofactors.","confidence":"High","size":9,"edges":32,"triangles":60,"max_degree":8,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0032496","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0006120","count":4},{"id":"GO:0019483","count":4},{"id":"GO:0009228","count":4}]},{"hash":"930234443020535581","title":"Eye development and vision","description":"The top GO terms include visual perception and lens development in a camera-type eye, suggesting the cluster is enriched for eye/vision related proteins. Other terms (signaling, cytoskeleton regulation, immune response, cell cycle) are broader or less directly tied to eyes, but the clearest shared function is eye development and vision.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046827","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0002088","count":4},{"id":"GO:0038083","count":3},{"id":"GO:2000251","count":3}]},{"hash":"1362180466161442693","title":"Ethanol Production via Ehrlich Pathway","description":"The top GO terms center on fermentation and amino-acid\u2013derived alcohol production, notably pyruvate fermentation to ethanol and the Ehrlich pathway for amino acid catabolism to alcohol. D-sorbitol catabolism also ties into sugar metabolism that can feed fermentation, supporting a broader metabolic shift toward ethanol production. Some terms (response to lipopolysaccharide, copper ion, extracellular signal regulation) reflect general stress or signaling contexts that often accompany metabolic reprogramming, but the strongest signal is ethanol production via the Ehrlich pathway.","confidence":"Medium","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0032496","count":6},{"id":"GO:0006062","count":6},{"id":"GO:0043458","count":6},{"id":"GO:0019518","count":6},{"id":"GO:0042573","count":6}]},{"hash":"1116863434773502550","title":"Unknown","description":"The cluster\u2019s terms span diverse processes, including mitotic cell cycle and cell division, visual perception, immune signaling, keratinocyte differentiation, apoptosis, and Wnt pathway regulation. There isn\u2019t a single cohesive function or theme that ties these terms together across the proteins, suggesting the set may reflect multiple unrelated roles rather than a unified pathway. Therefore, a precise, intuitive label is not apparent.","confidence":"","size":9,"edges":19,"triangles":25,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0046827","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0060044","count":3}]},{"hash":"1909284110541961537","title":"Meiosis and Chromosome Segregation Control","description":"The cluster is enriched for meiotic-specific processes (meiotic double-strand break formation, meiotic recombination, telomere clustering) and chromosome segregation, along with cell-cycle regulatory activities (anaphase-promoting complex\u2013dependent catabolic process, spindle elongation). Neddylation and histone ubiquitination regulation suggest chromatin and protein turnover control during meiosis. Taken together, these terms indicate a cohesive role in meiotic progression and chromosome handling, with some general cell-cycle regulatory contributions.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042138","count":9},{"id":"GO:0071455","count":9},{"id":"GO:0010845","count":9},{"id":"GO:0000022","count":9},{"id":"GO:0007059","count":9}]},{"hash":"1435505337075629432","title":"Actin-based motility and cell polarity","description":"The GO terms cluster around actin cytoskeleton dynamics\u2014actin filament organization and bundling, regulation of actin severing, cell shape establishment/polarity, gliding, and membrane addition during cytokinesis, plus actin-driven transport tasks like peroxisome inheritance and mating projection focus\u2014indicating a cohesive theme of actin-driven movement and polarity.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045033","count":7},{"id":"GO:0014728","count":7},{"id":"GO:0070650","count":7},{"id":"GO:0007107","count":7},{"id":"GO:0071976","count":7}]},{"hash":"1616057743966439615","title":"Signal transduction and actin remodeling","description":"This cluster shows enrichment for signaling-related GO terms (peptidyl-tyrosine autophosphorylation, PI3K signaling) and cytoskeletal dynamics (positive regulation of actin cytoskeleton reorganization, endothelial cell migration), pointing to a cohesive module of signal transduction driving cytoskeleton remodeling and cell movement. Some terms touch cell cycle, osmotic signaling, and immune responses, suggesting broader connectivity, but the core theme remains signaling-cytoskeleton interplay.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038083","count":9},{"id":"GO:2000251","count":9},{"id":"GO:0060044","count":9},{"id":"GO:0014068","count":9},{"id":"GO:0001806","count":9}]},{"hash":"1002076292756207670","title":"Tyrosine kinase signaling and cytoskeletal dynamics","description":"A unifying theme among the top GO terms is kinase-driven signal transduction (peptidyl-tyrosine autophosphorylation, PI3K signaling) that regulates the cytoskeleton and cell movement (actin reorganization, endothelial cell migration), with an osmosensing component also appearing, suggesting a signaling network controlling cytoskeletal changes and motility.","confidence":"High","size":9,"edges":14,"triangles":8,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038083","count":7},{"id":"GO:2000251","count":7},{"id":"GO:0060044","count":7},{"id":"GO:0014068","count":7},{"id":"GO:0001806","count":7}]},{"hash":"1657965044170475224","title":"Developmental Signaling and Immune Cell Migration","description":"The top GO terms mix signaling pathways (PI3K signaling, insulin receptor signaling, prostaglandin response) with developmental processes (heart development, placental differentiation) and immune-related responses (B cell maturation, IL-7 response) plus cell migration. This suggests a theme of signaling coordinating development and tissue remodeling, with immune and migratory aspects, rather than a single, specific pathway. DNA repair appears as a minor outlier, but the dominant pattern supports a developmental/signaling and migratory cluster.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":3},{"id":"GO:0014068","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0002344","count":2},{"id":"GO:0071380","count":2}]},{"hash":"1706797478512457988","title":"ECM Remodeling and Development","description":"The dominant terms center on extracellular matrix organization (collagen and fibronectin fibrils) and developmental processes (somite development, endothelial proliferation), suggesting a cluster focused on ECM remodeling during development. Supporting terms like receptor-mediated endocytosis, zymogen activation, and tight junction assembly point to related cell\u2013matrix interactions and barrier functions, with a smaller representation of innate immune components.","confidence":"High","size":9,"edges":14,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0061053","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0006958","count":3},{"id":"GO:1905590","count":3},{"id":"GO:0006898","count":3}]},{"hash":"324841293977269904","title":"Immune Signaling and Development","description":"The top GO terms span developmental processes (bone, heart, uterus development) and immune functions (innate immunity, IL-4 production, B cell maturation, NK T cell differentiation) with signaling regulators (Ras, Rac, GTPase). This pattern suggests the cluster groups proteins involved in both development and immune signaling, hence the label Immune Signaling and Development.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060348","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0060065","count":5},{"id":"GO:0046580","count":4},{"id":"GO:0032633","count":4}]},{"hash":"1561454958032428217","title":"Golgi\u2013ER vesicle trafficking","description":"The top GO terms cluster around vesicle transport between the Golgi and ER, endocytosis, and Golgi vesicle budding, indicating proteins involved in the secretory pathway's vesicle trafficking. Other terms (ion transport, microvillus regulation, muscle contraction) are less representative of the main theme but appear as secondary associations.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"establishment or maintenance of cell polarity","top_go_terms":[{"id":"GO:0006890","count":4},{"id":"GO:0006897","count":4},{"id":"GO:0048194","count":4},{"id":"GO:0002028","count":3},{"id":"GO:0021650","count":3}]},{"hash":"1637318365278915762","title":"Nuclear proteostasis during cell division","description":"The cluster combines nuclear quality-control and proteostasis signals (ubiquitin-proteasome system, unfolded protein response, ER stress\u2013related translation) with core cell cycle and DNA replication processes (mitotic cell cycle, cell division). This suggests a coordinated role in maintaining nuclear proteome integrity as cells cycle through replication and division, possibly under stress such as cadmium exposure. ","confidence":"Medium","size":9,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071630","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0030433","count":2}]},{"hash":"852824650497142288","title":"Vascular inflammation and coagulation","description":"Explanation: The top GO terms cluster around inflammatory vascular processes: acute-phase response, blood coagulation, fibrinolysis, angiogenesis, and vasodilation, all pointing to vascular remodeling during inflammation. Collagen biosynthesis supports extracellular matrix changes in vessels. A few terms (insulin signaling, nutrient response, long-term potentiation) appear peripheral, but the dominant theme is vascular inflammation with coagulation and angiogenesis.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0042730","count":3},{"id":"GO:0006953","count":3}]},{"hash":"772370600686523054","title":"Receptor tyrosine kinase signaling in development and synapse organization","description":"This cluster is dominated by GO terms for peptidyl-tyrosine autophosphorylation and receptor tyrosine kinase signaling, plus neural and developmental processes (synapse organization, embryonic morphogenesis, heart development). The presence of cell-matrix adhesion and sodium channel clustering supports roles in tissue morphogenesis and neural connectivity, aligning RTK-driven development with synaptic assembly.","confidence":"High","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0038083","count":5},{"id":"GO:0007161","count":5},{"id":"GO:0045162","count":5},{"id":"GO:0007169","count":5},{"id":"GO:0006915","count":5}]},{"hash":"199062872657939993","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0005975","count":2},{"id":"GO:0033580","count":2},{"id":"GO:0030259","count":2},{"id":"GO:0006688","count":2},{"id":"GO:0000289","count":2}]},{"hash":"866369778030504458","title":"Kidney vascular development and inflammatory regulation","description":"The top GO terms show kidney-specific development (metanephric distal convoluted tubule development) alongside vascular/angiogenesis-related processes (positive regulation of angiogenesis, endothelial cell apoptosis) and inflammatory/regulatory functions (chronic inflammatory response, plasminogen activation regulation, fibrinolysis). This combination suggests a theme of nephron-associated vascular remodeling influenced by inflammation, hence a label reflecting kidney vascular development with inflammatory regulation. ","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0072221","count":6},{"id":"GO:0002544","count":6},{"id":"GO:0051592","count":6},{"id":"GO:0045766","count":6},{"id":"GO:0051918","count":6}]},{"hash":"2058330166687422940","title":"Neuronal signaling and synaptic plasticity","description":"The top GO terms cluster around calcium-calcineurin-NFAT signaling, synaptic function (excitatory postsynaptic potential, long-term potentiation), and axonogenesis, pointing to neuronal development and synaptic plasticity as the unifying theme. While a couple of terms refer to non-neuronal processes, the neuron-related signaling and plasticity terms predominate.","confidence":"High","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0033173","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0070315","count":1},{"id":"GO:0071872","count":1},{"id":"GO:0009738","count":1}]},{"hash":"1725400237164008431","title":"Stress Response and Protein Homeostasis","description":"The cluster\u2019s prominent terms revolve around cellular stress responses and protein homeostasis, including negative regulation of protein modification, unfolded protein response, and cadmium ion response, with related but obsolete chaperone/refolding and ubiquitin-dependent processes. Outlier terms (photosynthesis, GA signaling, leptin-related signaling, fat pad development) are present but do not define the core theme, which is stress-related maintenance of protein function. ","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0031400","count":4},{"id":"GO:0016576","count":4},{"id":"GO:1903070","count":4},{"id":"GO:0070389","count":4},{"id":"GO:0009938","count":4}]},{"hash":"977647446599379487","title":"RNA processing and transcription elongation control","description":"The GO terms are dominated by RNA metabolism: deadenylation and decapping (both dependent and independent), poly(A) tail shortening, and translation regulation, plus regulation of transcription elongation by RNA Pol II. While a few terms touch on signaling or differentiation, the strongest signal is RNA processing and transcription elongation regulation, suggesting proteins involved in RNA turnover and transcriptional control rather than a single pathway.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033147","count":1},{"id":"GO:0000290","count":1},{"id":"GO:0031087","count":1},{"id":"GO:0001829","count":1},{"id":"GO:0000289","count":1}]},{"hash":"746858375032196953","title":"Multiorgan Embryonic Development","description":"The Top Terms include brain development, rhombomere morphogenesis, ventral spinal cord interneuron specification, atrioventricular node cell fate commitment, nephric duct elongation, hepatoblast differentiation, cartilage development, and glutamate reuptake. This spread suggests involvement in embryonic organogenesis across multiple tissues, with neural development as a prominent theme, rather than a single tissue-specific function. Hence a broad Multiorgan Embryonic Development label.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0021642","count":2},{"id":"GO:0061017","count":2},{"id":"GO:0021544","count":2},{"id":"GO:0051216","count":2}]},{"hash":"31170383890070082","title":"Cell-cycle and cytoskeleton organization","description":"The top GO terms point to cell division and regulation of proliferation, along with localization of Golgi and centrosomes, and Rho signaling that governs cytoskeletal dynamics. Additional terms touch on morphogenesis like dendrite development, microvillus assembly, and paranodal junction maintenance, which can all arise from cytoskeleton- and polarity-based processes. Together, these terms suggest a theme around cell-cycle control coupled with intracellular organization and shape. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0008285","count":2},{"id":"GO:0051683","count":2},{"id":"GO:0051660","count":2},{"id":"GO:0007266","count":2}]},{"hash":"561560778710334330","title":"Proteasome turnover and cytoskeletal dynamics","description":"This cluster is dominated by GO terms for ubiquitin-dependent protein catabolic process and proteasome assembly, suggesting a focus on protein turnover. It also features cytoskeleton-related terms (filopodium assembly, positive regulation of stress fiber assembly) and regulation of GTPase activity, pointing to cytoskeletal remodeling. Some terms (chlorophyll biosynthesis, stamen formation, hyaluronan metabolism, T cell activation) seem less central and may reflect broader annotations among members. Overall, the core theme appears to be protein degradation linked with cytoskeletal dynamics.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0006511","count":5},{"id":"GO:0030212","count":4},{"id":"GO:0046847","count":4},{"id":"GO:1903526","count":4},{"id":"GO:0043547","count":4}]},{"hash":"1375687467093616109","title":"mRNA Splicing and Processing Machinery","description":"The top GO terms strongly point to spliceosome-mediated mRNA splicing, alternative splicing regulation, mRNA processing and export, with a smaller representation of translation initiation terms. This combination indicates proteins mainly involved in RNA maturation, modification, and nuclear export rather than direct translation. ","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0006378","count":4},{"id":"GO:0000381","count":3}]},{"hash":"1199329922553334424","title":"GPCR-RTK Inflammatory Signaling","description":"The cluster centers on receptor-mediated signaling via GPCRs and receptor tyrosine kinases, with cytokine production (IL-6, IL-8) and inflammatory responses, plus defense against Gram-negative bacteria. Related processes like angiogenesis, bone development, and axonogenesis reflect broader developmental signaling contexts influenced by inflammation. Overall, a coherent GPCR/RTK\u2013driven inflammatory signaling module.","confidence":"High","size":9,"edges":9,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050729","count":6},{"id":"GO:0014068","count":6},{"id":"GO:0050829","count":6},{"id":"GO:0007169","count":6},{"id":"GO:0007409","count":6}]},{"hash":"1855181268436022743","title":"Developmental signaling and cell fusion","description":"The dominant GO terms revolve around development and signaling, including skin development, multicellular organism development, and positive regulation of GTPase activity, plus conjugation with cellular fusion. These together suggest a cluster tied to developmental signaling and cell interaction/fusion processes. Some sensory and neural terms appear as secondary annotations, but the core theme remains developmental signaling.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071456","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0007275","count":2}]},{"hash":"2218990863411053767","title":"Podosome and focal adhesion assembly in cell migration","description":"This cluster is dominated by terms for podosome assembly, focal adhesion assembly, integrin activation, and regulation of adhesion and polarity, plus keratinocyte migration, indicating a unified program of adhesion complex formation and remodeling that facilitates epithelial cell movement.","confidence":"High","size":9,"edges":13,"triangles":0,"max_degree":7,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0071800","count":7},{"id":"GO:2000114","count":7},{"id":"GO:0033623","count":7},{"id":"GO:0022408","count":7},{"id":"GO:0051894","count":7}]},{"hash":"2011987961855068943","title":"Neuroimmune signaling and phagocytosis","description":"The cluster is best described as neuroimmune signaling with phagocytic and inflammatory roles, since major terms involve positive regulation of phagocytosis, inflammatory response, and T cell activation, plus opsonization. The neural terms (axon extension, dendritic spine maintenance) suggest involvement in neuro-immune communication rather than a purely immune cluster.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1901216","count":2},{"id":"GO:0050766","count":2},{"id":"GO:0050870","count":2},{"id":"GO:0050729","count":2},{"id":"GO:0008228","count":2}]},{"hash":"427416989987541293","title":"Developmental and Immune\u2013Vascular Regulation","description":"These terms cluster around developmental processes (midbrain development, pancreas morphogenesis, angiogenesis) and immune/vascular interactions (response to lipopolysaccharide, leukocyte tethering/rolling, regulation of IL-8 production), with an additional signal for transcriptional regulation. This suggests a general role in coordinating tissue development with inflammatory and vascular remodeling.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0030901","count":7},{"id":"GO:0032496","count":6},{"id":"GO:0045415","count":6},{"id":"GO:0071333","count":6}]},{"hash":"1631622976312271023","title":"Calcium signaling and membrane trafficking","description":"This cluster\u2019s terms center on release of calcium into the cytosol and regulation/maintenance of protein localization at the plasma membrane, plus regulation of SNARE complex assembly, which together point to calcium-dependent signaling and vesicle trafficking. Some terms (growth, apoptosis, differentiation, meiosis regulation) are more divergent and likely reflect pleiotropic roles of the involved proteins. Overall, the shared theme appears to be calcium-mediated signaling and membrane trafficking rather than a single cohesive pathway.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001558","count":2},{"id":"GO:0010845","count":2},{"id":"GO:0035544","count":2},{"id":"GO:0051209","count":2},{"id":"GO:0007253","count":2}]},{"hash":"978221576473318619","title":"Glutamate receptor signaling and ion transport","description":"The cluster is dominated by GO terms for ionotropic glutamate receptor signaling and various ion transport processes (sodium and calcium), suggesting a core role in excitatory neurotransmission and ionic homeostasis. Related terms touch on neural development (vestibulocochlear nerve formation) and calcium-dependent signaling pathways that influence heart and vascular function, but the common thread appears to be glutamatergic signaling intertwined with Ca2+/Na+ regulation in neural contexts.","confidence":"High","size":8,"edges":22,"triangles":29,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0002028","count":8},{"id":"GO:0035235","count":8},{"id":"GO:0021650","count":8},{"id":"GO:0070588","count":8},{"id":"GO:1990938","count":8}]},{"hash":"450231916160735004","title":"Developmental vesicle trafficking and signaling","description":"These proteins cluster around vesicle trafficking and signaling in development: vesicle fusion and calcium-dependent exocytosis are represented, along with Rho-mediated signal transduction, and broad development terms (heart, brain, nervous and skeletal system). Although tissue-specific development hints exist, the common theme is exocytotic/cytoskeletal remodeling events underpinning developmental processes.","confidence":"Medium","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001302","count":7},{"id":"GO:0007124","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0045956","count":7},{"id":"GO:0007266","count":7}]},{"hash":"520866762041713857","title":"B cell signaling and innate immune response","description":"The terms are dominated by B cell\u2013specific processes (affinity maturation and B cell receptor signaling) along with innate immune responses (innate immunity, defense against Gram-positive bacteria, and LPS response). A few outliers exist (inner ear development, other signaling terms), but the core theme is immune signaling in both adaptive and innate arms.","confidence":"High","size":8,"edges":15,"triangles":9,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0002344","count":7},{"id":"GO:0050853","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0050830","count":7},{"id":"GO:0071222","count":7}]},{"hash":"541844129069406453","title":"Cell Division and Protein Homeostasis","description":"The top GO terms cluster around cell division and DNA replication (cell division, leading strand elongation) alongside a broader set of protein quality-control and remodeling processes (protein hexamerization, SCF complex disassembly, chaperone-dependent refolding, SNARE complex disassembly, oxidation-dependent proteolysis, ubiquitin-related regulation). This suggests a coherent theme where proteins coordinate replication with ubiquitin-mediated regulation, complex assembly/disassembly, and stress-responsive proteostasis, rather than a single narrow pathway. Some terms are obsolete or peripheral (e.g., Lys63-specific deubiquitinase activity, viral genome replication), but the dominant signal points to division-linked regulation and proteostasis.","confidence":"Medium","size":8,"edges":6,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:2001171","count":4},{"id":"GO:0034214","count":4},{"id":"GO:1990171","count":4},{"id":"GO:0006272","count":4}]},{"hash":"549005748772509954","title":"Central metabolism and fatty acid biosynthesis","description":"The top GO terms point strongly to core energy metabolism, including glycolysis, gluconeogenesis, pyruvate decarboxylation to acetyl-CoA, and the TCA cycle, along with lipid biosynthesis via malonyl-CoA and long-chain fatty acid formation. This combination highlights both carbohydrate and lipid biosynthetic pathways as defining features of the cluster. Sodium transport appears less central to the primary theme but may reflect linked energetic or membrane processes. ","confidence":"High","size":8,"edges":8,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006814","count":4},{"id":"GO:0006552","count":4},{"id":"GO:0006094","count":3},{"id":"GO:0006096","count":3},{"id":"GO:0006103","count":3}]},{"hash":"711228419834830351","title":"Diverse xenobiotic and secondary metabolite processing","description":"The top GO terms indicate metabolism and processing of a range of organic compounds, including anthocyanin biosynthesis (secondary metabolite), antibiotic biosynthesis/metabolism, biphenyl and estrogen catabolism, and xenobiotic glucuronidation, pointing to a broad metabolic theme. A couple of terms (like cell wall organization and paranode axon localization) are less coherent with the core metabolism signal and may reflect multifunctional proteins or annotation noise. Overall, the cluster seems to capture proteins involved in transforming diverse natural products and xenobiotics rather than a single, cohesive pathway.","confidence":"Medium","size":8,"edges":11,"triangles":2,"max_degree":5,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0009718","count":7},{"id":"GO:0017000","count":6},{"id":"GO:0016999","count":5},{"id":"GO:0071555","count":5},{"id":"GO:0052697","count":5}]},{"hash":"1263037108092318475","title":"DNA Replication and Repair Machinery","description":"The cluster centers on core DNA replication and genome maintenance processes: leading strand elongation, DNA replication, DNA biosynthesis, and regulation of DNA polymerase activity, with strong representation of UV-damage excision repair and error-free translesion synthesis, plus related transcription elongation regulation. This pattern suggests a cohesive group of proteins involved in DNA replication and repair complexes (replisome/repair machinery). ","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032968","count":6},{"id":"GO:0006272","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0071897","count":6},{"id":"GO:1900264","count":6}]},{"hash":"1152068209800240173","title":"Central carbon metabolism and amino acid/lipid biosynthesis","description":"This cluster's top GO terms center on core energy metabolism (glycolysis and the TCA cycle) and several biosynthetic processes (fatty acids, malonyl-CoA, leucine, lysine) plus general protein metabolism. The common theme is metabolic flux toward energy production and biosynthesis of key building blocks, rather than a single signaling or structural function.","confidence":"Medium","size":8,"edges":24,"triangles":36,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":6},{"id":"GO:0006096","count":5},{"id":"GO:0019878","count":4},{"id":"GO:0042759","count":3},{"id":"GO:2001295","count":3}]},{"hash":"1239197397279933462","title":"Hematopoiesis and Cytokine Signaling","description":"This cluster is driven by GO terms for erythrocyte and megakaryocyte differentiation and definitive/primitve hematopoiesis, indicating a hematopoietic role, with accompanying cytokine response terms (interferon-alpha, interleukin-4) highlighting immune signaling. Some developmental terms (heart, parathyroid) appear but do not override the dominant blood cell differentiation theme.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045654","count":6},{"id":"GO:0045648","count":6},{"id":"GO:0010725","count":6},{"id":"GO:0035457","count":5},{"id":"GO:0045599","count":5}]},{"hash":"1177222051383603746","title":"NF-kappaB signaling and development","description":"The top GO terms center on NF-kappaB pathway activation and innate immune response, with supporting roles in ubiquitin-dependent degradation (ERAD) that regulate NF-kappaB activity. The presence of skin and heart development, along with multicellular development terms, suggests broader developmental roles linked to NF-kappaB signaling. Although some terms are obsolete, the core theme points to NF-kappaB\u2013mediated immunity and tissue development.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":4},{"id":"GO:0043588","count":3},{"id":"GO:0007250","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0045087","count":3}]},{"hash":"1712571716412264641","title":"Developmental remodeling and cell migration","description":"This cluster's top GO terms cover developmental processes across tissues (cartilage development, myelination in the PNS, angiogenesis in wound healing and sprouting angiogenesis) and cell movement/adhesion (cell-matrix adhesion, Rho signaling regulation, cell migration). The mix suggests a theme of tissue remodeling and developmental dynamics rather than a single, cohesive pathway, so a label reflecting development plus movement is appropriate.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000082","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0035024","count":4},{"id":"GO:0022011","count":4},{"id":"GO:0007161","count":3}]},{"hash":"498037340975239106","title":"Multiorgan organogenesis and tissue patterning","description":"The top GO terms cluster around development and morphogenesis across multiple organs (bone, heart atrium, lungs, stomach neuroendocrine cells, floor plate, etc.) and include transcriptional regulation during development. This suggests a broad role in organogenesis and tissue patterning rather than a single tissue-specific function.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045668","count":8},{"id":"GO:0060485","count":8},{"id":"GO:0003210","count":8},{"id":"GO:0003184","count":8},{"id":"GO:0061106","count":8}]},{"hash":"1501956473415120949","title":"Neural Differentiation and Transcription Regulation","description":"The top GO terms center on neuronal fate specification in the spinal cord and cortex (e.g., motor neuron, oligodendrocyte, interneuron differentiation) alongside general transcriptional control (RNA polymerase II\u2013mediated transcription, DNA-templated transcription, and its regulation). While there are broader developmental terms like pancreas and skeletal muscle differentiation, the neural differentiation and transcriptional regulation themes are most pronounced, suggesting a module focused on neural lineage decisions driven by transcription programs.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031018","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0060435","count":4},{"id":"GO:0006366","count":4},{"id":"GO:0021530","count":4}]},{"hash":"974223798121458","title":"Inflammatory signaling and cytokine production","description":"This cluster is dominated by GO terms for positive regulation of inflammatory response, cytokine production (IL-6, IL-8), and defense against Gram-negative bacteria, indicating an inflammation-driven functional theme. The presence of GPCR and receptor tyrosine kinase signaling terms suggests roles in signaling pathways that control cytokine release and inflammation. An axonogenesis term is present but likely reflects shared signaling mechanisms rather than a primary neural function; overall the core theme centers on inflammatory signaling and cytokine regulation.","confidence":"Medium","size":8,"edges":9,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050729","count":5},{"id":"GO:0014068","count":5},{"id":"GO:1905289","count":5},{"id":"GO:0050829","count":5},{"id":"GO:0007169","count":5}]},{"hash":"1329422994740105205","title":"Mitochondrial tRNA charging and translation","description":"The cluster is dominated by mitochondrial tRNA aminoacylation terms (for asparagine, aspartate, phenylalanine, lysine) and tRNA processing plus overall translation, indicating a mitochondria-centric protein synthesis and tRNA charging module; other terms like ubiquitin-dependent catabolic process and DNA repair are less central to the main theme.","confidence":"High","size":8,"edges":13,"triangles":6,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0008033","count":4},{"id":"GO:0070145","count":4},{"id":"GO:0072581","count":4},{"id":"GO:0070146","count":4},{"id":"GO:0006412","count":4}]},{"hash":"1576557857920886720","title":"Wnt signaling\u2013related developmental cluster","description":"Dominant GO term is the Wnt signaling pathway, with brain segmentation supporting a developmental angle. Several other terms reflect broad chemical stress responses, which can be associated with signaling contexts in development. The overall connection centers on Wnt signaling with some developmental/stress context, giving moderate confidence.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":2},{"id":"GO:0006049","count":1},{"id":"GO:0035010","count":1},{"id":"GO:0006486","count":1},{"id":"GO:0035284","count":1}]},{"hash":"574932278201873966","title":"Synaptic vesicle exocytosis regulation","description":"This cluster centers on neurotransmission and vesicle fusion: terms for synaptic vesicle exocytosis, regulation of neurotransmitter secretion, regulation of SNARE complex assembly, neurotransmitter transport, and calcium release, all pointing to proteins that modulate vesicle fusion and neurotransmitter release at synapses. Minor terms about insulin secretion and immune differentiation are peripheral; the core theme is synaptic exocytosis control.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0031915","count":1},{"id":"GO:0046928","count":1},{"id":"GO:0016079","count":1},{"id":"GO:0030073","count":1},{"id":"GO:0006836","count":1}]},{"hash":"1080676306848767627","title":"Developmental signaling and cytoskeletal regulation","description":"The terms point to developmental processes (brain and skin development; multicellular organism development) intertwined with stress and signaling pathways (ER-stress\u2013induced apoptosis; hypoxia response; GTPase regulation) and cytoskeletal dynamics (Arp2/3-mediated actin nucleation) as well as mRNA transport, suggesting a theme of development coupled with cellular stress signaling and cytoskeletal control.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070059","count":4},{"id":"GO:0043588","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0000278","count":4}]},{"hash":"1224174870789437079","title":"Notch signaling and membrane protein proteolysis","description":"The terms cluster around membrane protein proteolysis and Notch-related processing: Notch signaling and receptor processing, ectodomain and intracellular domain proteolysis, and amyloid-beta formation, all consistent with proteolytic events in the secretory pathway (Golgi). Pharynx development and Golgi organization support a developmental, secretory-context theme rather than a distinct unrelated process, reinforcing a Notch-centric proteolysis label.","confidence":"High","size":8,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007030","count":1},{"id":"GO:0000301","count":1},{"id":"GO:0006694","count":1},{"id":"GO:0006624","count":1},{"id":"GO:0006509","count":1}]},{"hash":"1317435855643032986","title":"Actin Dynamics and Endocytosis","description":"This cluster is dominated by actin-related terms (actin cortical patch assembly; negative regulation of Arp2/3\u2013mediated actin nucleation) and endocytosis, with other terms reflecting broader gene regulation and signaling. The strongest common theme is regulation of the actin cytoskeleton and vesicle internalization, making this a concise label for the cluster.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:1902963","count":3},{"id":"GO:0006897","count":3},{"id":"GO:0000147","count":3},{"id":"GO:0034316","count":3}]},{"hash":"1491212132821502793","title":"ER-Golgi vesicle transport cluster","description":"This cluster has strong representation of GO terms for retrograde Golgi-to-ER transport and ER-to-Golgi vesicle trafficking, indicating a core role in ER-Golgi vesicle trafficking. Additional terms for cell division, transcription, and splicing suggest other cellular processes co-annotated with these proteins or broader involvement in fundamental cellular functions, but the dominant theme remains ER-Golgi trafficking.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006890","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0007584","count":3}]},{"hash":"1104627165607942601","title":"Ubiquitin-Mediated Proteolysis in Mitosis","description":"The GO terms cluster around ubiquitin-related regulation (K11-linked ubiquitination, ubiquitin ligase activity) and APC/C-dependent protein degradation, strongly pointing to proteolysis coordinated with mitotic progression (cell division, Okazaki fragment processing in mitotic DNA replication). Although a few entries touch on translation initiation regulation or vesicle trafficking, the dominant signal is ubiquitin-dependent proteolysis during mitosis and cell-cycle control, justifying a concise label focused on this core theme.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070979","count":5},{"id":"GO:0031145","count":4},{"id":"GO:1903461","count":4},{"id":"GO:2000060","count":4},{"id":"GO:1905705","count":4}]},{"hash":"953287943582983799","title":"Translation Machinery and Related Modifications","description":"This cluster is dominated by translation-related GO terms: translation (GO:0006412), selenocysteine incorporation (GO:0001514), and diphthamide formation on elongation factor 2 (GO:0017183), indicating a core theme around protein synthesis and translation-factor modifications. The other terms (antibiotic response, necroptosis, autophagy regulation, and various metabolic processes) appear less central, possibly reflecting ancillary or shared functions. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0070266","count":2},{"id":"GO:0030980","count":2},{"id":"GO:0006015","count":2}]},{"hash":"2028584601040657847","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000447","count":3},{"id":"GO:0000472","count":3},{"id":"GO:0000480","count":3},{"id":"GO:0034316","count":3},{"id":"GO:0000056","count":2}]},{"hash":"270530379854876144","title":"Unknown","description":"The GO terms are highly diverse (mRNA stability, translational initiation, mRNA processing, hormone signaling, plant immune response, vesicle trafficking), with no single function tying the proteins together, so a meaningful label cannot be assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043488","count":1},{"id":"GO:0034052","count":1},{"id":"GO:1903679","count":1},{"id":"GO:0044829","count":1},{"id":"GO:1900363","count":1}]},{"hash":"985868584253891606","title":"Developmental cell adhesion and migration","description":"The proteins show enrichment for processes tied to cell movement and interactions during development: sprouting angiogenesis-related migration, axonal defasciculation, endodermal differentiation, receptor clustering, and heterophilic cell-cell adhesion. Additional terms on phagocytic clearance and engulfment reflect tissue remodeling, supporting a cohesive theme of developmental cell adhesion and migration. Confidence: Medium","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0002042","count":4},{"id":"GO:0007414","count":4},{"id":"GO:0035987","count":4},{"id":"GO:0043113","count":4},{"id":"GO:0050919","count":4}]},{"hash":"439084671158240069","title":"Cell Cycle Regulation and Ubiquitin Signaling","description":"This cluster is driven by terms linking mitotic processes (mitotic cell cycle, spindle orientation checkpoint), protein turnover via ubiquitin-proteasome pathways (SCF-dependent degradation, K11-linked ubiquitination), and related regulation (protein dephosphorylation). Though neuron signaling terms appear, the dominant theme is cell-cycle control coupled with targeted proteolysis and phosphorylation dynamics.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0038180","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0008283","count":2}]},{"hash":"1948910945641597796","title":"Proliferation signaling and angiogenesis","description":"The GO terms cluster around promoting cell growth and survival through signaling pathways (positive regulation of Wnt, MAPK/JNK, and PI3K/AKT; JUN phosphorylation) and processes that support cell adhesion and vessel formation (focal adhesion assembly, integrin-mediated adhesion, angiogenesis). Telomere maintenance terms are present but the dominant theme is growth signaling and angiogenesis.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":2},{"id":"GO:0032212","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0007258","count":2}]},{"hash":"1762105980106120609","title":"Neuronal Calcium Signaling and Synaptic Plasticity","description":"The top GO terms include axonogenesis, long-term synaptic potentiation, excitatory postsynaptic potential, cellular response to calcium ion, and negative regulation of protein kinase activity, pointing to calcium-dependent signaling in neurons and synaptic plasticity. Other terms like ABA signaling and organ development are present but less representative; the core theme appears to be neuronal calcium signaling and plasticity.","confidence":"Medium","size":8,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":4},{"id":"GO:0009738","count":3},{"id":"GO:0007409","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0048855","count":2}]},{"hash":"1974752630700739415","title":"Translation initiation and ribosome assembly","description":"The cluster is dominated by GO terms related to translation processes: translational initiation, translation, formation of cytoplasmic translation initiation complex, formation of translation preinitiation complex, and ribosome assembly, indicating proteins involved in assembling and initiating protein synthesis. Some development-related terms appear but do not override the core translation theme.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002176","count":2},{"id":"GO:0006413","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0001732","count":2},{"id":"GO:0045947","count":2}]},{"hash":"1792469536800394423","title":"Platelet-immune signaling and complement activation","description":"This cluster centers on immune-platelet signaling and complement pathways, with terms related to integrin activation regulation (cell adhesion), platelet activation (positive regulation), IL-10 production, T cell regulation (homeostasis and activation-induced cell death), and classical complement activation plus receptor signaling. The presence of PDGF receptor signaling further ties in platelet-related growth signaling. One term (vocalization behavior) appears incidental, not core to the immune/platelet theme. Overall, the group likely represents coordinated platelet-immune communication and complement-mediated signaling.","confidence":"High","size":8,"edges":8,"triangles":1,"max_degree":7,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0033623","count":5},{"id":"GO:0032613","count":5},{"id":"GO:0010572","count":5},{"id":"GO:0071625","count":5},{"id":"GO:0006924","count":5}]},{"hash":"170153399635256902","title":"Endosomal Sorting and Microautophagy","description":"The featured terms cluster around endosomal trafficking and autophagic processes, including intralumenal vesicle formation, late endosomal microautophagy, and ubiquitin-independent protein degradation via the multivesicular body pathway, pointing to a vesicle-mediated degradation theme; other terms may reflect broader developmental regulation but do not overshadow this core function.","confidence":"High","size":8,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070315","count":3},{"id":"GO:0060056","count":3},{"id":"GO:0014718","count":3},{"id":"GO:0090611","count":3},{"id":"GO:0019099","count":3}]},{"hash":"1823296631802292394","title":"Immune cell endocytosis and cytoskeleton remodeling","description":"The top GO terms cluster around endocytosis and phagocytic processes (engulfment of apoptotic cells, endocytosis), together with strong cues for actin-driven remodeling (filopodium assembly, actin filament branching, podosome assembly) and cell polarity. The presence of T cell receptor signaling and immune synapse-related plasticity indicates an immune-cell context where cytoskeletal changes support endocytic and signaling functions. While Wnt signaling and broader synaptic plasticity terms appear, the core theme is cytoskeleton-mediated endocytosis in immune cells.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043652","count":7},{"id":"GO:0090263","count":7},{"id":"GO:0006897","count":7},{"id":"GO:0046847","count":7},{"id":"GO:0090135","count":7}]},{"hash":"1366443993261708448","title":"Inflammatory lipid remodeling and immune signaling","description":"The terms point to lipid remodeling processes (phosphatidic acid, phosphatidylinositol, and phosphatidylcholine remodeling) together with inflammatory and immune functions (neutrophil immunity, prostaglandin secretion, foam cell differentiation, T cell regulation, and ERK signaling). This suggests a cohesive theme where lipid metabolism and membrane remodeling support inflammatory signaling in immune cells, particularly neutrophils and macrophages. A smaller set of terms related to DNA replication may reflect proliferation linked to immune activity but is less central to the core theme.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0002446","count":3},{"id":"GO:0006654","count":3},{"id":"GO:0032308","count":3},{"id":"GO:0090370","count":3},{"id":"GO:0036149","count":3}]},{"hash":"174038788055825656","title":"Diverse Metabolic Processes","description":"This cluster includes GO terms across flavonoid, catecholamine, estrogen, bile acid, ethanol, and N-acetylglucosamine metabolism, along with proteoglycan biosynthesis. The terms indicate a broad involvement in cellular metabolism rather than a single pathway, suggesting general metabolic activity.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009812","count":4},{"id":"GO:0030206","count":4},{"id":"GO:0000103","count":4},{"id":"GO:0006584","count":4},{"id":"GO:0006711","count":4}]},{"hash":"1278123167505708006","title":"Drosophila organogenesis and sensory development","description":"The top terms cluster around developmental fate specification across multiple tissues (eye cone cell fate, wing fate, spermatid differentiation, heart development) and sensory processes, with additional protein-processing/ER stress terms that can accompany organogenesis. This suggests a theme of developmental differentiation and organ formation rather than a single pathway.","confidence":"Medium","size":8,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0038005","count":3},{"id":"GO:1904211","count":3},{"id":"GO:0034620","count":3},{"id":"GO:0048515","count":3},{"id":"GO:0042676","count":3}]},{"hash":"1715266198085167491","title":"Retinoic acid signaling in eye development and apoptosis","description":"The cluster's terms cluster around vitamin A signaling and eye development (response to vitamin A, eye development) alongside neural development (neurogenesis) and apoptosis (apoptotic process, extrinsic apoptotic signaling). This suggests retinoic acid\u2013mediated pathways guiding neural/retinal development with coordinated apoptotic and stress responses. While some terms are more peripheral (inflammatory response, insulin secretion regulation), the eye development and retinoic acid cues provide the most coherent central theme.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":4},{"id":"GO:0006915","count":3},{"id":"GO:0097192","count":3},{"id":"GO:0022008","count":3},{"id":"GO:0001654","count":2}]},{"hash":"346187228209465777","title":"Developmental differentiation and morphogenesis","description":"The top GO terms cluster around differentiation programs (stem cell and keratinocyte differentiation) and morphogenetic events (wing imaginal disc morphogenesis, neuron migration) with signaling pathways that regulate the cytoskeleton and movement (Rho signaling, actin remodeling, MAPK/JNK, SMAD). This points to a cohesive theme of developmentally regulated differentiation linked to tissue morphogenesis via signaling cascades.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048863","count":3},{"id":"GO:0030216","count":2},{"id":"GO:0070358","count":2},{"id":"GO:0007266","count":2},{"id":"GO:2001171","count":2}]},{"hash":"1321523114837695208","title":"Unknown","description":"The GO terms are split between RNA processing/translation functions (RNA guanine-N7 methylation; formation of translation preinitiation complex; translation reinitiation; mRNA branch site recognition) and mitosis/DNA replication processes (Okazaki fragment processing in mitotic DNA replication; anaphase-promoting complex-dependent catabolic process; homologous chromosome segregation), plus development and apoptosis terms. This mixture lacks a single cohesive functional theme, so there is no clear, representative function for the entire cluster.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036265","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:2000011","count":2},{"id":"GO:0031930","count":2}]},{"hash":"1645267716458930947","title":"Inflammation and immune cell chemotaxis","description":"The cluster centers on inflammatory signaling and recruitment of immune cells, with GO terms for eosinophil and macrophage chemotaxis, platelet activation, chronic inflammatory response, and regulation of IL-1\u03b2 and T cell proliferation, along with metabolic and signaling responses (ATP, calcium, glucose, hypoxia) that support immune activation.","confidence":"High","size":8,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0048245","count":2},{"id":"GO:0048246","count":2},{"id":"GO:2000562","count":2},{"id":"GO:0071318","count":2},{"id":"GO:0050850","count":2}]},{"hash":"1864937874239218308","title":"Intracellular transport and signaling network","description":"This cluster centers on protein transport and vesicle trafficking (Golgi to ER, Rab signaling), plus membrane organization and signaling pathways (GPCR signaling, ERK cascade, tubulin assembly), suggesting a cohesive module that coordinates trafficking with signal transduction. Copper homeostasis and amino acid starvation responses add stress-related context that can influence trafficking and signaling.","confidence":"Medium","size":8,"edges":9,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":2},{"id":"GO:0006878","count":2},{"id":"GO:0034198","count":2},{"id":"GO:0032482","count":1},{"id":"GO:0007186","count":1}]},{"hash":"72133910009362641","title":"Immune signaling and cytoskeletal remodeling","description":"The prominent terms include innate immune response and T cell receptor signaling, plus small GTPase\u2013mediated signaling, negative regulation of GTPase activity, and podosome assembly, together with engulfment of apoptotic cells. Additional terms on ephrin receptor signaling and cell polarity regulation point to coordinated cytoskeletal changes during immune cell interactions and phagocytosis. This suggests a cluster centered on how immune receptor signals drive actin remodeling and immunological synapse\u2013like structures.","confidence":"High","size":8,"edges":9,"triangles":2,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0048013","count":4},{"id":"GO:0071963","count":4},{"id":"GO:0051835","count":4},{"id":"GO:0050852","count":4}]},{"hash":"1018053362721188140","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0086036","count":2},{"id":"GO:0006747","count":1},{"id":"GO:0046444","count":1},{"id":"GO:1990966","count":1},{"id":"GO:0019350","count":1}]},{"hash":"1144466759417819832","title":"RNA processing and translation regulation","description":"This cluster is dominated by GO terms related to post-transcriptional control of gene expression: ncRNA-mediated gene silencing, mRNA stability during stress, translation initiation/reinitiation, formation of the preinitiation complex, spliceosome-mediated splicing, and mRNA localization and methylation processes. The presence of splicing and mRNA localization (oskar) terms points to nuclear RNA processing and localized translation, while poly(A) tail regulation and 7-muan Guanine methylation tie to mRNA maturation and cap changes. Lens fiber differentiation appears as a secondary developmental context, but the core theme remains RNA processing and translational control.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":3},{"id":"GO:0010610","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0000398","count":2}]},{"hash":"289485821837067694","title":"Developmental differentiation and protein processing","description":"This cluster contains GO terms spanning developmental fate specification (wing/eye/spermatid differentiation) and protein maturation/quality control (EGFR ligand maturation, ER to cytosol proteolysis, unfolded protein response, post-translational modification, glycoprotein catabolic process), suggesting proteins in this cluster participate in coordinating developmental decisions with protein processing pathways.","confidence":"Medium","size":8,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0038005","count":3},{"id":"GO:1904211","count":3},{"id":"GO:0034620","count":3},{"id":"GO:0048515","count":3},{"id":"GO:0042676","count":3}]},{"hash":"1572152129489548049","title":"Innate immune response and interferon production","description":"This cluster is dominated by GO terms for innate immunity and type II interferon production (innate immune response and IFN-\u03b3-related processes), suggesting the proteins collectively participate in early immune signaling. The other terms (ossification, morphogenesis, muscle contraction) are sporadic and do not define the core function of the group, which is best captured by innate immune activity.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072643","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0007275","count":3}]},{"hash":"232100173247774177","title":"Unknown","description":"The top GO terms are scattered across distinct biological areas (translation, neural development, phosphorylation, lipid metabolism, RNA transport, antibiotic response, ubiquinone/tocopherol regulation), with only translation standing out. There is no coherent shared function tying all seven proteins together, so a single meaningful label cannot be derived.","confidence":"","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0021692","count":1},{"id":"GO:0016310","count":1},{"id":"GO:0006468","count":1},{"id":"GO:0055088","count":1}]},{"hash":"1016683694619256381","title":"Dopaminergic GPCR Signaling and Morphine Response","description":"The top GO terms cluster around GPCR signaling\u2014notations like GPCR internalization and protein phosphorylation\u2014along with dopaminergic synaptic transmission, morphine response, and ERK cascade regulation. This suggests a cohesive theme of GPCR-mediated neuronal signaling and plasticity, particularly in dopaminergic pathways and opioid/morphine responses, with downstream ERK activation. Some terms such as visual learning/perception may reflect broader CNS roles of these pathways. Therefore, a concise label emphasizing dopaminergic GPCR signaling and morphine response is appropriate.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":7},{"id":"GO:0070374","count":7},{"id":"GO:0001963","count":7},{"id":"GO:0043278","count":7},{"id":"GO:0045907","count":7}]},{"hash":"71820712474095366","title":"Calcium signaling and muscle contraction","description":"Based on the top GO terms, several entries point to calcium-mediated signaling and muscle function, including release of sequestered calcium into the cytosol, regulation of cardiac muscle contraction, and intestine smooth muscle contraction, with PLC-activating serotonin signaling as a pathway that can induce calcium release. While some terms reflect development or immune differentiation, the strongest common thread is calcium-dependent signaling linked to muscle and secretory processes, justifying a label centered on calcium signaling and muscle activity.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":7},{"id":"GO:0007208","count":7},{"id":"GO:0055117","count":7},{"id":"GO:0007497","count":7},{"id":"GO:0048245","count":7}]},{"hash":"803419940322002929","title":"Ubiquitin-mediated host immune signaling","description":"This cluster shows strong enrichment for ubiquitination processes (polyubiquitination, K6-linked ubiquitination, actin ubiquitination) alongside immune-related functions (T cell homeostasis, regulation of TLR signaling, NF-kappaB signaling), and host defense roles (suppression of viral release, suppression of symbiont invasion). The combined terms point to a set of proteins that regulate immune signaling through ubiquitin pathways and cytoskeletal/tubule-associated processes, impacting host defense and inflammation.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043029","count":3},{"id":"GO:0035372","count":2},{"id":"GO:1901224","count":2},{"id":"GO:0097039","count":2},{"id":"GO:0085020","count":2}]},{"hash":"212983458523075546","title":"Ribosome biogenesis and translation","description":"The cluster is dominated by GO terms for translation and ribosome assembly, including translation, positive regulation of translation, cytosolic ribosome assembly, and ribosomal large subunit biogenesis. There are additional DNA damage and UV response terms, which may reflect stress-related regulation, but the core signal points to components of protein synthesis machinery and ribosome production. Therefore, this label aptly captures the cluster's primary function.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0045727","count":3},{"id":"GO:0006977","count":3},{"id":"GO:0071480","count":3},{"id":"GO:1902164","count":3}]},{"hash":"1609662642387386189","title":"Unknown","description":"The top GO terms point to very diverse processes (mRNA export, DNA replication, protein complex disassembly, ubiquitin-related regulation, chaperone activity, SNARE trafficking, and viral genome replication) with no single cohesive Function theme. Some terms are even obsolete, suggesting the cluster does not map to a unique, interpretable biological role, so a precise high-level label is not justifiable.","confidence":"","size":7,"edges":18,"triangles":23,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006406","count":4},{"id":"GO:2001171","count":3},{"id":"GO:0034214","count":3},{"id":"GO:1990171","count":3},{"id":"GO:0006272","count":3}]},{"hash":"115666514963896033","title":"DNA replication and ubiquitin-mediated stress response","description":"The strongest signals are DNA replication and leading strand elongation, pointing to replication machinery, while associations with ubiquitin-related ERAD and SCF complex disassembly under cadmium stress suggest stress-induced protein quality control. Some terms are obsolete or unrelated (SNARE disassembly, viral replication), but the core theme combines replication with ubiquitin-driven stress response, giving a Medium confidence.","confidence":"Medium","size":7,"edges":13,"triangles":10,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0030433","count":3},{"id":"GO:2001171","count":2},{"id":"GO:0034214","count":2},{"id":"GO:1990171","count":2}]},{"hash":"1366787397663148105","title":"Unknown","description":"The listed GO terms are highly diverse and include autophosphorylation, cytoskeleton regulation (obsolete), cardiac muscle proliferation, osmosensory signaling, endothelial cell migration, mitosis-related centrosome separation, and trehalose catabolism. Many terms are obsolete, and there is no single shared process uniting the proteins. Given the absence of a cohesive functional theme or interactions, this cluster cannot be confidently labeled beyond Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038083","count":7},{"id":"GO:2000251","count":7},{"id":"GO:0060044","count":7},{"id":"GO:0014068","count":7},{"id":"GO:0001806","count":7}]},{"hash":"11307298636573311","title":"Ubiquitin-Dependent Neural Differentiation Regulation","description":"The dominant terms point to ubiquitin-mediated proteolysis (ubiquitin-dependent protein catabolic process, protein autoubiquitination) alongside neuronal development signals (neuron differentiation, regulation of JNK cascade, negative regulation of neuron apoptotic process). This suggests proteins in this cluster regulate neural differentiation and neuron survival through ubiquitination and related signaling pathways.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:1902459","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0030182","count":3},{"id":"GO:0043524","count":3}]},{"hash":"1570522116270227546","title":"Meiosis and Chromosome Segregation","description":"The top GO terms are dominated by meiotic processes (DNA double-strand break formation, meiotic recombination, telomere clustering) and chromosome segregation with spindle dynamics and APC/C-dependent catabolic activity, suggesting a cluster of proteins coordinating meiotic progression, recombination, and chromosome segregation; regulatory items like neddylation and histone ubiquitination support this as chromatin- and protein turnover-related control during meiosis.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042138","count":7},{"id":"GO:0071455","count":7},{"id":"GO:0010845","count":7},{"id":"GO:0000022","count":7},{"id":"GO:0007059","count":7}]},{"hash":"1633694302744155098","title":"Immune Defense and Ion Transport","description":"The cluster is driven mainly by immune-related processes: cellular defense response, defense response to Gram-negative bacteria, and antigen processing/presentation via MHC class I, with indications of T cell cytotoxic regulation. There is also a secondary theme of membrane activity, including proton transmembrane transport and regulation of membrane potential, suggesting ion transport roles. A few terms relate to taste or xenobiotic response, but the dominant signal ties immunity to membrane/ion dynamics.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":3},{"id":"GO:0015991","count":2},{"id":"GO:0042391","count":2},{"id":"GO:0001916","count":2},{"id":"GO:0001580","count":2}]},{"hash":"625941085288325815","title":"Nuclear transcription and DNA replication machinery","description":"The terms center on core nuclear activities: DNA replication, DNA-templated transcription initiation, RNA Pol II preinitiation complex assembly, snoRNP and ribosomal subunit assembly, and histone acetylation, indicating a cluster of proteins involved in genome expression and chromatin regulation. Also present are regulatory processes like proteasomal control, cytokine response, and cell growth, consistent with a coordinated nuclear signaling network across developmental contexts (e.g., follicle cell development). ","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0000027","count":2},{"id":"GO:0051123","count":2},{"id":"GO:0032435","count":2},{"id":"GO:0060760","count":2}]},{"hash":"1606106354589768070","title":"Plant cell wall glycoproteins and mucilage biosynthesis","description":"The GO terms are dominated by plant-specific processes related to cell wall components and glycoproteins: arabinogalactan protein metabolism, mucilage biosynthesis in seed coats, hydroxyproline O-glycosylation, and root hair development, suggesting a cohesive function in plant cell wall glycoproteins and mucilage production. Some terms about insect development appear as noise, but the core signal supports a plant cell wall/glycoprotein theme.","confidence":"Medium","size":7,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":3},{"id":"GO:0032092","count":2},{"id":"GO:0001744","count":2},{"id":"GO:0080147","count":2},{"id":"GO:0048354","count":2}]},{"hash":"2284486077816892955","title":"Ribosome Biogenesis and Translation","description":"Dominated by GO terms for cytoplasmic translation, mitochondrial translation, and ribosomal large subunit assembly, indicating a cluster of proteins involved in ribosome function and protein synthesis. While a few signaling- or stimulus-response terms (nerve growth factor, interleukin-4, glucose stimulus) appear, they are secondary to the core translation-related processes.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0002181","count":4},{"id":"GO:0032543","count":3},{"id":"GO:1990090","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0000027","count":2}]},{"hash":"433489068967172211","title":"LPS and cell wall biosynthesis","description":"Most represented terms center on lipopolysaccharide biosynthesis, including O antigen and lipid A, which point to outer membrane/cell envelope construction in bacteria. The presence of a cell wall organization term reinforces this theme, while translation/transcription terms may be incidental. Overall, the cluster appears to reflect envelope biosynthesis processes.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":2},{"id":"GO:0009243","count":2},{"id":"GO:0019878","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0006107","count":1}]},{"hash":"1704155416849118482","title":"Antibiotic Response and Translational Fidelity","description":"The cluster shows strong signals for translation (GO:0006412) and antibiotic response (GO:0046677), with additional terms related to maintaining or positively regulating translational fidelity. This points to a group of proteins involved in protein synthesis and its accuracy, likely linked to ribosome-associated processes that respond to antibiotic stress. The presence of a few catabolic terms is comparatively minor, reinforcing the translation-centered theme. ","confidence":"High","size":7,"edges":19,"triangles":26,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0045903","count":2},{"id":"GO:1990145","count":2},{"id":"GO:0019470","count":1}]},{"hash":"1742658897611320866","title":"Neuronal cell adhesion and axon guidance","description":"This cluster centers on neuronal adhesion and neural development, with terms for homophilic/heterophilic cell adhesion, synapse assembly, nervous system development, axon guidance, and paranodal junctions\u2014titting a group of proteins that mediate neuron\u2013neuron and neuron\u2013glia interactions during axon pathfinding and synapse formation. The bone ossification term may reflect shared adhesion roles in other tissues.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":4},{"id":"GO:0043931","count":4},{"id":"GO:0007157","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0007399","count":3}]},{"hash":"1682349711709964394","title":"Integrin signaling and cell adhesion in tissue remodeling","description":"The GO terms cluster around integrin-mediated signaling, various forms of cell adhesion (including integrin- and heterotypic adhesion), and extracellular matrix organization (collagen fibril), all linking to tissue remodeling processes such as wound healing, epidermal spreading, and angiogenic sprouting. This points to a cohesive module of cell\u2013ECM interactions driving adhesion, migration, and repair.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":4},{"id":"GO:0002042","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0035160","count":3},{"id":"GO:0034113","count":3}]},{"hash":"1303312783807522714","title":"Animal organ development and regeneration","description":"The cluster shows a pattern of GO terms centered on development across several organs (brain, spleen, uterus, bone) and on animal organ regeneration, pointing to a broad developmental/regenerative program; auxiliary terms like DNA repair and basic biosynthetic processes appear less prominently.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0048536","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0060065","count":2},{"id":"GO:0016310","count":1}]},{"hash":"477435335019280211","title":"Lipid catabolism and signaling","description":"This cluster is dominated by lipid-related catabolic processes (triglyceride, diacylglycerol, monoacylglycerol, fatty acids, phosphatidylserine) and lipid-protein modulation (depalmityoylation), plus regulation of endocannabinoid signaling, pointing to a theme of lipid turnover and lipid-mediated signaling. Some outliers (cellulose catabolic, antibiotic biosynthetic) are present but do not define the core function.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000124","count":4},{"id":"GO:0017000","count":4},{"id":"GO:0019433","count":4},{"id":"GO:0042136","count":3},{"id":"GO:0030245","count":3}]},{"hash":"1585566984363045103","title":"mRNA Deadenylation-Dependent Decay and P-Body Assembly","description":"The cluster centers on post-transcriptional mRNA regulation and decay: deadenylation-dependent decay, decapping, and P-body assembly, with miRNA-mediated post-transcriptional gene silencing also represented. This points to proteins functioning in cytoplasmic mRNA turnover and storage, rather than transcriptional initiation, though a single flavonoid metabolic term appears to be an annotation artifact.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0061014","count":2},{"id":"GO:0090503","count":2},{"id":"GO:0035195","count":2},{"id":"GO:0033962","count":2},{"id":"GO:0000290","count":2}]},{"hash":"1987136998700877736","title":"Tissue morphogenesis and organismal development","description":"The top GO terms are dominated by morphogenesis and development across tissues, including left ventricular cardiac muscle tissue morphogenesis, outflow tract morphogenesis, skin development, and multicellular organism development. While there are additional terms related to sensory perception, temperature/caffeine responses, and calcium signaling, the strongest signals point to tissue morphogenesis and broader developmental processes, suggesting a cluster of proteins involved in shaping tissues during development. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0071502","count":4},{"id":"GO:0003220","count":4},{"id":"GO:0003151","count":4}]},{"hash":"169577227749550471","title":"Cytotoxic immune response and antigen presentation","description":"Dominant GO terms relate to cytotoxic immune activities (T cell and NK cell mediated cytotoxicity) and MHC class I antigen processing/presentation, suggesting a cluster focused on cytotoxic immunity and antigen presentation. Non-immune terms appear as noise and do not define the main theme. ","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001916","count":1},{"id":"GO:0001580","count":1},{"id":"GO:0002480","count":1},{"id":"GO:0042267","count":1},{"id":"GO:0071283","count":1}]},{"hash":"336201923317290184","title":"Endocrine and autonomic signaling","description":"This cluster co-occurs with GO terms indicating regulation of hormone-related processes (insulin secretion, histamine-induced gastric acid secretion), cardiovascular signaling (regulation of cardiac muscle contraction), and neurotransmitter pathways (serotonin receptor signaling), plus responses to temperature and pain. The collection points to a broad, organism-wide regulatory signaling theme rather than a single specific pathway, with a developmental term suggesting contextual roles. Overall, a label around endocrine/autonomic signaling seems representative. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":6},{"id":"GO:0002024","count":6},{"id":"GO:0019233","count":6},{"id":"GO:0050796","count":6},{"id":"GO:0008284","count":6}]},{"hash":"1656929702325034997","title":"Adaptive Immunity and Antigen Presentation","description":"The top GO terms cluster around adaptive immunity and antigen processing/presentation (T cell cytotoxicity regulation, MHC I presentation, B cell signaling) and general defense responses, with related xenobiotic and iron-related responses; there is an outlier term for bitter taste that may reflect annotation noise. Overall, the functions point to immune defense and antigen presentation. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001916","count":3},{"id":"GO:0001580","count":3},{"id":"GO:0002480","count":3},{"id":"GO:0071283","count":3},{"id":"GO:0050829","count":3}]},{"hash":"260915989091483435","title":"Hair cell sensory signaling and membrane organization","description":"The cluster contains GO terms tied to sensory systems and neuronal signaling, notably neuromast hair cell differentiation and sensory perception of sound, along with related synaptic plasticity and membrane domain organization (eisosome assembly, membrane raft polarization). While there are outliers like glycosylation and endothelial/immune terms, the strongest, coherent theme links hair cell\u2013related sensory signaling and membrane organization. ","confidence":"Medium","size":7,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070658","count":1},{"id":"GO:0006487","count":1},{"id":"GO:1902043","count":1},{"id":"GO:0061028","count":1},{"id":"GO:0035208","count":1}]},{"hash":"864163446761392553","title":"APC/C-Mediated Mitotic Regulation","description":"The top GO terms point to mitotic cell cycle processes and APC/C-dependent proteolysis (anaphase-promoting complex, cell division, protein K11-linked ubiquitination), indicating a core role in regulating mitosis via targeted ubiquitin-mediated degradation. Secondary terms related to histone methylation and transcription suggest chromatin-level regulation, but the strongest signal remains APC/C-driven mitotic control. Confidence: Medium","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031145","count":3},{"id":"GO:0061087","count":3},{"id":"GO:2001162","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0051301","count":3}]},{"hash":"1515086884312176244","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0000480","count":2}]},{"hash":"867490208936657478","title":"Vacuolar amino acid transporters","description":"This cluster is driven by amino acid transmembrane transport terms, especially imports/exports into the vacuole (proline, alanine, glutamate, histidine, arginine) and a lithium ion transport term, indicating membrane transporter proteins that function in vacuolar amino acid/ion movement in plant cells. A couple terms like insulin signaling and root cap development appear peripheral to the main transport theme. ","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015824","count":3},{"id":"GO:0008286","count":2},{"id":"GO:2001275","count":2},{"id":"GO:0048829","count":2},{"id":"GO:0090513","count":2}]},{"hash":"894456008473659394","title":"Unknown","description":"The top GO terms are too diverse to reflect a single cohesive function: cell division and chromosome segregation; GTPase signaling; sensory development (taste, retina); plant patterning; mitochondria-nucleus signaling; glial apoptosis; and RNA processing. There is no clear unifying theme tying these proteins together, so a specific, representative label cannot be assigned.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0050909","count":4},{"id":"GO:0060041","count":4},{"id":"GO:0000920","count":4}]},{"hash":"1132179030937058049","title":"Adaptive and innate immune signaling","description":"This cluster is enriched for both innate and adaptive immune processes, including defense against bacteria, B cell receptor signaling, Fc-epsilon receptor signaling, and interleukin-2 production, alongside innate immune response and cell adhesion signaling that supports leukocyte communication.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042742","count":5},{"id":"GO:0046718","count":4},{"id":"GO:0007157","count":4},{"id":"GO:0002250","count":4},{"id":"GO:0050853","count":4}]},{"hash":"1600787176774594863","title":"Ribosome biogenesis with proteasomal turnover","description":"This cluster is dominated by ribosome-related GO terms: ribosome biogenesis (GO:0042254) and ribosomal large subunit assembly (GO:0000027), each with two annotations, plus SCF-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031146). These converge on a theme of ribosome assembly and coordinated protein turnover via the ubiquitin-proteasome system. Other terms (defense response, pattern formation, etc.) appear less central and may reflect incidental associations. Therefore, the label captures the main functional signal of the cluster.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0000027","count":2},{"id":"GO:2000011","count":1}]},{"hash":"760403975011077153","title":"Mitosis and ER-Golgi Transport","description":"The top GO terms cluster around core cell-division activities (mitotic sister chromatid segregation, homologous chromosome segregation, general cell division) and vesicle trafficking between the endoplasmic reticulum and Golgi apparatus, suggesting a group of proteins involved in both cell division and intracellular trafficking. There are additional terms related to development and RNA processing (brain development, pattern formation, mRNA branch site recognition), which appear as outliers or cross-species signals, indicating some multifunctionality or noise. Overall, the dominant theme appears to be mitosis coupled with vesicular transport, hence the label.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0031954","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0000070","count":3},{"id":"GO:0007420","count":3}]},{"hash":"468514026520343452","title":"Actin Cytoskeleton Dynamics and Signaling","description":"The cluster highlights actin-related processes (actin nucleation and polymerization, skeletal muscle thin filament assembly) along with intracellular signaling (calcium release, GPCR signaling). This points to cytoskeletal remodeling closely tied to signaling pathways across various differentiation contexts, rather than a single tissue-specific process. ","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0051209","count":2},{"id":"GO:0045745","count":1},{"id":"GO:0045010","count":1}]},{"hash":"1296845565251735223","title":"Muscle contraction and sarcomere organization","description":"The top GO terms cluster around cardiac muscle contraction and sarcomere organization (including positive regulation of sarcomere organization and heart rate regulation by epinephrine), indicating a muscle-contractile apparatus theme. Some terms like phototransduction, visual perception, and olfactory behavior appear as less central annotations, which may reflect broader sensory-related components or annotation noise, but do not outweigh the dominant muscle/heart function signal. Overall, the cluster is best described by muscle contraction and sarcomere organization.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":7},{"id":"GO:0007602","count":6},{"id":"GO:0007601","count":6},{"id":"GO:1904706","count":6},{"id":"GO:0060298","count":6}]},{"hash":"596799489801461926","title":"Synaptic Vesicle Trafficking and Plasticity","description":"The terms point to a cohesive neuronal synapse theme: SNARE complex assembly, synaptic vesicle priming, and exocytic insertion of receptors describe presynaptic release and postsynaptic receptor trafficking; regulation of synapse assembly and short-term plasticity, along with axonogenesis, reflect synapse development and adaptability; potassium ion transport ties to neuronal excitability, and receptor internalization highlights dynamic receptor turnover. Together, these indicate a module centered on synaptic transmission and plasticity.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0098967","count":3},{"id":"GO:0035493","count":3},{"id":"GO:0016082","count":2},{"id":"GO:0051963","count":2}]},{"hash":"1717736822614730377","title":"Ubiquitin-mediated TNF and NF-kappaB signaling","description":"The top GO terms center on ubiquitin tagging and chain linkages (K48, K63, K11, K6) and autoubiquitination, with positive regulation of TNF-mediated signaling and NF-kappaB activity, plus peroxisomal protein import via ubiquitination and necroptosis regulation. These points point to a cohesive theme of ubiquitin pathway components that modulate inflammatory signaling and cell fate.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":6},{"id":"GO:0051865","count":5},{"id":"GO:1903265","count":4},{"id":"GO:0016558","count":4},{"id":"GO:0085020","count":4}]},{"hash":"476199905922462669","title":"Unknown","description":"The top GO terms span ECM organization, ossification, chromosome segregation, translational attenuation, metabolism, immune signaling (IL-4), and drug response (cocaine), with no clear single function uniting the cluster. The scattered terms suggest a mixed set of proteins without a cohesive shared role, so a more specific label cannot be confidently assigned.","confidence":"","size":7,"edges":9,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030198","count":2},{"id":"GO:0001503","count":2},{"id":"GO:0032092","count":2},{"id":"GO:0007059","count":2},{"id":"GO:0009386","count":2}]},{"hash":"662757835550374338","title":"MHC II-Mediated Antigen Processing and Phagocytosis","description":"This cluster centers on immune-related functions: antigen processing and presentation via MHC II, phagocytosis, response to LPS, autophagy, and antibacterial peptide production. Although a few terms point to other processes (ossification, angiotensin maturation, hormone signaling), the most represented GO terms cluster around antigen presentation and innate immune recognition, suggesting a small immune module.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019886","count":2},{"id":"GO:0001957","count":2},{"id":"GO:0006910","count":2},{"id":"GO:0032496","count":1},{"id":"GO:0002003","count":1}]},{"hash":"1771249530596330587","title":"Nuclear DNA Repair and Ubiquitin Turnover","description":"Most GO terms point to nuclear genome maintenance via DNA repair and ubiquitin-dependent protein catabolism, including ubiquitin recycling and depolymerization. Related terms touch chromatin modification and nuclear processes, supporting a cohesive module centered on genome integrity and protein turnover within the nucleus.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0051568","count":2},{"id":"GO:1903070","count":2},{"id":"GO:0035192","count":2},{"id":"GO:0018230","count":2}]},{"hash":"1495753257938506368","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904582","count":2},{"id":"GO:0071364","count":2},{"id":"GO:0038066","count":2},{"id":"GO:0048382","count":2},{"id":"GO:0003342","count":2}]},{"hash":"1317353061887441552","title":"Cell-Surface Signaling and Trafficking Inhibition","description":"The top GO terms point to negative regulation of signaling pathways (TNF signaling and NF-kappaB activity) and membrane trafficking (plasma membrane to endosome transport, protein localization to the cell surface). This suggests a small cluster of proteins that dampen cell-surface signaling and endocytic transport, though some terms like mammary gland development or visual learning may reflect broader annotations or context-specific roles.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000009","count":2},{"id":"GO:1902306","count":2},{"id":"GO:0048227","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0033209","count":2}]},{"hash":"525868974834112688","title":"Neuronal development and synapse assembly","description":"A set of terms centers on neural development and synaptic organization, with multiple items pointing to neuronal stem cell maintenance, neuron\u2013neuron adhesion, and presynaptic active zone assembly. While some terms touch on broader processes like planar polarity and LDL signaling, the recurring theme across the top GO terms is neuronal connectivity and synapse formation, which justifies a label focused on neuronal development and synapse assembly.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071285","count":3},{"id":"GO:0090176","count":3},{"id":"GO:0045176","count":3},{"id":"GO:1904071","count":3},{"id":"GO:0048105","count":3}]},{"hash":"47953330485063527","title":"Unknown","description":"The GO terms are diverse (neuronal synaptic plasticity, apoptosis regulation, toxin response, lipid biosynthesis, cell polarity, hair follicle maturation) with no single dominant function, making a confident, cohesive label unlikely.","confidence":"","size":7,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048169","count":2},{"id":"GO:0060548","count":2},{"id":"GO:1902043","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0055114","count":2}]},{"hash":"662529918025658850","title":"Immune Activation and ERK Signaling","description":"The top GO terms point to adaptive immune responses (adaptive immune response, positive regulation of alpha-beta T cell proliferation, type II interferon production) and immune-related signaling (ERK1/2 cascade), along with processes like phagocytosis and endothelial cell migration. The CNS development term seems discordant and may be noise, but the dominant theme is immune activation and signaling, including T cell\u2013related and interferon-related regulation. So the label reflects the core function of this cluster.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007417","count":6},{"id":"GO:0038083","count":5},{"id":"GO:2000251","count":5},{"id":"GO:0006909","count":5},{"id":"GO:0043536","count":5}]},{"hash":"4306752961824819","title":"Tight Junctions and Actin Remodeling","description":"This cluster is enriched for bicellular tight junction assembly, endothelial barrier establishment, and actin nucleation/filament formation, indicating a cohesive theme of cell-cell junctions coordinated with actin cytoskeleton remodeling. Additional terms related to membrane organization and some developmental signaling appear, but the dominant signal centers on junctional integrity supported by actin dynamics.","confidence":"Medium","size":7,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070830","count":2},{"id":"GO:0045010","count":2},{"id":"GO:0051639","count":2},{"id":"GO:0061028","count":1},{"id":"GO:0070941","count":1}]},{"hash":"1489985912349400365","title":"Embryonic Organ Morphogenesis","description":"The cluster\u2019s GO terms are strongly centered on developmental processes and morphogenesis across multiple organs (heart, eye, hindlimb, placenta, habenula, prostate). This suggests a shared theme of embryonic organ formation and tissue patterning rather than a single pathway, justifying a label like Embryonic Organ Morphogenesis.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2000288","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0060527","count":7},{"id":"GO:0001890","count":7},{"id":"GO:0048048","count":7}]},{"hash":"979180228133088255","title":"Vitamin and xenobiotic transmembrane transport","description":"This cluster is enriched for GO terms describing transport of small molecules across membranes, especially vitamins (thiamine), glycine betaine, heme, and xenobiotics, plus an oligopeptide export from mitochondrion. The dominant theme is membrane transport of these compounds, with a few secondary regulatory terms, so the name reflects the core function.","confidence":"High","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":7},{"id":"GO:0006855","count":7},{"id":"GO:0042891","count":5},{"id":"GO:0090374","count":4},{"id":"GO:0031460","count":4}]},{"hash":"1178210890210582260","title":"Immune signaling and lymphatic vessel development","description":"The GO terms are dominated by immune activation and signaling (phagocytosis recognition, Fc-gamma receptor signaling, basophil activation, platelet activation, NK cell chemotaxis) and include lymphatic vessel morphogenesis, suggesting a cluster centered on immune-related signaling intertwined with lymphatic development rather than a single, narrow function.","confidence":"Medium","size":7,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006910","count":5},{"id":"GO:0072177","count":4},{"id":"GO:0045575","count":4},{"id":"GO:0060355","count":4},{"id":"GO:0038094","count":4}]},{"hash":"1936564762718740480","title":"Synapse assembly and neuronal adhesion","description":"This cluster's terms converge on neuronal connectivity: presynaptic active zone assembly, GABAergic synaptic transmission, neuron cell\u2013cell adhesion, and integrin signaling, with additional cues for neuronal polarity and microtubule organization. Together they point to roles in forming and maintaining neuronal synapses and adhesion networks.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090176","count":6},{"id":"GO:1904071","count":6},{"id":"GO:0045176","count":6},{"id":"GO:0048105","count":6},{"id":"GO:0060488","count":6}]},{"hash":"756926327416258031","title":"Septin Ring at Bud Neck and Division","description":"Proteins cluster around septin-based processes at the bud neck, with strong signals for septin ring organization, protein localization to the bud neck, division septum assembly, and mitotic cell cycle. This combination points to a module coordinating bud neck architecture and cytokinesis in budding cells, rather than broader neuronal or spermatogenic functions. Thus the label Septin Ring at Bud Neck and Division captures the core theme.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:1902857","count":3},{"id":"GO:0016476","count":3},{"id":"GO:0097271","count":3},{"id":"GO:0031175","count":3}]},{"hash":"200777040954925992","title":"Peroxisomal lipid metabolism and glyoxysome functions","description":"This cluster centers on peroxisomal lipid metabolism, highlighted by fatty acid beta-oxidation, glyoxysome organization, and ketone body biosynthesis, with supporting terms such as lipid hydroperoxide transport; some annotations (sporulation, adipose development) may reflect cross-species or broader GO mappings, but the core signal is peroxisome-associated lipid catabolism and energy production.","confidence":"High","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006635","count":5},{"id":"GO:1901373","count":4},{"id":"GO:0014070","count":4},{"id":"GO:0030435","count":4},{"id":"GO:0042619","count":4}]},{"hash":"2086080449396934206","title":"Lipid transport and cholesterol homeostasis","description":"The cluster shows strong representation of GO terms related to HDL particle clearance, cholesterol efflux, reverse cholesterol transport, and response to lipid hydroperoxide, suggesting lipid metabolism and cholesterol homeostasis as a unifying theme. Some dental development and morphogenesis terms are present but appear auxiliary; overall the lipid-related functions dominate the cluster\u2019s signal. ","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070175","count":1},{"id":"GO:0042475","count":1},{"id":"GO:0035118","count":1},{"id":"GO:0042311","count":1},{"id":"GO:0034384","count":1}]},{"hash":"1573920551471091937","title":"RNA Processing and Decay","description":"This cluster is dominated by RNA metabolism functions: mRNA splicing, tRNA processing, rRNA maturation, and decapping/decay pathways, plus P-body assembly and nuclear import, all pointing to RNA processing and turnover. The stress-response terms (ABA, water deprivation) and chromatin-related term are likely secondary contexts, but the core signal ties to RNA processing and nuclear-cytoplasmic RNA handling.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":6},{"id":"GO:0009414","count":5},{"id":"GO:0008033","count":5},{"id":"GO:1990141","count":5},{"id":"GO:0033962","count":5}]},{"hash":"1619485289145381116","title":"Ribosome Biogenesis and Translation","description":"This cluster is anchored by GO:0006412 (translation) and GO:0000462 (maturation of SSU-rRNA), pointing to ribosome assembly and protein synthesis; the other terms are more diverse (DNA replication, SNARE disassembly, stress responses), so the strongest, coherent theme is ribosome biogenesis/translation.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0000462","count":2},{"id":"GO:2001171","count":2},{"id":"GO:0034214","count":2},{"id":"GO:1990171","count":2}]},{"hash":"1934756266902419964","title":"Quinone biosynthesis and broad small-molecule metabolism","description":"The top GO terms cluster around biosynthesis of quinones (phylloquinone and menaquinone) and various catabolic pathways for amino acids and lipids (valine, fatty acids, phenylacetate), plus a note on antibiotic biosynthesis. This suggests a grouping of proteins involved in general small-molecule metabolism and energy-related cofactors, with quinone biosynthesis as a unifying theme. Confidence: Medium","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042372","count":6},{"id":"GO:0006574","count":6},{"id":"GO:0009234","count":6},{"id":"GO:0017000","count":6},{"id":"GO:0006635","count":6}]},{"hash":"1332798300064269824","title":"Unknown","description":"The terms span skeletal development (endochondral ossification, bone mineralization) and a broad set of metabolic processes (phosphorylation/dephosphorylation, serine and adenosine metabolism, purine catabolism, pyruvate fermentation, fatty acid import) with no clear unifying function among the six proteins, and there are no edges to suggest a cohesive pathway or complex. Hence no coherent label beyond Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016311","count":2},{"id":"GO:0019509","count":1},{"id":"GO:0001958","count":1},{"id":"GO:0006564","count":1},{"id":"GO:0035630","count":1}]},{"hash":"1029466944441054545","title":"Unknown","description":"Top GO terms span diverse processes (muscle assembly/adaptation, chromatin acetylation, fertilization, vacuole inheritance, phagocytosis, retina homeostasis, aggressive behavior) with no clear shared pathway, indicating no cohesive function for the cluster.","confidence":"","size":6,"edges":8,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007338","count":2},{"id":"GO:0030240","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0043983","count":2},{"id":"GO:0000011","count":2}]},{"hash":"600280365113027252","title":"Unknown","description":"The top GO terms span diverse processes across different biological contexts (plant secondary metabolism and cell wall processes, animal development, xenobiotic metabolism, neuronal protein localization, and general cell cycle). This heterogeneity provides no clear shared function or pathway linking the proteins, so there is no coherent theme to name the cluster beyond Unknown.","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0009718","count":4},{"id":"GO:0051216","count":3},{"id":"GO:0016999","count":3},{"id":"GO:0071555","count":3},{"id":"GO:0052697","count":3}]},{"hash":"419729248270551388","title":"Plant metabolism and cell-wall biosynthesis","description":"The top GO terms cluster around plant-specific biosynthetic pathways, including sporopollenin and cell-wall related processes (UDP-L-arabinose biosynthesis, phenylpropanoid biosynthesis, sterol biosynthesis, long-chain fatty-acyl-CoA metabolism). While some terms are broad or cross-kingdom, the overall theme points to plant metabolic activity involved in building cell walls and pollen-related components rather than a single enzymatic function. This justifies a label focused on plant metabolism and cell-wall biosynthesis.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030435","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0035336","count":1},{"id":"GO:0033358","count":1},{"id":"GO:0042208","count":1}]},{"hash":"1652741115704714199","title":"Unknown","description":"Top terms cover disparate processes (lipid A biosynthesis, excitatory synaptic potential, angiogenesis, ascospore formation, ER-to-Golgi transport, DNA repair, morphine response). The mix spans different organisms and cellular functions, with no clear shared pathway, so a coherent label cannot be assigned.","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070940","count":6},{"id":"GO:0009245","count":6},{"id":"GO:0060079","count":6},{"id":"GO:1905205","count":6},{"id":"GO:0030437","count":6}]},{"hash":"2064721712448146746","title":"Mitotic spindle dynamics and microtubule remodeling","description":"The cluster's proteins are annotated with multiple GO terms tied to microtubule dynamics, especially mitotic spindle assembly, centrosome separation, kinetochore attachment, and both plus- and minus-end depolymerization. This points to a cohesive theme of spatiotemporal microtubule remodeling during cell division (with some outliers that may reflect broader cytoskeletal roles).","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060404","count":4},{"id":"GO:0021693","count":4},{"id":"GO:0000742","count":4},{"id":"GO:0000022","count":4},{"id":"GO:0007100","count":4}]},{"hash":"331385683445641590","title":"Unknown","description":"The GO terms are highly diverse (tyrosine autophosphorylation, actin cytoskeleton regulation, PI3K signaling, various cell-cycle and mitosis-related processes, endothelial migration, osmosensory signaling, centrosome separation, trehalose regulation, and hypersensitivity), with no clear unifying function and several obsolete annotations. There is also no connectivity (edges) among the proteins, making a coherent, single functional theme unlikely.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038083","count":3},{"id":"GO:2000251","count":3},{"id":"GO:0060044","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0001806","count":3}]},{"hash":"1359228476813559239","title":"Unknown","description":"Here the GO terms span developmental processes (cartilage condensation, head morphogenesis) and immune/fungal responses (cellular response to molecule of fungal origin, type IV hypersensitivity), with additional signaling and DNA repair terms. No single dominant theme ties these terms together, so a coherent functional label cannot be assigned.","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0071226","count":4},{"id":"GO:0001502","count":4},{"id":"GO:0009190","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0038083","count":2}]},{"hash":"813144878506512271","title":"Ubiquitin-dependent proteolysis and ribophagy","description":"Proteins in this cluster are enriched for ubiquitin-dependent protein catabolic processes, including degradation via the multivesicular body pathway, as well as ribophagy. The presence of synaptic signaling regulation terms (receptor localization to synapse and ephrin signaling) suggests a link between protein turnover and regulation of signaling at synapses, with additional hints toward cell cycle and apoptosis. This combination supports a theme of controlled protein turnover coupled with signaling regulation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043162","count":2},{"id":"GO:1900383","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0007049","count":2},{"id":"GO:1901187","count":2}]},{"hash":"1061598693616667609","title":"Unknown","description":"The top GO terms span immune activation, extracellular matrix remodeling, protein degradation, signaling, and even plant-specific processes, with no single coherent function tying the proteins together. This diversity suggests the cluster does not reflect a unified biological pathway, so a precise functional label is not possible.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002291","count":4},{"id":"GO:0030212","count":4},{"id":"GO:0033623","count":3},{"id":"GO:0010572","count":3},{"id":"GO:0006924","count":3}]},{"hash":"1063669217944362172","title":"DNA replication and chromatin maintenance","description":"These proteins show GO annotations connected to DNA replication (DNA replication; MCM complex assembly) and genome maintenance/repair (break-induced replication; late meiotic recombination nodule assembly), plus chromatin organization (heterochromatin formation). While a few terms seem unrelated (eggshell chorion gene amplification, gas vesicle organization, photosynthesis), the dominant signal is replication and chromatin maintenance, suggesting a cluster of factors involved in genome duplication and chromatin regulation rather than a single isolated pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007307","count":1},{"id":"GO:0072689","count":1},{"id":"GO:0006348","count":1},{"id":"GO:0031412","count":1},{"id":"GO:0030466","count":1}]},{"hash":"589707527938391107","title":"Neuronal development and spine morphogenesis","description":"Reasoning: The top terms point to neuronal processes, including dendritic spine morphogenesis and behavioral responses linked to neural signaling, suggesting a theme of neuron development and synaptic structure. Some terms are unrelated (immune, cell cycle), indicating mixed annotations, but the strongest coherent signal is neuron development and spine formation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0048148","count":2},{"id":"GO:0032092","count":2},{"id":"GO:0038083","count":1}]},{"hash":"2076888561547215052","title":"Chromatin Organization and Nucleosome Assembly","description":"The top GO terms cluster around chromatin, nucleosome assembly, heterochromatin organization, histone modifications, and localization to chromatin, suggesting a shared role in chromatin structure and epigenetic regulation.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0097298","count":6},{"id":"GO:0016584","count":6},{"id":"GO:0070828","count":6},{"id":"GO:0006334","count":6},{"id":"GO:0098532","count":6}]},{"hash":"236365973197538716","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009699","count":3},{"id":"GO:0080110","count":3},{"id":"GO:0042619","count":3},{"id":"GO:0009718","count":3},{"id":"GO:0009103","count":3}]},{"hash":"329106219549681389","title":"Mitochondrial Dynamics and Mitophagy","description":"The GO terms point to mitochondrial quality control and stress responses, featuring mitophagy; regulation of mitochondrial fusion (both positive and negative), and related apoptotic and ER stress signaling. Deubiquitination activity can regulate these processes, linking ubiquitin-mediated control to mitochondrial turnover. A nearby term on cell fusion morphogenesis supports a broader membrane fusion theme; together these terms suggest a cluster centered on maintaining mitochondrial integrity under cellular stress.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":5},{"id":"GO:0000753","count":5},{"id":"GO:0010216","count":5},{"id":"GO:0000423","count":5},{"id":"GO:1902236","count":5}]},{"hash":"344786203105665348","title":"Cofactor biosynthesis and RNA modification","description":"This cluster shows strong representation for Mo-molybdopterin cofactor biosynthesis and tRNA modification (wobble thiolation and selenomodification), suggesting a shared theme around metabolic cofactor biosynthesis and RNA processing/modification. Additional terms point to broader metabolism and redox balance, with a few developmental terms likely reflecting annotation breadth rather than a single pathway. Overall, the label captures the core shared functions more than the miscellaneous terms.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006071","count":5},{"id":"GO:0032447","count":5},{"id":"GO:0030855","count":5},{"id":"GO:0018192","count":5},{"id":"GO:0006777","count":5}]},{"hash":"1474114802837561944","title":"Solute Transport and Osmotic Stress Response","description":"Top GO terms indicate multiple solute transport activities (urate, trehalose, phosphate, nitrite, xenobiotic, 4-hydroxyphenylacetate) along with cellular responses to glucose starvation and osmotic stress. The predominant pattern is transport of diverse solutes and stress-associated regulation, suggesting a cluster of transport-related proteins responding to nutrient or osmotic challenges.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015747","count":2},{"id":"GO:0015771","count":2},{"id":"GO:0042149","count":2},{"id":"GO:0005989","count":2},{"id":"GO:0006817","count":2}]},{"hash":"2176781843555866822","title":"Ubiquitin-mediated growth regulation in plants","description":"The top GO terms center on ubiquitination\u2014ubiquitin-dependent protein catabolic process, autoubiquitination, and K63-linked ubiquitination\u2014suggesting these proteins regulate turnover and signaling via ubiquitin tagging. The inclusion of JNK cascade regulation points to stress signaling modulation, which is frequently controlled by ubiquitination. Additionally, terms tied to gibberellin response, leaf formation, and seed growth indicate involvement in plant development. Collectively, they point to ubiquitin-driven control of plant growth and signaling.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000183","count":3},{"id":"GO:0046328","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0070534","count":2}]},{"hash":"908598772349331187","title":"Unknown","description":"The top GO terms show a mix of transcription regulation, chromosome segregation, metabolism, immune signaling, responses to drugs, and plant- or development-specific processes, with no clear, shared functional theme. Because there isn\u2019t a cohesive biological function tying these processes together, I cannot assign a meaningful, specific label to this cluster.","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":5},{"id":"GO:0007059","count":4},{"id":"GO:0017006","count":4},{"id":"GO:0006006","count":4},{"id":"GO:0071353","count":4}]},{"hash":"2051177388876513932","title":"Fatty acid metabolism and energy pathways","description":"This cluster is dominated by GO terms for fatty acid catabolism and beta-oxidation (long-chain and medium-chain), fatty-acyl-CoA biosynthesis, and related energy metabolism, with supportive lipid biosynthesis and glycogen biosynthesis terms. Some heart-related terms appear, likely reflecting tissue context rather than core function of all proteins. Overall, the shared theme is lipid metabolism and energy pathways.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018896","count":1},{"id":"GO:0006694","count":1},{"id":"GO:0007507","count":1},{"id":"GO:0005978","count":1},{"id":"GO:0046949","count":1}]},{"hash":"1683230479600575996","title":"Osteoblast Differentiation and Skeletal Development","description":"The top GO terms center on skeletal system development, osteoblast development, chondrocyte differentiation, and related morphogenesis, with supporting signals of mesoderm formation and cranial skeleton formation. Transcription-related terms (DNA-templated transcription, negative regulation of miRNA transcription) suggest this cluster regulates gene expression to drive bone formation, while parathyroid hormone response reflects bone metabolism involvement. Overall, this appears to be a transcriptionally regulated bone development module.","confidence":"High","size":6,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0001501","count":4},{"id":"GO:1902894","count":4},{"id":"GO:0071374","count":4},{"id":"GO:0031647","count":4}]},{"hash":"1519895408721469278","title":"Signaling and trafficking with cytoskeletal remodeling","description":"The GO terms point to multiple signaling pathways (ERK cascade, GPCR signaling, Rab signaling) and protein regulation (phosphorylation, ubiquitination) coupled with cytoskeletal dynamics (stress fiber assembly, tight junctions) and intracellular transport (Golgi-to-ER transport, lysosomal organization). Together these suggest a module where signal transduction interfaces with membrane trafficking and cytoskeletal remodeling.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0033138","count":4},{"id":"GO:0043149","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0050975","count":4}]},{"hash":"1631313235245228130","title":"Unknown","description":"GO terms are diverse and lack a single cohesive function: skeletal muscle differentiation, ATP biosynthesis regulation, protein hexamerization, SCF complex disassembly, DNA replication elongation, viral genome replication, SNARE disassembly, and various proteostasis processes. There isn't a clear common theme tying these proteins together.","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":2},{"id":"GO:2001171","count":1},{"id":"GO:0034214","count":1},{"id":"GO:1990171","count":1},{"id":"GO:0006272","count":1}]},{"hash":"886296318033565655","title":"Ubiquitin-Mediated Mitosis and Chromosome Segregation","description":"The cluster is driven by ubiquitination-related terms (protein ubiquitination, polyubiquitination) and mitotic processes (mitotic spindle assembly, chromosome segregation, APC-dependent catabolic process), suggesting a coherent theme of ubiquitin-dependent regulation of cell division; other terms like ERAD reflect the broader ubiquitin system but do not override the core mitosis signal.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0090307","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0016567","count":3},{"id":"GO:2000011","count":2}]},{"hash":"1669198062966233966","title":"NF-kB signaling and histone modification","description":"Top GO terms center on TNF-mediated signaling and NF-kB activation (including I-kappaB phosphorylation), together with multiple histone-modification processes (acetylation, ubiquitination, methylation) and histone turnover. This pattern suggests a functional link between inflammatory signaling and chromatin regulation in this protein group. Despite no reported interactions in the network (Edges 0), the terms consistently point to a shared role in regulating transcription during inflammation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000620","count":2},{"id":"GO:1903762","count":2},{"id":"GO:0033209","count":2},{"id":"GO:0007250","count":2},{"id":"GO:0085020","count":2}]},{"hash":"200928212344081234","title":"Gene expression regulation and protein homeostasis","description":"Top GO terms cluster around RNA processing (mRNA splicing via spliceosome; formation of translation preinitiation complex) and protein turnover/regulation (COP9 signalosome assembly; protein deneddylation). Additional terms relate to DNA repair, mitochondrial dynamics, and cellular stress responses (ethanol response; ergosterol biosynthesis regulation), suggesting a broader theme of maintaining cellular homeostasis and regulating gene expression.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0010387","count":1},{"id":"GO:0048140","count":1},{"id":"GO:0045471","count":1}]},{"hash":"2223395926894696159","title":"Ubiquitin-Proteasome Regulation under Metal Stress","description":"The top GO terms center on SCF-dependent ubiquitin-proteasomal protein catabolic processes and protein polyubiquitination, pointing to ubiquitin-mediated degradation as the core function of this cluster. Additional terms reflect cellular responses to cadmium and arsenic, suggesting the proteins participate in metal-stress response alongside regulation of signaling and cell cycle processes. Overall, the cluster seems to group proteins involved in ubiquitin-dependent degradation pathways that are modulated under heavy-metal stress.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0008285","count":2}]},{"hash":"850946580886800239","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms mostly point to developmental processes such as endocrine system development, left-right pattern formation, cartilage morphogenesis, pancreatic cell development, EMT in endocardial cushion formation, trophoblast differentiation, and placenta-related differentiation. That indicates a shared theme of cell differentiation and tissue morphogenesis in embryonic contexts. A couple of terms (biotin and antibiotic biosynthesis) are metabolic, but they appear less central to the cluster\u2019s main theme. Overall, the proteins appear representative of developmental and morphogenetic functions.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007158","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0035270","count":1},{"id":"GO:0060972","count":1}]},{"hash":"1894970077602032823","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070307","count":2},{"id":"GO:0019884","count":1},{"id":"GO:0061136","count":1},{"id":"GO:2000045","count":1},{"id":"GO:0010950","count":1}]},{"hash":"231996563912305936","title":"Mitochondrial quality control and erythrocyte maturation","description":"The GO terms point to mitophagy, regulation of mitochondrial fusion, and ER-stress\u2013related apoptosis control, all of which are central to mitochondrial remodeling during red blood cell differentiation. Deubiquitination may modulate mitochondrial turnover, supporting the theme. Some unrelated terms are present but do not dominate the cluster, so the core signal is mitochondrial quality control in erythrocyte maturation.","confidence":"Medium","size":6,"edges":7,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045648","count":3},{"id":"GO:0016579","count":2},{"id":"GO:0000753","count":2},{"id":"GO:0010216","count":2},{"id":"GO:0000423","count":2}]},{"hash":"165863077615147240","title":"Steroid hormone and lipid metabolism via P450","description":"The top GO terms point to steroid hormone biosynthesis and metabolism (cortisol biosynthetic process, androgen metabolic process) and lipid processing (cholesterol catabolic, triglyceride metabolic), all linked through the omega-hydroxylase P450 pathway. Additional terms about hepatocyte differentiation and mammary gland development suggest hormonal regulation in liver and mammary tissues, aligning with P450-driven steroid and lipid metabolism. Overall, the cluster appears to represent steroid and lipid metabolic processes mediated by cytochrome P450 enzymes.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070365","count":3},{"id":"GO:0070989","count":2},{"id":"GO:0060137","count":2},{"id":"GO:0030879","count":2},{"id":"GO:0006707","count":2}]},{"hash":"1216574902191901115","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006297","count":1},{"id":"GO:1900034","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0042769","count":1},{"id":"GO:0006296","count":1}]},{"hash":"1125500500126444794","title":"Transcriptional Regulation in Development and Stress","description":"Top GO terms cluster around DNA-templated transcription and developmental processes (multicellular organism development, mesoderm formation, positive regulation of cardiac muscle cell differentiation), with related signals for ER-stress\u2013induced apoptosis, cadmium response, and nuclear transport regulation. This suggests a cohesive theme of transcriptional control driving development while integrating cellular stress responses, though the terms span multiple related processes.","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:0070059","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0046826","count":2},{"id":"GO:0007275","count":2}]},{"hash":"2018986882132274642","title":"Cytokine-driven inflammatory and antiviral responses","description":"Main signals are IL-1\u03b2 and IL-18 production and positive regulation of cytokine production in inflammatory responses, plus defense responses to viruses and protozoa. A few terms touch neural/glial context, suggesting possible neuroinflammation involvement, but the predominant theme is cytokine-driven immune response.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0050702","count":1},{"id":"GO:0045687","count":1},{"id":"GO:0007029","count":1},{"id":"GO:1900017","count":1},{"id":"GO:0042832","count":1}]},{"hash":"1431093769435866233","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms cluster around developmental and morphogenetic processes, including mesoderm formation, outflow tract morphogenesis, branching morphogenesis, neuron maturation, axon fasciculation, and cardiac muscle proliferation. Together, these suggest a shared role in embryonic development and tissue/organ formation across lineages. Some terms like innate immune response and NF-kappaB regulation appear as outliers, possibly due to annotation noise or shared components, but they do not override the core developmental theme.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035372","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0060044","count":2},{"id":"GO:0003151","count":2}]},{"hash":"446715439174795887","title":"RNA Metabolism and Surveillance","description":"The top GO terms repeatedly point to RNA biology: transcription regulation by RNA polymerase II (including negative regulation of elongation), diverse RNA processing and decay pathways (nuclear mRNA surveillance, NMD, deadenylation-independent decapping, exosome-dependent termination, nonfunctional rRNA decay), and miRNA catabolic processes. Together, these terms suggest a cluster of proteins involved in coordinating transcription with RNA quality control and decay mechanisms. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901408","count":2},{"id":"GO:0000184","count":2},{"id":"GO:0034244","count":2},{"id":"GO:0071028","count":2},{"id":"GO:0070651","count":2}]},{"hash":"474036057104897571","title":"Lymphocyte signaling and maturation","description":"The cluster centers on immune-related signaling and development, with terms for B cell affinity maturation, NK T cell differentiation, and IL-4 production, alongside receptor-driven signaling pathways (Ras, Rac, ephrin) and related processes like cell polarity and synapse plasticity, suggesting a cohesive theme around lymphocyte signaling and maturation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046580","count":5},{"id":"GO:0048013","count":5},{"id":"GO:0032633","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0043547","count":5}]},{"hash":"590055675152133952","title":"Nuclear RNA Processing and Proteasome Turnover","description":"The cluster centers on nuclear RNA processing/regulation (RNA Pol II tethering at the nuclear periphery, nuclear mRNA surveillance, and transcription regulation) and ubiquitin-proteasome\u2013mediated protein turnover (ubiquitin-dependent and proteasomal catabolic processes), suggesting a shared theme of nuclear gene-expression quality control and regulatory protein degradation; a few terms relate to development and immune defense, which may reflect broader functional links or noise.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0000973","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0048140","count":2}]},{"hash":"9066568459711638","title":"Wnt Secretion and COPI-Mediated Trafficking in Development","description":"This cluster shows strong enrichment for COPI-related vesicle formation and ER-to-Golgi trafficking (COPI-coated vesicle budding/coating, ER lumen retention, protein exit from ER) together with GO terms for Wnt protein secretion and developmental axis specification (maternal/dorsal-ventral axis, somite specification). The combination points to a cohesive role in secretory pathway\u2013driven developmental signaling, particularly Wnt signaling, during early embryogenesis and axis formation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001893","count":3},{"id":"GO:0007311","count":3},{"id":"GO:0035964","count":3},{"id":"GO:0070863","count":3},{"id":"GO:0061357","count":3}]},{"hash":"233030641260486880","title":"Immune cell development and signaling","description":"The cluster is enriched for immune-related functions: IL-4 production, B cell affinity maturation, NK T cell differentiation, and IL-7 responses point to lymphocyte development and signaling. Additional terms on Ras/Rac signaling regulation and lamellipodium assembly support coordinated signaling and cytoskeletal changes needed for immune cell migration and activation. This combination suggests a cohesive theme of immune cell development and signaling rather than a single metabolic role.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0046580","count":5},{"id":"GO:0032633","count":5},{"id":"GO:0002344","count":5},{"id":"GO:0035020","count":5},{"id":"GO:0001865","count":5}]},{"hash":"1560161302130021674","title":"Cardiac mitochondrial dynamics and apoptosis","description":"This cluster centers on mitochondrial membrane organization, fusion, and cytochrome c release, coupled with apoptotic regulation and heart-related functions (heart contraction, coronary vasculature development), suggesting a cohesive theme of mitochondrial dynamics impacting cardiac development and survival; other terms like translation and ephrin signaling may reflect broader cellular processes and vascular signaling associated with the heart.","confidence":"High","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0061025","count":2},{"id":"GO:0060976","count":2},{"id":"GO:1903423","count":2},{"id":"GO:0007006","count":2}]},{"hash":"1671297178721025173","title":"Dendritic cell activation and antigen presentation","description":"The cluster is enriched for GO terms related to dendritic cell differentiation, cytokine production (GM-CSF and IL-3), neutrophil extravasation, and antigen processing and presentation via MHC class I, which together point to immune activation and antigen presentation functions. A couple of terms about neuronal development are present but appear peripheral to the main immune-focused theme. ","confidence":"Medium","size":6,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:2001200","count":3},{"id":"GO:0045425","count":3},{"id":"GO:0001805","count":3},{"id":"GO:0035157","count":3},{"id":"GO:0042590","count":3}]},{"hash":"465074552523769400","title":"Endomembrane trafficking and Rab signaling","description":"The GO terms show a clear emphasis on vesicle trafficking within the endomembrane system (endosomal fusion, Golgi to ER retrograde transport, lysosomal membrane organization) and Rab-mediated signaling, with some supporting hints from membrane dynamics and cell junction assembly, suggesting a cohesive theme around membrane trafficking and associated signaling rather than a single static function.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0034058","count":2},{"id":"GO:0051291","count":2},{"id":"GO:0046847","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0051301","count":2}]},{"hash":"727439862710444872","title":"Immune activation and leukocyte recruitment","description":"This cluster includes GO terms for chemokine production, monocyte extravasation, neutrophil homeostasis, phagocytosis, complement activation, and adaptive immune responses, indicating coordinated innate and adaptive immune activation and leukocyte trafficking.","confidence":"High","size":6,"edges":11,"triangles":8,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050755","count":6},{"id":"GO:0032712","count":6},{"id":"GO:0071656","count":6},{"id":"GO:0006958","count":6},{"id":"GO:0035696","count":6}]},{"hash":"192071611343085649","title":"Tyrosine Kinase Signaling and Cytoskeletal Remodeling","description":"The cluster\u2019s terms point to signaling driven by tyrosine autophosphorylation, with associated pathways like PI3K signaling and actin cytoskeleton reorganization, which tie to endothelial cell migration and broader cell-communication processes. While some terms are obsolete or peripheral (e.g., osmosensory signaling, trehalose metabolism), the core theme centers on kinase-mediated signaling that modulates the cytoskeleton and movement. ","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038083","count":5},{"id":"GO:2000251","count":5},{"id":"GO:0060044","count":5},{"id":"GO:0014068","count":5},{"id":"GO:0001806","count":5}]},{"hash":"1908888845702126824","title":"Aromatic compound metabolism and biosynthesis","description":"The predominant GO terms point to biosynthesis and catabolism of aromatic and other small-molecule metabolites (beta-ketoadipate, phenylpropionate, strigolactone, biotin, PHB, antibiotics). This suggests a general metabolic cluster rather than a single unified function, justifying a label around aromatic compound metabolism and biosynthesis; a few terms reflect broader contexts (toxic response, phospholipid dephosphorylation).","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009102","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0042952","count":3},{"id":"GO:0019380","count":2},{"id":"GO:0097755","count":2}]},{"hash":"1145938424052981857","title":"Meiosis and Chromosome Segregation","description":"These proteins cluster around meiotic chromosome handling and division: meiotic double-strand break formation, recombination regulation, telomere clustering, APC-dependent catabolic processes, and chromosome segregation, as well as spindle elongation and related post-translational modification processes like neddylation. While stress-related processes appear, the dominant theme is meiotic chromosome dynamics and segregation.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042138","count":6},{"id":"GO:0071455","count":6},{"id":"GO:0010845","count":6},{"id":"GO:0000022","count":6},{"id":"GO:0007059","count":6}]},{"hash":"81743068337192869","title":"Unknown","description":"The six proteins connect to a broad set of GO terms ranging from locomotory behavior and GPCR-PLC signaling to retina and midgut development, cardiac contraction regulation, gastric acid secretion, and eosinophil chemotaxis. There is no clear, unifying biological theme or tissue-specific function that ties these terms together, making a confident, concise label difficult. Therefore, Unknown is appropriate.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0008284","count":3},{"id":"GO:0060041","count":3}]},{"hash":"268985293263780240","title":"ER-Mitochondrial Stress and Lipid Biosynthesis","description":"The proteins appear linked to lipid biosynthesis (phosphatidylcholine and sphingomyelin) and to mitochondrial/apoptotic regulation (depolarization, cytochrome c release), as well as ER-associated processes and innate immune signaling. This combination points to a coordinated stress-response module involving ER\u2013mitochondria communication, lipid metabolism, and apoptosis regulation.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006656","count":1},{"id":"GO:0006686","count":1},{"id":"GO:0043154","count":1},{"id":"GO:0051902","count":1},{"id":"GO:2001240","count":1}]},{"hash":"2210997181153576438","title":"Vertebrate embryonic organogenesis","description":"The GO terms span development and morphogenesis across multiple tissues (inner ear, heart, kidney, liver, brain regions, cartilage), suggesting a general role in embryonic organ formation rather than a single pathway.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0048839","count":6},{"id":"GO:0021642","count":5},{"id":"GO:0061017","count":5},{"id":"GO:0021544","count":5},{"id":"GO:0051216","count":5}]},{"hash":"1353140982050533416","title":"ER and oxidative stress response with transcriptional regulation","description":"This cluster centers on cellular stress responses, notably to endoplasmic reticulum and oxidative stress, and on transcriptional regulation and DNA binding, including signals that modulate Pol II transcription and apoptotic pathways. The presence of GO terms for ER stress, oxidative stress response, and positive/negative regulation of transcription and DNA binding, plus apoptotic signaling, supports labeling as a stress-responsive transcriptional-regulatory cluster. Some terms are obsolete, but the overarching theme remains stress-induced regulatory processes.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006662","count":5},{"id":"GO:0034599","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0043388","count":5},{"id":"GO:0034976","count":5}]},{"hash":"1276912899714524304","title":"Membrane Transporters with Mitochondrial Focus","description":"The terms are dominated by transmembrane transport activities (glycine, ornithine, thiosulfate, heme, ATP) and mitochondrial membrane regulation, with adaptive thermogenesis linking to mitochondrial energetics. Regulatory terms related to metabolism and cell signaling are present but secondary, supporting a cohesive theme of membrane transport and mitochondrial function.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036233","count":2},{"id":"GO:0090152","count":2},{"id":"GO:0000066","count":2},{"id":"GO:0060546","count":2},{"id":"GO:0061179","count":2}]},{"hash":"77378980751706630","title":"RNA Processing and Export","description":"This cluster is dominated by GO terms tied to RNA metabolism: mRNA splicing regulation, mRNA export from the nucleus, mRNA modification, and transcription termination of RNA polymerase II. Together these terms suggest involvement in RNA maturation and nuclear processing, rather than signaling or metabolic pathways. Some terms appear as outliers (hemocyte differentiation, calcium release), but the core theme centers on RNA processing and export.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042386","count":1},{"id":"GO:0070940","count":1},{"id":"GO:0000381","count":1},{"id":"GO:1905663","count":1},{"id":"GO:0016556","count":1}]},{"hash":"210026735625718221","title":"Angiogenesis and cardiac development","description":"The top GO terms cluster around blood vessel formation and heart development. Notably, angiogenesis (sprouting and wound healing) and Notch signaling appear alongside extracellular matrix organization and cell-matrix adhesion, pointing to vascular remodeling and cardiac differentiation as a cohesive theme.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"wound healing","top_go_terms":[{"id":"GO:0050901","count":5},{"id":"GO:0007161","count":4},{"id":"GO:0050748","count":4},{"id":"GO:0060055","count":4},{"id":"GO:0002042","count":4}]},{"hash":"1485466681369711243","title":"Spliceosome-regulated mRNA processing and export","description":"The dominant GO terms describe spliceosome-mediated mRNA splicing (including both alternative and cis splicing), mRNA export from the nucleus, and regulation/modification of mRNA stability, particularly in stress contexts. This points to a cohesive role in post-transcriptional regulation of gene expression through RNA processing and trafficking.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":5},{"id":"GO:0000381","count":4},{"id":"GO:1905663","count":4},{"id":"GO:0016556","count":4},{"id":"GO:1903586","count":4}]},{"hash":"1264955649765893868","title":"Unknown","description":"The GO terms span very different biological processes across kingdoms (lipid A biosynthesis, excitatory synaptic potentials, angiogenesis, ascospore formation, DNA repair, ER-to-Golgi transport, glycogen metabolism, drug response). There is no clear shared function linking these proteins, so a coherent cluster label cannot be assigned with confidence.","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070940","count":5},{"id":"GO:0009245","count":5},{"id":"GO:0060079","count":5},{"id":"GO:1905205","count":5},{"id":"GO:0030437","count":5}]},{"hash":"770580759559336649","title":"Embryonic Development and Transcription Regulation","description":"This cluster centers on developmental processes such as peripheral nervous system neuron development and primitive streak formation, together with transcriptional regulation by RNA polymerase II and growth\u2011hormone signaling. Other terms related to metabolism or immune response appear less coherently, but the strongest signals point to developmental regulation and signaling as the core theme.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0048935","count":2},{"id":"GO:0090009","count":2},{"id":"GO:0060396","count":2},{"id":"GO:0032496","count":1}]},{"hash":"1292506005690476253","title":"Spliceosome-Mediated mRNA Processing","description":"The top GO terms are centered on nuclear mRNA processing, including spliceosome-mediated splicing (regulation and alternative splicing), splice site recognition, and mRNA export/modification. Although some entries are obsolete, the remaining terms consistently point to post-transcriptional maturation of mRNA via the spliceosome and related processing steps, suggesting a cohesive splicing/processing cluster.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1901407","count":3},{"id":"GO:0006376","count":3},{"id":"GO:0000381","count":2},{"id":"GO:1905663","count":2},{"id":"GO:0016556","count":2}]},{"hash":"1724186299861809865","title":"Unknown","description":"The top GO terms span both metabolism (glycolytic and TCA cycle, valine catabolism) and various developmental and vascular/immune processes (cerebral cortex and placenta development, cartilage development, VEGF production, mast cell chemotaxis). The cluster does not show a single cohesive biological theme or function, making a specific label unreliable.","confidence":"","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045648","count":2},{"id":"GO:0021987","count":2},{"id":"GO:0046886","count":2},{"id":"GO:0006099","count":2},{"id":"GO:0006096","count":2}]},{"hash":"1546490705181816570","title":"Tyrosine kinase signaling","description":"The top GO term is peptidyl-tyrosine autophosphorylation, pointing to tyrosine kinase\u2013driven signaling; other terms hint at signaling-related processes (PI3K signaling, osmosensory signaling, endothelial migration, cell cycle notes). Together they suggest a small cluster of proteins involved in kinase-mediated signal transduction and associated cytoskeletal or migratory responses, despite no observed direct interactions in the network. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038083","count":3},{"id":"GO:2000251","count":3},{"id":"GO:0060044","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0001806","count":3}]},{"hash":"856413903114322138","title":"Developmental Signaling and Neural Differentiation","description":"GO terms here point to broad developmental signaling and tissue patterning, notably neural development (layer formation in cerebral cortex, synapse assembly) and signaling cascades (ERK/MAPK, serine phosphorylation). The presence of chondrocyte differentiation, bone resorption, angiogenesis, and growth hormone regulation suggests a cohesive theme of growth and differentiation across multiple tissues, centered on developmental signaling networks that shape neural and skeletal systems.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":3},{"id":"GO:0002062","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0060124","count":3},{"id":"GO:0051965","count":3}]},{"hash":"866708081999624971","title":"Membrane Organization and Protein Localization","description":"The GO terms point to subcellular localization and membrane-related organization across multiple organelles (apical localization, mitochondrial membrane organization, nuclear envelope and lysosomal membranes, protein localization to cilium, and protein-containing complex localization), with some development-related terms that are less central to the primary theme. This suggests a cohesive theme around localization and membrane dynamics, even though a few terms are peripheral.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045176","count":1},{"id":"GO:0007006","count":1},{"id":"GO:0001822","count":1},{"id":"GO:0070830","count":1},{"id":"GO:0034629","count":1}]},{"hash":"1678476275327254127","title":"APC/C-Dependent Mitosis and Ubiquitination","description":"This cluster centers on mitotic regulation and protein degradation via ubiquitination, highlighted by terms like mitotic cell cycle, cell division, anaphase-promoting complex-dependent catabolic process, protein K11-linked ubiquitination, and polyubiquitination. Together, these terms point to APC/C-mediated proteolysis controlling progression through mitosis. Some obsolete terms and a cadmium response term appear minor by comparison, but the core theme remains mitotic control through ubiquitin signaling.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071276","count":3},{"id":"GO:0031145","count":3},{"id":"GO:0061087","count":3},{"id":"GO:2001162","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1945442073279839817","title":"Axonogenesis and RTK Signaling","description":"This cluster centers on neuronal development and signaling, highlighted by axonogenesis and cell surface receptor tyrosine kinase signaling, with supporting links to GTPase regulation and transcriptional control. Some terms (visual perception, immune defense, ossification) are less directly connected and may reflect broader annotations or multifunctional proteins.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0001957","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0050729","count":2}]},{"hash":"853144356447512348","title":"Developmental signaling and cell adhesion","description":"This cluster is enriched for terms tied to embryonic development, fertilization, angiogenesis, synapse maturation, and regulation of integrin activation, pointing to a shared theme of developmental signaling and cell adhesion/migration. A couple of terms (complement activation and photosynthesis) appear as outliers, possibly annotation noise.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0034392","count":5},{"id":"GO:0033623","count":5},{"id":"GO:0006957","count":5},{"id":"GO:0007338","count":5},{"id":"GO:0001701","count":5}]},{"hash":"70497023227813428","title":"Unknown","description":"The Top Terms span muscle structure (skeletal muscle thin filament assembly; skeletal muscle fiber adaptation), chromatin modification (histone acetylation), organelle dynamics (vacuole inheritance; mitochondrion localization), phagocytosis, retina homeostasis, and even behavior. Because these terms cover several unrelated biological areas with no clear shared function or pathway, there isn\u2019t a coherent unifying theme to label this cluster beyond Unknown.","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030240","count":5},{"id":"GO:0006348","count":5},{"id":"GO:0043983","count":5},{"id":"GO:0000011","count":5},{"id":"GO:0006909","count":5}]},{"hash":"1826320302206868308","title":"Leukocyte adhesion and migration","description":"This cluster shows GO terms centered on adhesion (cell-cell and cell-matrix), and on leukocyte recruitment and movement (positive regulation of T cell chemotaxis, neutrophil extravasation, thymocyte migration). There are also angiogenesis-related terms (VEGF production, wound healing) that often accompany immune cell trafficking and endothelial interactions. The presence of a couple of unrelated terms (e.g., viral process, single fertilization) is likely incidental, but the core theme ties to leukocyte adhesion and migration during immune responses.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007338","count":2},{"id":"GO:0034113","count":2},{"id":"GO:0016032","count":2},{"id":"GO:2000415","count":1},{"id":"GO:0007161","count":1}]},{"hash":"432583605837378114","title":"Leukocyte Migration and Activation","description":"This cluster is dominated by GO terms related to immune cell movement and activation: leukocyte migration in inflammatory response, monocyte activation, positive regulation of T cell chemotaxis, and thymocyte migration, which together suggest a theme of immune cell trafficking and activation. The presence of bone resorption regulation hints at osteoclast-derived activity linked to monocytes, while VEGF production aligns with inflammation-associated angiogenesis. A few outliers (myelination in peripheral nervous system, single fertilization) reduce coherence, but the core pattern points to inflammatory immune cell movement and activation. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045780","count":3},{"id":"GO:0010820","count":3},{"id":"GO:0051044","count":3},{"id":"GO:0002523","count":3},{"id":"GO:0022011","count":3}]},{"hash":"1405719636655817172","title":"Embryonic heart-lung-eye development","description":"The GO terms cluster around embryonic organogenesis across several organ systems, notably heart tube patterning, lung morphogenesis, cranial skeletal and lens-related development, and trabecular meshwork formation, indicating a shared theme of multi-tissue embryonic development.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071455","count":5},{"id":"GO:0035054","count":5},{"id":"GO:0060501","count":5},{"id":"GO:1904888","count":5},{"id":"GO:0043305","count":5}]},{"hash":"130649281918732580","title":"Nucleotide and sugar metabolism","description":"Top GO terms indicate adenosine metabolic process and purine nucleotide catabolic process, along with several sugar metabolism pathways (gluconate, xylose, fucose) and phosphorylation/dephosphorylation. This suggests a cluster of proteins involved in nucleotide and carbon-source metabolism with regulatory phosphorylation, despite the inclusion of quorum sensing as a minor term.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046085","count":3},{"id":"GO:0016310","count":2},{"id":"GO:0006195","count":2},{"id":"GO:0016311","count":2},{"id":"GO:0046835","count":1}]},{"hash":"1561317777325441012","title":"Cellular Stress Responses","description":"This cluster is dominated by GO terms related to responding to stressors: lipopolysaccharide, heat, heavy metal cadmium, and hypoxia, plus signaling linked to angiotensin and cardiac muscle cell survival. A few terms on embryonic placenta development and female meiosis may reflect broader expression contexts, but the strongest pattern points to stress response pathways and their regulation.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032496","count":4},{"id":"GO:0001892","count":4},{"id":"GO:0010667","count":4},{"id":"GO:1900034","count":4},{"id":"GO:0071276","count":4}]},{"hash":"443232818255490130","title":"Developmental signaling and organogenesis","description":"This cluster centers on developmental signaling pathways (ERK and Wnt) and broad tissue morphogenesis, including nervous system development, hair follicle morphogenesis, salivary gland formation, and lung morphogenesis. The consistent presence of positive regulation of ERK and Wnt signaling along with multiple organ/ tissue development terms supports a unified theme of signaling-driven development across neural and non-neural tissues.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0071338","count":4},{"id":"GO:0043524","count":4}]},{"hash":"400538432452922096","title":"Neurite outgrowth and neuron morphogenesis","description":"The GO terms indicate processes related to neural development and cytoskeletal remodeling, including regulation of translation, lamellipodium/ruffle organization, axon extension, dendrite and neuron projection development, and eye morphogenesis, pointing to neurite outgrowth and neuronal morphogenesis as the cluster\u2019s core function.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006417","count":2},{"id":"GO:0031529","count":2},{"id":"GO:1900006","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0097202","count":2}]},{"hash":"1935071385815196090","title":"Ciliary assembly and intraciliary transport","description":"This cluster is dominated by terms related to cilium biology, especially positive regulation of non-motile cilium assembly and intraciliary retrograde transport, suggesting a shared function in ciliogenesis and ciliary trafficking. While there are some general cellular processes (apoptosis, autophagy) also present, the strongest signal points to ciliogenesis/transport.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1902857","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0000132","count":4},{"id":"GO:0051292","count":4},{"id":"GO:0007290","count":4}]},{"hash":"2014529874286464746","title":"GTPase and actin cytoskeleton regulation","description":"This cluster is best characterized by the strong signals for positive regulation of GTPase activity and actin cortical patch assembly, indicating proteins involved in small GTPase signaling and cytoskeletal dynamics. While a few other terms touch on broader signaling and developmental processes, the prominent theme centers on cytoskeleton regulation and GTPase-driven signaling.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0000147","count":2},{"id":"GO:0006919","count":2},{"id":"GO:0043123","count":2},{"id":"GO:2000299","count":1}]},{"hash":"217299797137941653","title":"Inflammatory cytokine signaling and leukocyte recruitment","description":"This cluster is enriched for terms tied to pro-inflammatory cytokine production (IL-8, IL-6), leukocyte actions (T cell proliferation, leukocyte tethering/rolling), and bacterial signaling/defense (LPS pathway, defense against Gram-positive bacteria), along with ERK signaling. Together, they point to a cohesive theme of inflammatory immune signaling and recruitment of immune cells, with some ancillary signaling and developmental terms. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045416","count":2},{"id":"GO:0042102","count":2},{"id":"GO:0032755","count":2},{"id":"GO:0050901","count":2},{"id":"GO:0051044","count":2}]},{"hash":"1097477552151929427","title":"DNA Repair and Genome Maintenance","description":"The cluster is dominated by DNA repair terms (single-strand break repair, nucleotide excision repair, DNA repair in general), with V(D)J recombination and telomeric DNA associations further tying it to genome maintenance and recombination. Some outliers are obsolete or unrelated (rRNA maturation, chitin metabolism), but the prevailing theme is DNA repair pathways. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000012","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0000466","count":1},{"id":"GO:0006297","count":1},{"id":"GO:0085020","count":1}]},{"hash":"2169622006872655645","title":"Ribosome Biogenesis and LSU Maturation","description":"The top GO terms are dominated by ribosome biogenesis and maturation of the large ribosomal subunit (LSU rRNA), including GO:0042254, GO:0000463, and GO:0042273, indicating a cohesive theme around ribosome assembly and LSU rRNA processing; other terms appear peripheral. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0000463","count":3},{"id":"GO:0042273","count":3},{"id":"GO:2000011","count":2},{"id":"GO:0031930","count":2}]},{"hash":"1485010847961657946","title":"Mitophagy and Proteostasis","description":"The cluster is dominated by mitophagy and mitochondrial dynamics terms (mitophagy; negative regulation of mitochondrial fusion) along with protein quality control processes (proteasomal ubiquitin-dependent degradation; aggresome assembly; sumoylation; heat acclimation). This points to a cohesive theme of mitochondrial quality control and general proteostasis under stress, despite a few additional, loosely related terms. ","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000423","count":5},{"id":"GO:0010637","count":5},{"id":"GO:0043392","count":5},{"id":"GO:0032436","count":5},{"id":"GO:0086004","count":5}]},{"hash":"2137916773736990808","title":"DSB Repair and Meiotic Recombination","description":"The GO terms point to DNA double-strand break repair (SSA and BIR), telomere maintenance by recombination, and meiotic joint molecule formation, indicating proteins involved in recombination-mediated repair during meiosis; one term on GTPase regulation may modulate these processes but is less central.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0045002","count":1},{"id":"GO:0010947","count":1},{"id":"GO:0000733","count":1},{"id":"GO:0006277","count":1}]},{"hash":"1152912777821955761","title":"Mitochondrial RNA Processing and Translation","description":"The Top Terms cluster around RNA modification and maturation (tRNA and rRNA methylation, SSU-rRNA maturation), and mitochondrial transcription regulation (regulation and initiation at mitochondrial promoters). There are also hints of translation-related processes (selenocysteine incorporation and positive regulation of cytoplasmic translation), suggesting a suite of functions tying RNA processing/modification to translation, with a mitochondrial emphasis. This supports a cohesive label centered on RNA processing and translation control in a mitochondrial context.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032435","count":1},{"id":"GO:0030488","count":1},{"id":"GO:0006479","count":1},{"id":"GO:0000462","count":1},{"id":"GO:1903108","count":1}]},{"hash":"1194670890899674167","title":"Drosophila follicle epithelium polarity and adhesion","description":"The top GO terms cluster around follicle cell\u2013egg chamber biology in Drosophila, including follicle cell adhesion, maintenance of polarity in the follicular epithelium, and related developmental processes, with supporting signals such as cAMP-dependent protein kinase activity. While some terms touch on broader glycosylation and other insect structures, the strongest, recurrent theme is epithelial polarity and adhesion in the ovarian follicle, suggesting a role in follicle development. Confidence: Medium","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000481","count":2},{"id":"GO:0080147","count":2},{"id":"GO:0042248","count":2},{"id":"GO:0007299","count":2},{"id":"GO:0030311","count":2}]},{"hash":"1919129449559211565","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007183","count":3},{"id":"GO:0007179","count":3},{"id":"GO:0001702","count":2},{"id":"GO:0030708","count":2},{"id":"GO:0030713","count":2}]},{"hash":"2109386367576165640","title":"Embryonic neural development","description":"The top GO terms are centered on neural development (peripheral nervous system neuron development, ventral spinal cord interneuron specification, trochlear nerve formation) and embryogenesis (primitive streak formation, subpallium development), with a general transcription regulation term that often participates broadly in development. This points to a cohesive theme of early neural development during embryogenesis, with some broader developmental processes. ","confidence":"High","size":5,"edges":6,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0048935","count":5},{"id":"GO:0090009","count":5},{"id":"GO:0021642","count":3},{"id":"GO:0061017","count":3}]},{"hash":"1089224744701351887","title":"Glial NF-\u03baB\u2013Driven Inflammation and Cell Death","description":"The top GO terms repeatedly point to NF-\u03baB signaling (both canonical and non-canonical), glial cell apoptotic processes, necroptosis, and inflammatory responses (e.g., IL-8 production), all consistent with neuroinflammatory signaling in glia and associated cell death pathways.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0043123","count":3},{"id":"GO:1901224","count":2},{"id":"GO:0072734","count":2},{"id":"GO:0007611","count":2}]},{"hash":"1207135422980237226","title":"LPS/dsRNA-triggered innate immunity and interferon response","description":"This cluster is enriched for GO terms tied to lipopolysaccharide signaling and responses, innate immune activation, dsRNA sensing, and interferon-beta production, along with NF-kB regulation and cell death pathways (necroptosis and extrinsic apoptosis). These terms together point to a coherent theme of innate immune sensing of bacterial and viral components and the resulting antiviral signaling and inflammatory/cell-death responses, justifying a specific label around innate immunity and interferon signaling.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0031663","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0043330","count":2},{"id":"GO:0045359","count":2},{"id":"GO:0043124","count":2}]},{"hash":"1245463875557553705","title":"Neuronal Ion Channel Regulation","description":"Dominant terms point to neuronal excitability and signaling, including regulation of potassium channels, action potentials, and synaptic plasticity (long-term depression). Additional terms touch mechanosensation and magnesium sensing, circadian sleep regulation, and membrane repolarization in cardiac tissue, indicating membrane\u2013excitability processes rather than a single pathway. Overall, the cluster represents neuronal ion-channel\u2013driven signaling and excitability.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902260","count":1},{"id":"GO:0071435","count":1},{"id":"GO:1900454","count":1},{"id":"GO:0050976","count":1},{"id":"GO:0019228","count":1}]},{"hash":"2142258891757838095","title":"Keratinocyte-driven skin inflammation","description":"The GO terms cluster around keratinocyte biology (keratinocyte differentiation, keratinization, positive regulation of keratinocyte proliferation) and skin-associated inflammatory and remodeling processes (positive regulation of inflammatory response, blood vessel remodeling, apoptotic cell clearance), suggesting a theme of epidermal homeostasis with immune involvement. Some terms appear unrelated (salivary gland cavitation, mating plug formation, spleen development), likely noise, but the core signal aligns with keratinocyte- and skin-focused responses.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050729","count":2},{"id":"GO:0001974","count":2},{"id":"GO:0051561","count":2},{"id":"GO:0060662","count":2},{"id":"GO:0042628","count":2}]},{"hash":"1504115374072410518","title":"Neural and Cardiac GPCR Signaling","description":"The top GO terms cluster around GPCR signaling (GO:0007205), with heart development and cardiac muscle contraction (GO:0007507, GO:0060048) and neuronal processes such as neurotransmitter secretion, axonogenesis, and synaptic potentiation (GO:0007269, GO:0007409, GO:0060291), plus sensory perception of sound (GO:0007605). This pattern suggests proteins engaged in GPCR-mediated signaling that influences both neural communication and cardiac development/function. Some terms appear less directly related (e.g., plant hormone signaling), but the core signal points to shared GPCR-driven pathways linking nervous system signaling with heart-related processes. Confidence: Medium","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:0007507","count":2},{"id":"GO:0060048","count":2},{"id":"GO:0007269","count":2},{"id":"GO:0051262","count":2}]},{"hash":"513552928250970852","title":"Cell signaling and energy metabolism","description":"The top GO terms point to signaling pathways (Hippo, JNK), cell movement (fibroblast migration), differentiation (luteinization), and energy-related processes (mitochondrial fission, aerobic respiration). While not every protein covers all terms, the cluster collectively seems to associate with signaling coordination of cell remodeling and energy production.","confidence":"Low","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035332","count":1},{"id":"GO:0010761","count":1},{"id":"GO:0001553","count":1},{"id":"GO:0046329","count":1},{"id":"GO:0000266","count":1}]},{"hash":"397397396039811467","title":"Cytokine-driven T cell activation and neutrophil recruitment","description":"Top GO terms indicate coordinated regulation of cytokine production (IL-3, GM-CSF), CD8+ T cell proliferation, granzyme B production, and neutrophil extravasation, along with mast cell chemotaxis. This points to a cluster centered on cytokine-mediated activation of T cells and recruitment of neutrophils/mast cells, with some related signaling terms and a distant outlier term. ","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045401","count":4},{"id":"GO:0045425","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0071663","count":4},{"id":"GO:0051092","count":4}]},{"hash":"27821061329934184","title":"Leukocyte activation and cytokine signaling","description":"The terms point to immune cell recruitment and activation (leukocyte tethering/rolling, phagocytosis recognition) and adaptive signaling (T cell costimulation, T cell proliferation, IL-6 production, and STAT phosphorylation), indicating a cohesive theme of immune activation and cytokine signaling pathways.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050901","count":3},{"id":"GO:0006910","count":3},{"id":"GO:0048661","count":2},{"id":"GO:0042517","count":2},{"id":"GO:0042511","count":2}]},{"hash":"833348317284416923","title":"Membrane Transporters and Energy Metabolism","description":"This cluster is enriched for transmembrane transport of sugars and vitamins, along with ion export, plus mitochondrial respiration terms, pointing to a theme of nutrient uptake linked to energy metabolism.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008292","count":2},{"id":"GO:1904659","count":2},{"id":"GO:0015878","count":2},{"id":"GO:0015798","count":2},{"id":"GO:0015887","count":2}]},{"hash":"1454615459910101703","title":"Histone modification and chromatin silencing","description":"This cluster is most consistent with epigenetic regulation of gene expression, given terms for rDNA heterochromatin formation and multiple histone methylation marks (H3K4, H3K9, H3K27, H4K20) and chromatin silencing. Some terms are obsolete but historically tie to the same chromatin-state functions, while other lines (endoderm differentiation, Notch signaling) appear peripheral.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":1},{"id":"GO:1902231","count":1},{"id":"GO:1900477","count":1},{"id":"GO:0000183","count":1},{"id":"GO:0034773","count":1}]},{"hash":"1743445167091654804","title":"Unknown","description":"These proteins carry a highly diverse set of GO terms, including epigenetic regulation of gene expression, transcriptional regulation by RNA polymerases II and I, miRNA transcription, host-mediated activation of viral transcription, and various developmental and stress-related processes. The lack of a single, dominant functional theme across all terms makes it hard to ascribe a cohesive biological role to the cluster. Therefore, the cluster is best labeled Unknown.","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0040029","count":1},{"id":"GO:0005987","count":1},{"id":"GO:0061412","count":1},{"id":"GO:1901838","count":1},{"id":"GO:1902895","count":1}]},{"hash":"2114746133530969536","title":"Mitotic Chromosome Segregation","description":"Top GO terms point to mitosis-focused processes such as APC-dependent catabolic activity, homologous chromosome segregation, and Okazaki fragment processing in mitotic DNA replication. Other terms like autophagosome maturation, Golgi-to-ER transport, and development appear but are less represented, so the dominant theme is chromosome segregation during cell division. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097352","count":1},{"id":"GO:2000011","count":1},{"id":"GO:0031930","count":1},{"id":"GO:0045143","count":1},{"id":"GO:0034349","count":1}]},{"hash":"160357385585418644","title":"Vision and Olfactory Signal Transduction","description":"The cluster shows strong enrichment for visual system terms (phototransduction, visual perception) and olfactory sensing (olfactory behavior, sensory perception of smell), along with GPCR signaling pathways coupled to the cGMP second messenger, which together point to GPCR-mediated sensory signal transduction in both vision and smell. Some outlier terms exist (e.g., cardiac contraction), but the dominant theme is sensory perception and transduction.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":5},{"id":"GO:0007602","count":5},{"id":"GO:0007601","count":5},{"id":"GO:1904706","count":4},{"id":"GO:0042048","count":4}]},{"hash":"217226912068574431","title":"mRNA Splicing and Processing","description":"This cluster is dominated by GO terms tied to mRNA processing, splicing (including regulation via the spliceosome), and related steps such as mRNA export and modification, pointing to a group of proteins involved in mRNA maturation rather than other cellular processes. A few unrelated terms appear but do not outweigh the core RNA-processing theme.","confidence":"High","size":5,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":1},{"id":"GO:0000381","count":1},{"id":"GO:1905663","count":1},{"id":"GO:0008380","count":1},{"id":"GO:0016556","count":1}]},{"hash":"869465406720397408","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0006398","count":2},{"id":"GO:0098789","count":2},{"id":"GO:0000381","count":1},{"id":"GO:1905663","count":1}]},{"hash":"1123739714597948359","title":"Ubiquitin-like conjugation in innate immunity","description":"This cluster centers on ubiquitin-like post-translational modifications (ubiquitin, neddylation, urmylation, ISG15 conjugation, UFM1) and their roles in innate immune signaling, including MyD88-dependent TLR pathways and antifungal defense; autophagy may intersect with these processes, supporting protein turnover and defense. The presence of multiple ubiquitin-like modification terms and immune defense terms suggests a cohesive theme of regulatory modification of immune responses.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0045892","count":2},{"id":"GO:0045116","count":2},{"id":"GO:0034126","count":2},{"id":"GO:1990592","count":2}]},{"hash":"322742783873527459","title":"Immune RTK Signaling and Inflammation","description":"The cluster shows GO terms for defense response to Gram-negative bacteria and positive regulation of inflammatory response, plus cell surface receptor protein tyrosine kinase signaling pathway and PI3K signaling cascade regulation, pointing to immune signaling mediated by receptor tyrosine kinases and downstream pathways. Some terms about snRNA transcription and histone modifications are less directly connected, suggesting they may reflect broader or ancillary roles, but the dominant theme centers on innate immune/inflammatory signaling.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042796","count":1},{"id":"GO:0042795","count":1},{"id":"GO:2000616","count":1},{"id":"GO:0051573","count":1},{"id":"GO:0008284","count":1}]},{"hash":"269554255262527677","title":"Lipid Metabolism and Signaling","description":"The top GO terms are dominated by lipid metabolism and signaling, including phosphatidylcholine biosynthesis/remodeling, ether lipid synthesis, and platelet activating factor production. While a few terms touch on immune signaling and neural development, the strongest shared function across the cluster appears to be lipid metabolic pathways and lipid-mediated signaling.","confidence":"Medium","size":5,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:2001246","count":4},{"id":"GO:0021587","count":4},{"id":"GO:0036151","count":4},{"id":"GO:0002071","count":4},{"id":"GO:0010143","count":4}]},{"hash":"476035605886019916","title":"Innate and Adaptive Immune Response","description":"The cluster is strongly enriched for immune-related terms, including complement activation, phagocytosis, B cell signaling and affinity maturation, and innate defense against bacteria, suggesting a cohesive immune activation role across both innate and adaptive arms.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":4},{"id":"GO:0006910","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0050830","count":4}]},{"hash":"1249149184758962326","title":"Synaptic Vesicle Trafficking and Neurotransmission","description":"Core signals point to synaptic signaling and vesicle trafficking: regulation of excitatory postsynaptic potentials, neurotransmitter secretion, and long-term potentiation, along with receptor localization to the synapse and Golgi/vesicle transport processes, indicating a cohesive module of proteins involved in synaptic vesicle trafficking and neurotransmission. Some immune-related terms are present but do not dominate the theme.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:2000463","count":2},{"id":"GO:0006886","count":1},{"id":"GO:0001916","count":1},{"id":"GO:0048280","count":1},{"id":"GO:1904050","count":1}]},{"hash":"1725919179651446430","title":"Neuronal potassium channel regulation","description":"The GO terms are centered on potassium channel activity and neuronal excitability (negative regulation of delayed rectifier K+ channels, potassium ion export, neuronal action potential), with related implications for synaptic plasticity (long-term synaptic depression) and sensory perception (touch). Although a couple terms touch on cardiac and circadian processes, the strongest signal is ion-channel\u2013driven neuronal signaling, justifying a label focused on neuronal potassium channel regulation.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902260","count":1},{"id":"GO:0071435","count":1},{"id":"GO:1900454","count":1},{"id":"GO:0050976","count":1},{"id":"GO:0019228","count":1}]},{"hash":"2107864591399907362","title":"Vascular development and immune defense","description":"The top GO terms point to vascular-related processes (positive regulation of angiogenesis, branching in ureteric bud morphogenesis, blood coagulation) and innate immune responses (defense against Gram-negative/positive bacteria, antibacterial humoral response), suggesting a core theme around vascular development with concurrent immune signaling. Some terms also indicate general signal transduction (tyrosine autophosphorylation) and intracellular signaling pathways, consistent with proteins that participate in coordinated development and defense responses. Confidence: Medium","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":2},{"id":"GO:0001658","count":2},{"id":"GO:0007596","count":2},{"id":"GO:1900086","count":2},{"id":"GO:0060474","count":2}]},{"hash":"266459131381798645","title":"Hair Keratinization and Hair Cycle","description":"The top GO terms point to keratinization and the hair cycle, indicating involvement in hair follicle biology and keratin production. This cluster is likely enriched for hair-related structural proteins and factors governing hair growth cycles, making the label representative of hair shaft formation and follicle dynamics.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":5},{"id":"GO:0042633","count":5}]},{"hash":"28761147366169838","title":"Unknown","description":"The GO terms are highly heterogeneous, including nitrogen catabolite repression of transcription, synaptic transmission, nitrogen fixation, plasminogen activation, glucose response, insulin secretion, immune evasion, and epithelial proliferation, with some obsolete annotations. There is no clear, shared biological function tying these proteins together, so no meaningful cohesive label can be assigned.","confidence":"","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0090295","count":2},{"id":"GO:0051968","count":2},{"id":"GO:0009405","count":2},{"id":"GO:0009399","count":2},{"id":"GO:0010756","count":2}]},{"hash":"471437067126953683","title":"Embryonic Development and Organ Morphogenesis","description":"The cluster is dominated by GO terms related to embryogenesis and tissue/organ morphogenesis across multiple systems: palate development, mesoderm formation, cartilage morphogenesis, hair follicle morphogenesis, left/right patterning, pancreatic beta-cell development, heart-related EMT in endocardial cushions, and broader endocrine system development. This suggests a general theme of developmental and organogenesis processes rather than a single, specific function, making a label that captures \u201cembryonic development and organ morphogenesis\u201d most representative.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0035270","count":4},{"id":"GO:0031069","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0003323","count":4}]},{"hash":"1923909716472526854","title":"Retinoid Metabolism in Development","description":"Top GO terms point to retinal and retinol metabolism, indicating vitamin A\u2013related processing. Several developmental terms (inner ear morphogenesis, cardiac muscle development, midgut development, bilateral symmetry) suggest this cluster links retinoid pathways to tissue patterning across organs.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042574","count":4},{"id":"GO:0042572","count":4},{"id":"GO:0055129","count":3},{"id":"GO:0042472","count":3},{"id":"GO:0048738","count":3}]},{"hash":"453890660125005723","title":"Embryonic neural and kidney development","description":"This cluster's GO terms converge on developmental processes, especially neural differentiation (midbrain dopaminergic neuron differentiation; ventral spinal cord interneuron specification; lateral motor column neuron migration) and kidney-related development (nephric duct elongation; nephron tubule epithelial cell differentiation; ectoderm formation). A few terms about immune signaling appear peripheral to this core theme, suggesting these proteins are more involved in broad embryonic development than a single immune pathway. Overall, the label highlights neural and renal developmental roles.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042789","count":3},{"id":"GO:0035331","count":3},{"id":"GO:1904948","count":3},{"id":"GO:0035849","count":3},{"id":"GO:0021521","count":3}]},{"hash":"595896582703294895","title":"Membrane Potential Regulation in Heart and Neurons","description":"The top GO terms converge on ion homeostasis and membrane excitability across heart and nervous system, including cardiac repolarization, resting potential regulation, potassium transport, and cardiac relaxation, with neural processes like glutamate reuptake and synaptic plasticity; metabolic and signaling connections (glucose response, BMP signaling, insulin regulation) further support a theme of membrane potential control and ion flux in both tissues.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"nervous system process","top_go_terms":[{"id":"GO:0098914","count":4},{"id":"GO:0060075","count":4},{"id":"GO:0071333","count":3},{"id":"GO:0050877","count":3},{"id":"GO:0090099","count":3}]},{"hash":"1564870612054867780","title":"Stimulus-Response and Immune Signaling","description":"This cluster centers on GO terms for responding to various stimuli (temperature, xenobiotic, diet-induced thermogenesis) and immune-related processes (immune response, eosinophil chemotaxis, histamine signaling). The shared theme is signaling pathways that drive physiological responses to environmental cues and inflammatory processes, justifying a label focused on stimulus response coupled with immune signaling.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071502","count":3},{"id":"GO:0002024","count":3},{"id":"GO:0006955","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0019233","count":3}]},{"hash":"275606809963324187","title":"Translation, Transcription, and Ribosome Biogenesis","description":"The cluster\u2019s top GO terms are dominated by core gene expression processes: translation, DNA-templated transcription, and ribosome biogenesis. This suggests the proteins are involved in establishing and executing protein synthesis and ribosomal production. Other terms appear sparsely and do not alter the main theme. Thus, the cluster likely represents proteins connected to basic cellular gene expression and ribosome assembly.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0038083","count":1},{"id":"GO:2000251","count":1}]},{"hash":"2251876781073600953","title":"Plant secondary metabolite biosynthesis","description":"GO terms indicate plant-specific biosynthesis (anthocyanin, phenylpropanoid, sporopollenin, UDP-L-arabinose, sterol, SAM), suggesting a common theme in plant secondary metabolism; a few terms about labyrinthine layer and hair follicle development appear as noise.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009718","count":4},{"id":"GO:0035336","count":2},{"id":"GO:0033358","count":2},{"id":"GO:0009699","count":2},{"id":"GO:0016126","count":2}]},{"hash":"1425529100845656489","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0061158","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0006378","count":2},{"id":"GO:1904582","count":1},{"id":"GO:0071364","count":1}]},{"hash":"1336680107231634964","title":"Immune Activation and Inflammatory Signaling","description":"The cluster is enriched for GO terms related to positive regulation of inflammatory response, IL-6 production, and isotype switching to IgG, indicating immune activation and antibody-related processes. Some terms like pore complex assembly, translocation into host cell cytoplasm, and detection of misfolded protein may reflect cellular stress or host\u2013pathogen interactions, but the dominant theme is immune/inflammatory signaling.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0050729","count":4},{"id":"GO:0046931","count":4},{"id":"GO:0002236","count":4},{"id":"GO:1903427","count":4},{"id":"GO:0048291","count":4}]},{"hash":"1947709609260102841","title":"Unknown","description":"The GO terms span several unrelated processes, including immune/inflammatory signaling (inflammatory response, IL-6 production, IgG isotype switching), protein quality control (detection of misfolded protein), pore complex assembly and protein translocation, plus seemingly unrelated areas like cocaine response and telomere maintenance, suggesting no single cohesive function for this cluster.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0050729","count":4},{"id":"GO:0046931","count":4},{"id":"GO:0002236","count":4},{"id":"GO:1903427","count":4},{"id":"GO:0048291","count":4}]},{"hash":"1340342314081743185","title":"Vertebrate embryonic organogenesis","description":"The GO terms point to diverse organ and tissue formation during vertebrate development (nerve, brain regions, heart, kidney, cartilage, lungs). There\u2019s no single specific process, but the common theme is embryonic organogenesis across multiple tissues.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021642","count":3},{"id":"GO:0061017","count":3},{"id":"GO:0021544","count":3},{"id":"GO:0051216","count":3},{"id":"GO:0035849","count":3}]},{"hash":"434289243265007684","title":"Nuclear transport and ribosome biogenesis","description":"The top GO terms are dominated by nucleocytoplasmic transport processes (nuclear pore complex assembly, mRNA export from nucleus, NLS-bearing protein import into nucleus, ribosomal protein import into nucleus), with a few related regulatory or cell-cycle terms. This pattern suggests a cohesive functional theme around nuclear import/export and ribosome biogenesis, despite no observed edges in the cluster.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042176","count":3},{"id":"GO:0051292","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0000060","count":3}]},{"hash":"1910342844005469303","title":"Mitotic spindle dynamics","description":"This cluster is dominated by GO terms tied to mitotic spindle function and microtubule regulation\u2014mitotic spindle elongation, centrosome separation, kinetochore microtubule interactions, and plus/minus-end depolymerization\u2014indicating a coherent theme of spindle assembly and microtubule turnover; a couple terms relate to broader microtubule remodeling that can occur in development, but the core signal supports spindle dynamics.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060404","count":4},{"id":"GO:0021693","count":4},{"id":"GO:0000742","count":4},{"id":"GO:0000022","count":4},{"id":"GO:0007100","count":4}]},{"hash":"604372023674700122","title":"Meiosis, Recombination, and Chromosome Segregation","description":"The terms cluster around meiotic DNA double-strand break formation, meiotic recombination, telomere clustering, spindle dynamics, and APC-dependent proteolysis leading to chromosome segregation, which together define a cohesive meiotic machinery signal. Stress-related terms like hyperoxia response and apoptotic process may reflect cellular context rather than core function, but do not override the meiotic theme.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042138","count":4},{"id":"GO:0071455","count":4},{"id":"GO:0010845","count":4},{"id":"GO:0000022","count":4},{"id":"GO:0007059","count":4}]},{"hash":"1528364627228732597","title":"Neuronal calcium signaling and cardiac ion regulation","description":"The cluster centers on calcium and sodium transport and signaling: ionotropic glutamate receptor signaling, calcium ion transmembrane transport, sodium ion export, and calcium-dependent pathways like calcineurin-NFAT, along with related cardiac and neural development terms (mesoderm and vestibulocochlear nerve formation), suggesting a cohesive theme of calcium- and sodium-mediated signaling in neural and cardiac contexts.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001707","count":2},{"id":"GO:0002028","count":2},{"id":"GO:0035235","count":2},{"id":"GO:0021650","count":2},{"id":"GO:0070588","count":2}]},{"hash":"1932602769789415971","title":"DNA replication and chromatin dynamics in meiosis","description":"The cluster\u2019s top GO terms concentrate on DNA replication, replication machinery (MCM complex assembly, fork protection, break-induced replication) and meiotic chromatin changes (subtelomeric/heterochromatin formation, late meiotic recombination nodules), suggesting a core function in genome maintenance during replication and meiosis. Some terms like photosynthesis, gas vesicle organization, and eggshell chorion gene amplification appear unrelated and likely annotation noise, but do not obscure the main replication/meiotic theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0007307","count":3},{"id":"GO:0072689","count":3},{"id":"GO:0006348","count":3},{"id":"GO:0031412","count":3}]},{"hash":"849023238569128988","title":"Developmental processes and transcription","description":"The top GO terms cluster around multicellular development (neural tube closure, skeletal system development), along with DNA-templated transcription and mitotic cell cycle, suggesting a core in developmental regulation and gene expression; a few terms reference stress responses, but they seem incidental to the dominant developmental theme. Confidence: Medium","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070059","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0001403","count":4},{"id":"GO:0000278","count":4}]},{"hash":"1481452597175088526","title":"Meiotic Recombination and Chromosome Segregation","description":"Top terms cluster around meiotic double-strand break formation, recombination, telomere clustering, APC/C-dependent catabolic processes, spindle elongation, and chromosome segregation, indicating a meiotic progression and chromosome-dynamics module. Peripheral terms related to stress responses (hyperoxia) and apoptosis are present but do not define the core function.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042138","count":4},{"id":"GO:0071455","count":4},{"id":"GO:0010845","count":4},{"id":"GO:0000022","count":4},{"id":"GO:0007059","count":4}]},{"hash":"392064255817678973","title":"Mitochondrial Energy Production and Catabolic Metabolism","description":"The top GO terms point to core energy metabolism (mitochondrial electron transport NADH to ubiquinone) and several catabolic processes (propylene, uracil, thymidine), suggesting a metabolism-centered cluster. Additional terms reference cellular stress responses (hyperoxia, fungicide) and development, but these seem to be ancillary rather than defining a single unified pathway. Overall, the primary theme is mitochondrial energy production together with catabolic processes, with secondary associations to stress and development.","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071455","count":3},{"id":"GO:0006120","count":3},{"id":"GO:0042208","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0070276","count":3}]},{"hash":"2190708704120561937","title":"Energy Metabolism and Insulin Response","description":"This cluster shows enrichment for glycolysis and fatty acid metabolism (glycolytic process, fatty acid beta-oxidation, carnitine catabolic process) along with insulin-related terms (response to insulin, negative regulation of insulin secretion) and redox/homeostatic processes, suggesting a cohesive theme around energy production and hormonal regulation of metabolism. A couple of unrelated terms (DNA replication, cell morphogenesis) appear but are much less represented, so the metabolic theme remains the best summary.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000902","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0032868","count":1},{"id":"GO:0019521","count":1},{"id":"GO:0042413","count":1}]},{"hash":"1904340145736151610","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051402","count":4},{"id":"GO:0035606","count":4},{"id":"GO:0008615","count":4},{"id":"GO:0009089","count":4},{"id":"GO:0042823","count":4}]},{"hash":"6119950551887906","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046188","count":2},{"id":"GO:0019285","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0015945","count":2}]},{"hash":"972619250320030484","title":"Neurodevelopment and ectoderm formation","description":"The predominant GO terms point to neural development and ectodermal patterning (midbrain dopaminergic neuron differentiation, ventral spinal cord interneuron specification, lateral motor column neuron migration, ectoderm formation), with supporting roles for transcription by RNA polymerase II and regulatory signaling (Hippo pathway). While there are also terms related to kidney development and immune signaling, the strongest cluster centers on neural development and ectodermal differentiation, suggesting this as the representative function of the group.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042789","count":2},{"id":"GO:0035331","count":2},{"id":"GO:1904948","count":2},{"id":"GO:0035849","count":2},{"id":"GO:0021521","count":2}]},{"hash":"919798431017192147","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning cell division and cell cycle (developmental processes) alongside diverse metabolic processes including antibiotic metabolism, xenobiotic and flavonoid glucuronidation, and various catabolic/biosynthetic pathways for plant and xenobiotic compounds, plus a neuron-specific localization term. There is no coherent, single functional theme tying these terms together, and the absence of edges supports a mixed or incidental grouping. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0016999","count":3},{"id":"GO:0071555","count":3},{"id":"GO:0052697","count":3},{"id":"GO:0052696","count":3}]},{"hash":"970066770493025499","title":"Female germline oogenesis and meiosis","description":"This cluster is dominated by terms related to ovarian follicle development and oocyte fate in the germline, plus core meiotic processes (sister chromatid cohesion, meiotic joint molecule formation, DNA replication, spindle checkpoint). While a couple terms reflect general stress or embryonic outcomes, the central theme points to female germline development and meiotic progression.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001541","count":4},{"id":"GO:0007294","count":4},{"id":"GO:0072711","count":4},{"id":"GO:0001832","count":4},{"id":"GO:0042493","count":4}]},{"hash":"760669690590117215","title":"Mitotic spindle assembly and cell division","description":"The dominant GO terms point to spindle organization, microtubule nucleation, mitotic progression, cytokinesis, and the cell cycle, suggesting proteins that function in mitosis and cell division. Some terms like neuron migration and IL-4 response are less central but may reflect broader cytoskeletal or signaling roles; overall the cluster centers on spindle/microtubule\u2013driven division.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1903087","count":4},{"id":"GO:0001764","count":4},{"id":"GO:0090529","count":4},{"id":"GO:1902408","count":4},{"id":"GO:0007020","count":4}]},{"hash":"629342947988284456","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045892","count":3},{"id":"GO:0044209","count":3},{"id":"GO:0032264","count":2},{"id":"GO:0021756","count":2},{"id":"GO:0032265","count":2}]},{"hash":"1051749112810128269","title":"Nucleotide Salvage and Catabolism","description":"These proteins cluster around nucleotide catabolic and salvage pathways (AMP salvage, guanosine/uridine catabolism, purine ribonucleoside salvage) and related nucleotide metabolism steps, with a note of cellular response to energy stress. The shared theme is recycling and breakdown of nucleotides and nucleosides.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009166","count":1},{"id":"GO:0042149","count":1},{"id":"GO:0006218","count":1},{"id":"GO:0006166","count":1},{"id":"GO:0019509","count":1}]},{"hash":"648854847096379838","title":"Developmental ECM and Proteoglycan Biosynthesis","description":"This cluster centers on GO terms for endoderm and mesoderm development along with proteoglycan biosynthesis, hinting at extracellular matrix (ECM) composition and remodeling during development. The glycan and proteoglycan biosynthetic processes reinforce a cohesive theme around ECM components guiding developmental events.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007492","count":2},{"id":"GO:0050650","count":2},{"id":"GO:0045743","count":2},{"id":"GO:0001707","count":2},{"id":"GO:0010401","count":2}]},{"hash":"738890961504981602","title":"Developmental Signaling Regulation and EMT","description":"Explanation: The GO terms converge on negative regulation of developmental signaling and cell-state transitions (Notch/Wnt signaling, EMT in endocardial cushion formation) along with other development-related processes like angiogenesis and embryo implantation. This points to a cluster of regulators rather than a specific enzymatic activity.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090024","count":1},{"id":"GO:0072221","count":1},{"id":"GO:0003198","count":1},{"id":"GO:0016525","count":1},{"id":"GO:1900025","count":1}]},{"hash":"18870368130022618","title":"Developmental RTK Signaling and Adhesion","description":"This cluster centers on receptor tyrosine kinase signaling and autophosphorylation, plus calcium-independent cell-matrix adhesion and ion-channel clustering, with GO terms tying to heart development and embryonic morphogenesis and synapse organization. It fits a developmental RTK-adhesion module relevant to cardiac and neural maturation.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0038083","count":3},{"id":"GO:0007161","count":3},{"id":"GO:0045162","count":3},{"id":"GO:0007169","count":3},{"id":"GO:0006915","count":3}]},{"hash":"2130695702935268307","title":"Embryonic development and RTK signaling","description":"The cluster is defined by developmental processes (endodermal differentiation, embryonic body morphogenesis, heart development) and strong cues for receptor tyrosine kinase signaling (peptidyl-tyrosine autophosphorylation; cell surface receptor tyrosine kinase signaling). Additional terms on cell-matrix adhesion and channel organization fit tissue formation and maturation during embryogenesis, supporting a cohesive theme of RTK-driven developmental signaling.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":3},{"id":"GO:0038083","count":2},{"id":"GO:0007161","count":2},{"id":"GO:0045162","count":2},{"id":"GO:0007169","count":2}]},{"hash":"602390844813595164","title":"T Cell Activation and Interferon Signaling","description":"The top GO terms cluster around interferon responses (interferon-alpha and type II interferon production), T cell activation, inflammatory signaling, and cytokine regulation (IL-1\u03b2, IL-2), plus PI3K/AKT signaling, suggesting a cohesive role in immune activation and inflammatory regulation with T cell involvement.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035457","count":2},{"id":"GO:0042110","count":2},{"id":"GO:0045766","count":2},{"id":"GO:0032729","count":2},{"id":"GO:0002437","count":2}]},{"hash":"274682430621332648","title":"Developmental and cell cycle processes","description":"The GO terms indicate roles in embryonic organ development, neuron projection development, and regulation of pattern formation, suggesting a developmental theme. Additional terms involve mitotic DNA replication and APC-dependent degradation, pointing to cell-cycle control. Other functions like vesicle transport, RNA splicing, and apoptosis reflect broader cellular regulation but do not override the central developmental and cell-cycle signals. Overall, the cluster appears to group proteins linked to growth and division processes.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:2000011","count":4},{"id":"GO:0031930","count":4},{"id":"GO:0045143","count":4},{"id":"GO:0034349","count":4},{"id":"GO:0000348","count":4}]},{"hash":"2139574446815932971","title":"Glucose and insulin signaling regulation","description":"This cluster\u2019s GO terms repeatedly point to energy homeostasis: positive regulation of D-glucose transmembrane transport, regulation of glucose metabolic process, and positive regulation of insulin receptor signaling, plus a term on feeding behavior. While there are some outliers related to broader regulatory processes, the dominant theme is metabolic signaling governing glucose handling and energy intake. Confidence: Medium","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010828","count":1},{"id":"GO:2000253","count":1},{"id":"GO:0034144","count":1},{"id":"GO:0072369","count":1},{"id":"GO:0090341","count":1}]},{"hash":"1378104173523868705","title":"GPCR Signaling and Sensory Development","description":"The top GO terms cluster around intracellular signal transduction and regulation of GPCR signaling, including dopamine receptor signaling, pointing to GPCR-mediated signaling pathways. Some terms touch on sensory organ development (eye, nose) and sensory responses, suggesting a theme of GPCR-driven signaling in sensory pathways, despite some cross-terms. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":1},{"id":"GO:0007191","count":1},{"id":"GO:0042462","count":1},{"id":"GO:0007637","count":1},{"id":"GO:0048383","count":1}]},{"hash":"590338315116843172","title":"Embryonic and Organ Morphogenesis","description":"The top GO terms cluster around developmental processes and morphogenesis across multiple organs (heart, placenta, eye, hindlimb, trachea, prostate), indicating a shared theme of embryonic tissue formation and organ patterning.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000288","count":2},{"id":"GO:2000020","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0060527","count":2},{"id":"GO:0070384","count":2}]},{"hash":"99688039553422902","title":"Neuronal development and synaptic plasticity","description":"Based on the Top Terms, the strongest signals are related to neuron formation and synaptic function\u2014axonogenesis, excitatory postsynaptic potentials, and long-term potentiation\u2014indicating a cluster focused on neural development and synaptic signaling. Other terms like epinephrine response and regulation of cardiac contraction suggest broader signaling contexts, but the dominant theme remains neural differentiation and synaptic plasticity. Some non-neural terms may reflect annotation noise or cross-species similarities.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":4},{"id":"GO:0070315","count":3},{"id":"GO:0071872","count":3},{"id":"GO:0055117","count":3},{"id":"GO:0009738","count":3}]},{"hash":"1728299166344023318","title":"Angiogenesis and Chemokine-Mediated Immune Recruitment","description":"This cluster is dominated by GO terms for angiogenesis and chemokine production, plus mast cell chemotaxis and regulation of growth factor production, pointing to a vascular-immune signaling module that recruits immune cells and promotes blood vessel formation. Some terms about retina morphogenesis and neuronal channel clustering appear as noise or broader developmental context, but the core signal centers on vascular development and chemokine-driven immune interactions.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0050755","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0045162","count":2},{"id":"GO:0032712","count":2}]},{"hash":"1180529989050387770","title":"Immune signaling and wound healing","description":"This cluster centers on immune-related processes (response to xenobiotic stimulus, NF-kappaB activity, hemocyte development, T cell homeostasis) and tissue repair (wound healing, TGF-beta\u2013related signaling). The combination suggests a module coordinating immune signaling with wound healing and tissue remodeling, potentially in an invertebrate context given hemocyte development. There are also hints of vesicle trafficking involvement, supporting signaling and cellular responses. ","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":2},{"id":"GO:0042060","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0043029","count":2},{"id":"GO:0007516","count":2}]},{"hash":"1217915894316825459","title":"Neurodevelopment and visual system morphogenesis","description":"This cluster is most strongly linked to brain development terms (brain morphogenesis, striatum development, cerebral cortex development) and visual perception, with additional constituents tied to tissue organization and morphogenesis, suggesting a general theme of neural and sensory system development. Confidence: Medium","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030198","count":2},{"id":"GO:0032402","count":2},{"id":"GO:0042311","count":2},{"id":"GO:0014824","count":2},{"id":"GO:0038108","count":2}]},{"hash":"512853417275134510","title":"Immune Activation and Antigen Presentation","description":"The proteins are associated with MHC I antigen presentation, phagocytosis regulation, dendritic cell chemotaxis, and NF-kB signaling, indicating roles in antigen processing and immune cell activation. ER stress-related terms are present but seem secondary to the primary immune-related signals.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0002502","count":2},{"id":"GO:0050766","count":2},{"id":"GO:0048916","count":2},{"id":"GO:0071157","count":2},{"id":"GO:2000510","count":2}]},{"hash":"1225088110549703737","title":"Unknown","description":"The GO terms span diverse topics, including retina and heart development, VEGF/FGFR signaling, chemotaxis, and ion-channel clustering, with no single unifying function.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":1},{"id":"GO:0045162","count":1},{"id":"GO:0002551","count":1},{"id":"GO:0000187","count":1},{"id":"GO:0060042","count":1}]},{"hash":"2159982694328712357","title":"Tyrosine kinase signaling and actin remodeling","description":"The terms center on peptidyl-tyrosine autophosphorylation (tyrosine kinase activity) and actin cytoskeleton reorganization, with related signals guiding endothelial migration, growth regulation, and osmotic signaling. This suggests a core theme of kinase-driven signaling that modulates the cytoskeleton and cell behavior, justifying a label around tyrosine kinase signaling and actin remodeling.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038083","count":4},{"id":"GO:2000251","count":4},{"id":"GO:0060044","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0001806","count":4}]},{"hash":"1926751285608148466","title":"Unknown","description":"The top GO terms cover a broad mix of vesicle trafficking, cytoskeletal/mitochondrial dynamics, membrane architecture, and various developmental processes, with no single dominant function linking the proteins. Because there\u2019s no cohesive theme and no interactions among cluster members, a specific, representative label isn\u2019t justifiable.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070830","count":3},{"id":"GO:0097212","count":3},{"id":"GO:0007021","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0033028","count":3}]},{"hash":"1053993475247330881","title":"Unknown","description":"Top terms span sensory/ciliary functions (visual perception, cilium assembly) and broader processes (mitotic cell cycle, cell division, muscle development, hypoxia response), with no single unifying function across all four proteins. Therefore a precise, cohesive label cannot be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0048741","count":2}]},{"hash":"29023390542874834","title":"DNA Repair and Translesion Synthesis","description":"The top GO terms cluster around DNA damage response and repair, including error-prone and error-free translesion synthesis, nucleotide-excision repair, and UV-C\u2013induced damage response, with supporting terms for DNA replication and general DNA repair\u2014indicating proteins focused on genome maintenance.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042276","count":2},{"id":"GO:0071494","count":2},{"id":"GO:0070987","count":2},{"id":"GO:0006297","count":1},{"id":"GO:0006281","count":1}]},{"hash":"1764181614603529619","title":"Unknown","description":"The top GO terms are highly diverse, spanning development (uterus morphogenesis, tarsal gland development), transcription-related processes (RNA pol II promoter clearance, histone acetylation, transcription regulation), metabolism (sucrose catabolic process, gluconeogenesis regulation), cell-cycle regulation, signaling (androgen receptor), and viral transcription activation. This lack of a coherent, shared function suggests no single representative theme for the cluster.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061038","count":2},{"id":"GO:0001111","count":1},{"id":"GO:0005987","count":1},{"id":"GO:0016573","count":1},{"id":"GO:0061412","count":1}]},{"hash":"1041100672572439196","title":"Ubiquitin-like Modifications & Mitophagy","description":"The proteins are enriched for ubiquitin-like post-translational modifications (deubiquitination, sumoylation, ufmylation) and for mitochondrial quality control processes (mitophagy, regulation of mitochondrial fusion), suggesting a module that links ubiquitin-like PTMs to mitochondrial dynamics; additional signaling terms (e.g., Rho) may reflect broader cytoskeletal coordination with these processes.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":2},{"id":"GO:0016925","count":2},{"id":"GO:1990592","count":2},{"id":"GO:0000753","count":1},{"id":"GO:0007266","count":1}]},{"hash":"523892240498829260","title":"ER-Golgi trafficking and mitotic cell cycle","description":"The top GO terms are dominated by vesicle transport between the ER and Golgi (COPII-coated vesicle budding, ER-Golgi and retrograde Golgi-ER transport), suggesting a core function in the secretory pathway. Also present are mitosis-related terms (mitotic cell cycle, cell division, mitotic spindle assembly), indicating a secondary association with cell cycle progression. The combination points to proteins involved in membrane trafficking with links to cell division, hence the chosen label.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006890","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0090114","count":3}]},{"hash":"946490935409299466","title":"Angiogenesis and Endothelial Cell Migration","description":"Based on the GO terms, the cluster centers on endothelial-driven angiogenesis and dynamic cell movement across the extracellular matrix, including VEGF production, sprouting angiogenesis, and adhesion remodeling, with some immune cell trafficking implications.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035160","count":3},{"id":"GO:2000415","count":2},{"id":"GO:0007161","count":2},{"id":"GO:0010573","count":2},{"id":"GO:0050748","count":2}]},{"hash":"1155148254344749808","title":"Nucleocytoplasmic transport","description":"The terms center on movement across the nuclear envelope, including ribosomal subunit export, protein import/export into/out of the nucleus, mRNA export, and nuclear pore localization, indicating a cohesive nucleocytoplasmic trafficking function for these proteins.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000056","count":1},{"id":"GO:0006611","count":1},{"id":"GO:0006606","count":1},{"id":"GO:1904046","count":1},{"id":"GO:0045571","count":1}]},{"hash":"1023592634698754277","title":"Epigenetic regulation of morphogenesis","description":"The terms include histone demethylation (H3-K36, H3-K27, H4-K20) and RITS complex localization, indicating chromatin modification and gene silencing. These epigenetic processes intersect with diverse morphogenesis terms (notochord, midbrain-hindbrain boundary, uterus, flower), suggesting a theme where epigenetic regulation controls developmental morphogenesis across tissues.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048577","count":1},{"id":"GO:0070544","count":1},{"id":"GO:0034630","count":1},{"id":"GO:0035574","count":1},{"id":"GO:0046293","count":1}]},{"hash":"767543405761707072","title":"Diverse membrane transporters","description":"These four proteins share GO terms centered on transmembrane transport across membranes, including ions (sodium), sugars (galactose, fucose), vitamins, sialic acid, nitrate, xenobiotics, and even neurotransmitter loading into synaptic vesicles. The common thread is membrane transport with broad substrate specificity, spanning both vesicular and across-membrane transport, suggesting these proteins function as diverse substrate transporters rather than a single-substrate enzyme.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0015739","count":2},{"id":"GO:0015757","count":2},{"id":"GO:0006855","count":2}]},{"hash":"1254031520563387268","title":"Endocytic trafficking and signaling regulators","description":"These proteins show terms related to plasma membrane to endosome transport and intracellular protein transport, suggesting a role in endocytic trafficking. They also include regulatory signaling terms (TNF/NF-\u03baB, hypoxia signaling), implying these proteins may couple membrane trafficking with signaling pathways. A few developmental terms appear, which may reflect broader roles, but the strongest theme is membrane trafficking linked to signaling regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000009","count":1},{"id":"GO:1902306","count":1},{"id":"GO:0048227","count":1},{"id":"GO:0032088","count":1},{"id":"GO:0033209","count":1}]},{"hash":"212119049995038818","title":"Ubiquitin-proteasome degradation","description":"The top GO terms emphasize SCF-dependent proteasomal ubiquitin-dependent protein catabolic process and positive regulation of polyubiquitination, pointing to a core function in tagging and degrading proteins. Other terms hint at metal stress responses and cell-cycle checkpoints, but the ubiquitin\u2013proteasome connection most consistently ties the cluster together.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":1},{"id":"GO:0031146","count":1},{"id":"GO:1902916","count":1},{"id":"GO:0070544","count":1},{"id":"GO:0071276","count":1}]},{"hash":"1796929679871022384","title":"Neuronal polarity and synapse assembly","description":"The top GO terms converge on neuronal development, polarity establishment (planar polarity, apical localization), neuron\u2013cell adhesion, and formation/function of synapses (presynaptic active zone, GABAergic transmission). Although some terms touch broader planar polarity, the dominant signal is neural cell polarity, architecture, and synaptic connectivity.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090176","count":3},{"id":"GO:1904071","count":3},{"id":"GO:0045176","count":3},{"id":"GO:0048105","count":3},{"id":"GO:0060488","count":3}]},{"hash":"1232663593029328855","title":"Unknown","description":"The listed GO terms are very diverse, spanning epithelial maintenance, locomotion, endothelial differentiation, coagulation, sensory perception, otolith tethering, BMP signaling, carbohydrate metabolism, septate junction assembly, and cell-matrix adhesion. There isn't a single coherent biological theme tying these proteins together, so the cluster cannot be given a specific functional label.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030277","count":1},{"id":"GO:0008344","count":1},{"id":"GO:0045446","count":1},{"id":"GO:0042381","count":1},{"id":"GO:0007605","count":1}]},{"hash":"1861432621874003839","title":"Unknown","description":"Explanation: The top GO terms are highly heterogeneous, spanning innate immune signaling (RIG-I), host-symbiont interactions, autophagy, various muscle and heart development processes, and regulation of signaling and differentiation. There is no single coherent function uniting these terms, so a specific, representative cluster label isn\u2019t attainable. Confidence: None","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900246","count":2},{"id":"GO:0046597","count":2},{"id":"GO:0006914","count":2},{"id":"GO:0003220","count":2},{"id":"GO:0055002","count":2}]},{"hash":"2253925744285516500","title":"Mitotic DNA Replication Machinery","description":"The top GO terms converge on mitotic DNA replication initiation, preinitiation complex assembly, elongation, and GINS complex assembly, indicating these proteins participate in the replication machinery during mitosis. A few terms are unrelated or obsolete, but the core signal is clearly mitotic DNA replication.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071165","count":1},{"id":"GO:1902977","count":1},{"id":"GO:1902969","count":1},{"id":"GO:0032508","count":1},{"id":"GO:0001833","count":1}]},{"hash":"1692318775941233863","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035372","count":2},{"id":"GO:1902187","count":2},{"id":"GO:0007014","count":2},{"id":"GO:0046597","count":2},{"id":"GO:0006914","count":2}]},{"hash":"1327067879417460218","title":"Retinoic acid signaling and immune modulation","description":"The GO terms center on eye development and response to vitamin A/retinoic acid, suggesting a retinoid signaling theme, with immune and inflammatory roles (positive regulation of inflammatory response, IL-13 production, complement activation) and related processes like apoptosis and transcription regulation; together these points imply a link between retinoid signaling and immune modulation in developmental and inflammatory contexts.","confidence":"Medium","size":4,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001654","count":2},{"id":"GO:0045892","count":2},{"id":"GO:0060044","count":2},{"id":"GO:0050729","count":2},{"id":"GO:0061179","count":2}]},{"hash":"878941696080539691","title":"Glutamatergic synaptic signaling and plasticity","description":"The terms point to excitatory synaptic activity (ionotropic glutamate receptor signaling, excitatory postsynaptic potential) and processes that modulate plasticity (regulation of long-term synaptic plasticity, memory), consistent with a glutamatergic synapse theme, even if a couple terms are outliers.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048169","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0050975","count":2},{"id":"GO:0030225","count":2},{"id":"GO:0035235","count":1}]},{"hash":"547627611120632839","title":"Apoptosis regulation via intrinsic and extrinsic pathways","description":"This cluster centers on programmed cell death signaling, spanning both intrinsic (p53-mediated, DNA-damage\u2013triggered) and extrinsic (death receptor\u2013mediated) pathways, including cytochrome c release and mitochondrial membrane potential changes, all tied to stress responses like DNA damage and metabolic stress. A minor tie to immune context (T cell homeostasis) is present but not dominant.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1902043","count":1},{"id":"GO:0043029","count":1},{"id":"GO:0042771","count":1},{"id":"GO:0090200","count":1},{"id":"GO:0042149","count":1}]},{"hash":"228808638609918607","title":"Ubiquitin-Proteasome Control of Mitosis","description":"The cluster is enriched for ubiquitin-mediated proteolysis terms (deubiquitination, SCF-dependent and APC-dependent ubiquitin-proteasomal catabolic processes) and a related mitotic control term (negative regulation of G2/M). This points to coordinated protein degradation driving mitotic progression, with APC/Wnt-related cross-talk and some stress response associations, but the core theme remains proteolysis-regulated cell division.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0031145","count":2},{"id":"GO:0010950","count":2}]},{"hash":"1883816157574669010","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032781","count":1},{"id":"GO:0070389","count":1},{"id":"GO:0006986","count":1},{"id":"GO:0000381","count":1},{"id":"GO:0046825","count":1}]},{"hash":"1142993594017172233","title":"Post-translational and RNA modification","description":"The top GO terms converge on molecular modification processes: protein diphthamide modification, tRNA wobble uridine modification, and glycosylation (O-linked and N-/fucosylation). These point to a unifying theme of modifications affecting proteins and RNAs, with glycosylation tying to Golgi-related transport terms and plant development signals that provide context. Overall, the strongest signal is modification biology rather than a single, narrowly defined pathway.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0017183","count":1},{"id":"GO:0007117","count":1},{"id":"GO:0002098","count":1},{"id":"GO:0036066","count":1},{"id":"GO:1990536","count":1}]},{"hash":"609602406006931971","title":"Unknown","description":"The top GO terms are very diverse (immune chemotaxis, reproduction-related processes, estrogen response, myelin assembly, sterol biosynthesis, proteasome regulation, histone acetylation, GTPase regulation, autophagy, and protein tetramerization), with no clear single function tying the cluster together. This makes it hard to assign a cohesive, specific label.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002233","count":2},{"id":"GO:0035038","count":2},{"id":"GO:0071391","count":2},{"id":"GO:0032288","count":2},{"id":"GO:0016126","count":2}]},{"hash":"1687053524247143362","title":"Zinc ion homeostasis and detoxification","description":"This cluster\u2019s GO terms are dominated by zinc-related processes: detoxification of zinc, zinc ion transport (including transmembrane transport), and intracellular zinc ion homeostasis, with related response to zinc ion terms. A few terms touch on cadmium/iron, but the central theme is maintaining zinc balance and detoxification in the cell, which best explains the shared functions of these proteins.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010312","count":1},{"id":"GO:0071584","count":1},{"id":"GO:1903874","count":1},{"id":"GO:0071577","count":1},{"id":"GO:0010043","count":1}]},{"hash":"829139556169707436","title":"Unknown","description":"These four proteins carry a highly diverse set of GO terms spanning oxygen metabolism, gene expression, nitric oxide catabolism, respiratory burst, and even development across kingdoms (adenohypophysis morphogenesis; auxin transport). Several terms are obsolete, and there are no edges linking the proteins, so no single coherent function or pathway unites them. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043154","count":4},{"id":"GO:0072592","count":4},{"id":"GO:0010467","count":4},{"id":"GO:0048855","count":4},{"id":"GO:0046210","count":4}]},{"hash":"152266495860605102","title":"Cardiac and vascular development","description":"The top GO terms include heart development (GO:0007507), negative regulation of cardiac muscle cell proliferation (GO:0060044), and positive regulation of endothelial cell migration (GO:0043536), which together point to cardiovascular development and remodeling. While other terms (mitotic centrosome separation, ER stress\u2013related apoptosis, transcription regulation during mitosis) appear more related to general cell cycle or stress responses, the strongest signal revolves around cardiac and vascular formation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060044","count":4},{"id":"GO:0007100","count":4},{"id":"GO:1901319","count":4},{"id":"GO:0007070","count":4},{"id":"GO:0043536","count":4}]},{"hash":"306980845134792946","title":"Multi-tissue embryonic development","description":"Top terms point to development across many tissues and organs (nervous system regions, heart node specification, liver hepatoblast differentiation, kidney, cartilage, bronchiole development). The connection is broad rather than a single pathway, so the cluster is best described as multi-tissue embryonic development.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021642","count":4},{"id":"GO:0061017","count":4},{"id":"GO:0021544","count":4},{"id":"GO:0051216","count":4},{"id":"GO:0035849","count":4}]},{"hash":"467359724376340174","title":"Unknown","description":"The top terms are scattered across apoptosis, neurotransmitter and dopamine biosynthesis, reproductive and endocrine processes, nucleotide and tRNA modification, and vitamin biosynthesis, with several terms marked obsolete. There is no clear common function or pathway linking these proteins, and the lack of edges supports the absence of a cohesive cluster. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0042135","count":4},{"id":"GO:0051573","count":4},{"id":"GO:0033514","count":4},{"id":"GO:0009229","count":4}]},{"hash":"700287812372677957","title":"Integrated stress response and nutrient signaling","description":"The cluster\u2019s top GO terms center on ER stress (eIF2\u03b1 phosphorylation), GCN2-mediated signaling, and cellular responses to glucose starvation, pointing to a coherent theme of nutrient-sensing and stress-induced transcriptional/ Signaling programs. Additional terms about fat cell proliferation and other signaling pathways fit as metabolic and transcriptional regulation components that often accompany stress responses.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070345","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0060733","count":1},{"id":"GO:0042149","count":1},{"id":"GO:0036492","count":1}]},{"hash":"2076720458353454854","title":"Vesicle trafficking and ER-Golgi transport","description":"This cluster is dominated by GO terms tied to intracellular transport and membrane trafficking, notably Rab signaling, ER-to-Golgi and retrograde Golgi-ER vesicle transport, and lysosomal membrane organization, with supporting terms for tubulin assembly and ERK signaling. Together these suggest a cohesive theme around vesicle trafficking and endomembrane system organization, rather than a single receptor or cytoskeletal process. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032482","count":1},{"id":"GO:0007186","count":1},{"id":"GO:0070830","count":1},{"id":"GO:0006890","count":1},{"id":"GO:0097212","count":1}]},{"hash":"1711580332325585601","title":"Unknown","description":"This cluster has no GO terms, no detected interactions (edges/triangles) and an empty top-term list, so there is no common functional signal to base a label on. Although ReCIPE re-added 20 proteins, the lack of shared annotations or connections prevents inferring a coherent function. ","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"996323729395474546","title":"Integrin-Mediated Adhesion and Angiogenesis","description":"The cluster centers on collagen fibril organization, integrin signaling, and cell-matrix adhesion, with supporting terms for angiogenesis and cell migration, pointing to a coherent role for ECM\u2013integrin interactions in vascular remodeling and tissue repair. Myelination in the peripheral nervous system also aligns with integrin-related processes in Schwann cells, strengthening the theme, while other terms are ancillary. Overall, ECM adhesion and angiogenic signaling best capture the cluster\u2019s function.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0033631","count":2},{"id":"GO:0022011","count":2},{"id":"GO:0007161","count":1}]},{"hash":"1125160816336985800","title":"Immune Activation and Inflammatory Signaling","description":"Explanation: The set is dominated by GO terms tied to inflammation and immune function (positive regulation of inflammatory response, IL-6 production, isotype switching, and immune response to pathogens). A few terms refer to cellular stress and host-pathogen interactions (misfolded-protein detection, pore complex assembly, protein translocation into host cytoplasm). Taken together, the cluster points to an immune/inflammatory signaling module, though a couple terms are peripheral.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050729","count":3},{"id":"GO:0046931","count":3},{"id":"GO:0002236","count":3},{"id":"GO:1903427","count":3},{"id":"GO:0048291","count":3}]},{"hash":"396640701834377975","title":"Immune Activation and Inflammatory Signaling","description":"The cluster shows a concentration of GO terms tied to immune and inflammatory processes, such as positive regulation of inflammatory response, IL-6 production, and isotype switching to IgG. While there are also terms related to cellular trafficking and protein quality control (pore complex assembly, translocation into host cytoplasm, detection of misfolded protein), the dominant theme centers on immune activation and inflammatory signaling that these proteins may jointly influence. Overall, the label reflects the most representative function across the set, with some ancillary processes.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050729","count":3},{"id":"GO:0046931","count":3},{"id":"GO:0002236","count":3},{"id":"GO:1903427","count":3},{"id":"GO:0048291","count":3}]},{"hash":"1448693179052304495","title":"Unknown","description":"The top GO terms span diverse, unrelated processes (protein hexamerization, ER-Golgi transport, viral genome replication, oxidative stress responses, SOS response, gas vesicle organization, competence for transformation, autophagic cell death), with no clear common function across the three proteins. Because there is no cohesive theme, a meaningful, specific label cannot be assigned beyond Unknown.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034214","count":1},{"id":"GO:0019079","count":1},{"id":"GO:0035072","count":1},{"id":"GO:0031412","count":1},{"id":"GO:0034599","count":1}]},{"hash":"1346317122389765240","title":"RNA processing and ribonucleoprotein maturation","description":"The top GO terms cluster around RNA biology: tRNA processing, SSU-rRNA maturation, spliceosomal complex assembly, and cytoplasmic mRNA decay/P-body dynamics, plus nuclear import. This points to a core function in RNA maturation, processing, and RNA-protein complex assembly, with less central signals like drought response. Therefore, a label centered on RNA processing and ribonucleoprotein maturation best captures the shared theme of this cluster.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009414","count":2},{"id":"GO:0008033","count":2},{"id":"GO:1990141","count":2},{"id":"GO:0033962","count":2},{"id":"GO:0000290","count":2}]},{"hash":"1735299536259353848","title":"Organ morphogenesis and development","description":"This cluster\u2019s top GO terms are dominated by organ development and morphogenesis across tissues (inner ear, heart, midgut) and bilateral symmetry, indicating a common theme of developmental processes. A few metabolic or hypoxia-related terms are present but appear ancillary to the main developmental signal.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055129","count":3},{"id":"GO:0042472","count":3},{"id":"GO:0048738","count":3},{"id":"GO:0007494","count":3},{"id":"GO:0009258","count":3}]},{"hash":"1862701507306176895","title":"Amino Acid and Cofactor Biosynthesis","description":"This cluster prominently features several amino acid biosynthetic processes (proline, valine, methionine) and pantothenate biosynthesis, plus related central metabolism like the pentose phosphate shunt and methionine cycle. While there are also terms for excretion and iron transport, the dominant signal is biosynthetic metabolism, especially amino acids and cofactors. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055129","count":1},{"id":"GO:0007588","count":1},{"id":"GO:0019310","count":1},{"id":"GO:0098706","count":1},{"id":"GO:0009099","count":1}]},{"hash":"2111495520691813009","title":"Developmental cytoskeleton and vesicle dynamics","description":"This cluster centers on cytoskeletal remodeling and cell division (podosome assembly, cleavage furrow formation, centrosome localization) plus vesicle trafficking (intralumenal vesicle formation, dense core granule maturation) and includes developmental contexts (eye and cranial skeletal system development). The shared theme is coordinated cytoskeletal rearrangements and membrane trafficking during development and morphogenesis.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071800","count":3},{"id":"GO:0001654","count":3},{"id":"GO:1904888","count":3},{"id":"GO:0032534","count":3},{"id":"GO:0036089","count":3}]},{"hash":"422839739544106848","title":"Multi-pathway Biosynthesis","description":"The top GO terms span oxaloacetate metabolism, several biosynthetic processes (heme, protoporphyrinogen IX, sphingomyelin, alanine), fatty acid transport, and even DNA-templated transcription, indicating involvement in diverse metabolic pathways rather than a single function. With only one edge and no strong linking function, this cluster appears to reflect a broad metabolic/biosynthetic theme rather than a specific pathway.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006107","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006782","count":2},{"id":"GO:0015908","count":2},{"id":"GO:0006523","count":2}]},{"hash":"222797914436508899","title":"Unknown","description":"The GO terms span unrelated processes from gastric acid secretion and serotonin signaling to muscle contraction, development, immune cell behavior, calcium release, and temperature response, with no clear unifying function; zero edges further suggests a non-cohesive or noisy cluster. ","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001697","count":2},{"id":"GO:0007208","count":2},{"id":"GO:0055117","count":2},{"id":"GO:0007497","count":2},{"id":"GO:0048245","count":2}]},{"hash":"1604224284378243730","title":"Unknown","description":"The GO terms here are highly heterogeneous (aging, glutamate receptor signaling, umami taste perception, yeast pseudohyphal growth, tight junction assembly, G-protein cycle, protein localization, action potential, heart development, and lysosomal membrane organization) with only three proteins, offering no clear, cohesive biological function to unify the cluster. This likely reflects annotation noise or broad, non-specific roles rather than a single module.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001302","count":1},{"id":"GO:0007215","count":1},{"id":"GO:0050917","count":1},{"id":"GO:0007124","count":1},{"id":"GO:0070830","count":1}]},{"hash":"2003553950611739616","title":"Ribosome biogenesis and translation","description":"This cluster is characterized by GO terms related to ribosome assembly (ribosome biogenesis, export of the large subunit), cytoplasmic translation, and tRNA modification, suggesting a core link to protein synthesis machinery and related cell-cycle processes.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000747","count":1},{"id":"GO:1903833","count":1},{"id":"GO:0090529","count":1},{"id":"GO:1901001","count":1},{"id":"GO:0042254","count":1}]},{"hash":"1043489726293525269","title":"Unknown","description":"The GO terms span disparate biological contexts (cardiac cell proliferation, ABA signaling, synaptic potentiation, apoptosis, aging responses, ribosomal transcription, glial and epithelial differentiation, sphingolipid regulation, and plasticity regulation), with no clear shared pathway or function across them. This makes a cohesive, specific label unlikely; Unknown is the safest designation.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060044","count":2},{"id":"GO:0009738","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0001324","count":2}]},{"hash":"475527520526137691","title":"Hippocampal development and neuronal survival","description":"The top GO terms show clear signals for brain development, especially hippocampus development, and regulation of neuronal apoptosis, pointing to neural development and maintenance of neuron numbers as the core theme. Some immune and general cellular terms appear but seem less central to the cluster\u2019s main function.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0032729","count":2},{"id":"GO:0048873","count":2},{"id":"GO:0043525","count":2},{"id":"GO:0021766","count":2}]},{"hash":"1487142292335835743","title":"TGF-\u03b2/BMP Signaling in Development","description":"The top GO terms center on TGF-\u03b2 and BMP signaling regulation (cellular response to TGF-\u03b2 stimulus; negative regulation of BMP signaling) and related processes like dephosphorylation and meristem maintenance, suggesting a cluster focused on modulation of developmental signaling pathways. Some terms appear less directly connected (e.g., photosystem stoichiometry), but the dominant theme is signaling regulation in development.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000173","count":1},{"id":"GO:0071560","count":1},{"id":"GO:0030512","count":1},{"id":"GO:0061191","count":1},{"id":"GO:0010991","count":1}]},{"hash":"1642744761574341287","title":"Rab-mediated vesicle trafficking","description":"Based on the top GO terms, several annotations point to intracellular transport and Rab GTPase\u2013regulated pathways: Rab protein signal transduction, endosome to melanosome transport, and protein retention in the Golgi. These converge on vesicle trafficking functions, suggesting the proteins in this cluster participate in Rab-driven transport processes. A few outlier terms (e.g., ascospore assembly, heart contraction) are present but do not override the core trafficking theme.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031321","count":2},{"id":"GO:0045053","count":2},{"id":"GO:0060501","count":1},{"id":"GO:0010514","count":1},{"id":"GO:1905289","count":1}]},{"hash":"2095305599834716298","title":"Innate immune signaling regulation and ER stress regulation","description":"Top terms indicate regulation of innate immune pathways (MyD88-dependent TLR signaling, type II interferon signaling) together with ER-associated processes (tail-anchored membrane protein insertion into the ER, ER stress\u2013related apoptotic signaling) and regulatory post-translational modification (sumoylation) and transcription control, pointing to a cluster centered on modulation of immune signaling and ER-related stress responses.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0086004","count":3},{"id":"GO:0016925","count":3},{"id":"GO:1902283","count":3},{"id":"GO:0045648","count":3},{"id":"GO:0071276","count":3}]},{"hash":"879287527568923051","title":"Muscle contraction regulation and signaling","description":"The top GO terms point to muscle biology, including negative regulation of cardiac muscle cell proliferation and regulation of skeletal muscle contraction via calcium release, suggesting a muscle-centric functional theme. Other terms indicate broader signaling and regulatory processes (GTPase activity, progesterone receptor signaling) with occasional stress-related processes (apoptosis, ribophagy). Overall, the cluster seems focused on muscle function regulation with supporting signaling pathways, yielding a Medium confidence. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060044","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0034517","count":3},{"id":"GO:2000650","count":3},{"id":"GO:0050808","count":3}]},{"hash":"1572154709351922217","title":"Unknown","description":"The top terms are a diverse mix including ion transport (sodium/calcium), nerve development, microvillus and vacuole organization, muscle contraction, pheromone response, and B cell differentiation, with no clear single function uniting the proteins. The cluster has no edges, suggesting little functional cohesion. Therefore, no specific representative label can be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002028","count":2},{"id":"GO:0021650","count":2},{"id":"GO:0070588","count":2},{"id":"GO:0032534","count":2},{"id":"GO:0003011","count":2}]},{"hash":"1474959713591136499","title":"Diverse small-molecule biosynthesis","description":"These terms cluster around biosynthetic and catabolic processes for small molecules: amino acids (proline, alanine, lysine), vitamins (biotin), pigments (porphyrin, chlorophyll), and osmoprotectants (ectoine) as well as polyamine metabolism (putrescine) and neurotransmitter turnover (GABA). One term about cocaine behavior appears incidental. The overall theme is diverse small-molecule metabolism, so a general label is appropriate.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019481","count":1},{"id":"GO:0055129","count":1},{"id":"GO:0006782","count":1},{"id":"GO:0009102","count":1},{"id":"GO:0009450","count":1}]},{"hash":"1471239942680105676","title":"Splicing Regulation and mRNA Export Regulators","description":"This cluster is enriched for terms on alternative splicing via the spliceosome, general mRNA splicing, mRNA export from the nucleus, and mRNA modification, pointing to a cohesive set of spliceosome-associated regulators of mRNA maturation and translation initiation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":2},{"id":"GO:1905663","count":2},{"id":"GO:0016556","count":2},{"id":"GO:1903586","count":2},{"id":"GO:0006406","count":2}]},{"hash":"1659040949980101067","title":"Vacuolar ion transport and acidification","description":"These proteins show GO terms tied to vacuolar processes and ion transport, including vacuole organization and protein targeting to the vacuole, vacuolar acidification, and proton/sodium transmembrane transport, plus copper ion homeostasis. The common theme is maintaining vacuolar ion balance and pH via targeting to the vacuole and membrane transport, pointing to a cohesive vacuolar/ion homeostasis function for this cluster. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042777","count":3},{"id":"GO:0006814","count":3},{"id":"GO:0007035","count":3},{"id":"GO:0006878","count":3},{"id":"GO:0007033","count":3}]},{"hash":"1361941563174821598","title":"Cardiac morphogenesis and vascular development","description":"The top GO terms cluster around heart formation (ventricle/valve morphogenesis, trabecula formation) and vascular processes (vasculogenesis/angiogenesis), indicating a shared theme of cardiac development and associated vascular formation.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060346","count":2},{"id":"GO:0003184","count":2},{"id":"GO:0060979","count":2},{"id":"GO:0072221","count":2},{"id":"GO:0016525","count":2}]},{"hash":"398637073081527665","title":"Vertebrate organogenesis and tissue patterning","description":"Top GO terms cluster around developmental processes across multiple tissues (heart, lung, floor plate, mesenchyme, bone) and regulation of differentiation, indicating a general theme of embryonic organogenesis and tissue patterning rather than a single pathway.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045668","count":3},{"id":"GO:0060485","count":3},{"id":"GO:0003210","count":3},{"id":"GO:0003184","count":3},{"id":"GO:0061106","count":3}]},{"hash":"2121908171469543616","title":"Unknown","description":"The terms span disparate biological areas, including antibiotic biosynthesis and metabolism, xenobiotic glucuronidation, plant secondary metabolism, neuronal protein localization, and cell cycle, with no single coherent function uniting them. Therefore a concise, representative label cannot be determined.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":2},{"id":"GO:0016999","count":1},{"id":"GO:0071555","count":1},{"id":"GO:0052697","count":1},{"id":"GO:0052696","count":1}]},{"hash":"1724053052416878482","title":"Type III secretion and flagellar assembly proteins","description":"This cluster centers on bacterial secretion via Type III systems and flagellum assembly, with supporting terms for ion transport and PMF-driven ATP synthesis, pointing to a cohesive bacterial secretion/flagellar machinery theme.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090463","count":2},{"id":"GO:0030254","count":2},{"id":"GO:0043536","count":2},{"id":"GO:0044780","count":2},{"id":"GO:0006814","count":2}]},{"hash":"2286482092645162057","title":"Yeast chromatin silencing and mating-type regulation","description":"This cluster is dominated by nuclear and chromatin-related GO terms: nucleosome assembly, nucleus organization, silent mating-type cassette heterochromatin formation, plasmid partitioning, and negative transcriptional regulation by RNA polymerase II, all hallmark features of chromatin silencing and mating-type control in yeast. A few host-symbiont related terms appear as noise and do not change the core interpretation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":1},{"id":"GO:0039648","count":1},{"id":"GO:0039548","count":1},{"id":"GO:0007338","count":1},{"id":"GO:0006997","count":1}]},{"hash":"388598360560159528","title":"Unknown","description":"There is no shared GO-term signal to define the cluster\u2019s function; the cluster is very sparsely connected (a single edge, no triangles) and Top Terms are empty.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[]},{"hash":"384342194696468932","title":"Adaptive Immune Activation and Antigen Presentation","description":"The top GO terms cluster around adaptive immunity and antigen presentation: T cell activation and positive regulation of T cell cytotoxicity, antigen processing and presentation via MHC I, and B cell receptor signaling, along with defense responses to bacteria. Some terms (iron handling, bitter taste detection, xenobiotic response) appear peripheral to the core theme, suggesting these proteins may have additional roles beyond antigen presentation. Overall, the dominant signal points to adaptive immune function and antigen presentation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001916","count":2},{"id":"GO:0001580","count":2},{"id":"GO:0002480","count":2},{"id":"GO:0071283","count":2},{"id":"GO:0050829","count":2}]},{"hash":"1578555512142691955","title":"Developmental RTK signaling and synapse organization","description":"These proteins cluster around receptor tyrosine kinase signaling and development-related processes: autophosphorylation of tyrosine residues and RTK signaling, plus cell-matrix adhesion and synapse organization, with links to embryonic morphogenesis and heart development. This suggests a role for RTK-driven signaling in development and neural connectivity; some terms like apoptosis or immune-related processes may be secondary or broader context. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0038083","count":3},{"id":"GO:0007161","count":3},{"id":"GO:0045162","count":3},{"id":"GO:0007169","count":3},{"id":"GO:0006915","count":3}]},{"hash":"993488624202547014","title":"RTK Signaling and Synapse Organization","description":"Based on the strongest GO terms, the proteins appear to participate in receptor tyrosine kinase signaling, including peptidyl-tyrosine autophosphorylation and cell-surface signaling. The presence of synapse organization and clustering of voltage-gated sodium channels points to roles in membrane-associated neuronal signaling, with additional development and adhesion terms reflecting broader RTK-related morphogenesis. Overall, the core theme is RTK-driven signaling linked to synaptic organization.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0038083","count":3},{"id":"GO:0007161","count":3},{"id":"GO:0045162","count":3},{"id":"GO:0007169","count":3},{"id":"GO:0006915","count":3}]},{"hash":"1467454780340044416","title":"Receptor tyrosine kinase signaling in development","description":"This cluster is dominated by GO terms tied to receptor tyrosine kinases and their signaling (peptidyl-tyrosine autophosphorylation; cell surface receptor protein tyrosine kinase signaling; RTK signaling pathway), along with developmental processes (heart development, embryonic morphogenesis) and neural maturation cues (synapse organization, clustering of voltage-gated sodium channels) that together suggest RTK-driven signaling governing developmental patterning and neuro-muscular maturation. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0038083","count":3},{"id":"GO:0007161","count":3},{"id":"GO:0045162","count":3},{"id":"GO:0007169","count":3},{"id":"GO:0006915","count":3}]},{"hash":"1748479087517038369","title":"ER-Golgi trafficking and ribosome biogenesis","description":"The cluster is enriched for vesicle transport between the ER and Golgi (including COPII budding), plus ribosome biogenesis, and terms tied to cell growth/division (mitosis, brain development, multicellular growth). Together these suggest a cohesive theme of growth-related cellular machinery combining secretory pathway function with protein synthesis capacity. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006890","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0090114","count":3},{"id":"GO:0000278","count":3}]},{"hash":"2057023969215468838","title":"Nuclear Transport and Localization","description":"Top terms indicate nuclear transport and localization: tRNA export from nucleus, regulation of protein import into nucleus, NLS-bearing protein import, and localization to the nuclear inner membrane, including mitotic nuclear membrane disassembly. The presence of oligomerization terms suggests associated protein complexes. Overall, the cluster centers on nuclear import/export and nuclear organization.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006409","count":3},{"id":"GO:0042306","count":3},{"id":"GO:0051290","count":3},{"id":"GO:0075733","count":3},{"id":"GO:0010827","count":3}]},{"hash":"1810875757764213664","title":"Ubiquitin-Dependent Protein Degradation","description":"The dominant GO terms point to ubiquitination processes (ubiquitin-dependent ERAD, K6-linked ubiquitination, histone ubiquitination) and related protein turnover/quality control pathways, with secondary links to protein transport, vacuole fusion, NF-kappaB signaling, and cell cycle. This suggests the cluster centers on ubiquitin-mediated regulation of protein degradation and turnover.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0007250","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0050830","count":2}]},{"hash":"249397625390044185","title":"Actin-driven cell migration and polarity","description":"Based on the top GO terms, the proteins are enriched for actin cytoskeleton organization (actin filament bundle assembly) and cell migration, with additional signals related to establishing epithelial cell polarity. This points to a shared role in cytoskeletal remodeling driving migratory behavior and polarity establishment, rather than a single, specific pathway. While there are other disparate terms (calcium signaling, apoptosis), they are less represented and likely reflect broader cellular context rather than defining the cluster.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":3},{"id":"GO:0051017","count":3},{"id":"GO:0090162","count":3},{"id":"GO:0010845","count":2},{"id":"GO:0035544","count":2}]},{"hash":"1347731149315214437","title":"Ubiquitin-Mediated Proteolysis","description":"The top GO terms center on ubiquitin tagging and proteasomal degradation (SCF-dependent ubiquitination and polyubiquitination), suggesting proteins in this cluster participate in ubiquitin-mediated proteolysis and protein turnover. Some other terms (RNA processing, metal and toxin responses, meiosis spindle assembly, DNA clearance) are broader but may reflect ancillary roles of ubiquitin signaling in stress and cell-cycle processes. Overall, the strongest shared function appears to be ubiquitin-dependent protein degradation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":1},{"id":"GO:0031146","count":1},{"id":"GO:1902916","count":1},{"id":"GO:0070544","count":1},{"id":"GO:0071276","count":1}]},{"hash":"2188375977301909101","title":"Unknown","description":"The top GO terms are scattered across metabolism, signaling, cytoskeleton, cell cycle, immune response, and vascular processes, many of which are obsolete or only marginally connected. With only a single edge and no coherent, dominant biological theme linking the three proteins, there is no reliable unifying function to name the cluster beyond Unknown.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009097","count":2},{"id":"GO:0038083","count":1},{"id":"GO:2000251","count":1},{"id":"GO:0060044","count":1},{"id":"GO:0014068","count":1}]},{"hash":"1484931680313332612","title":"Innate immune and apoptotic signaling","description":"The top GO terms cluster around innate immune response to lipopolysaccharide, TNF-mediated signaling, and apoptotic processes, with hints of NF-kappaB-related activity. This combination points to a shared role in inflammation and programmed cell death rather than a single enzymatic function, justifying a label focused on immune activation and apoptosis. Some terms are obsolete, but the core themes remain clear for this small cluster.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0071222","count":3},{"id":"GO:0033209","count":2}]},{"hash":"124181986102333903","title":"Developmental Gene Regulation","description":"The top GO terms show a shared emphasis on regulation of transcription by RNA polymerase II alongside a range of developmental processes (neural, limb, heart, kidney, liver, cartilage), suggesting proteins involved in controlling gene expression during embryonic development across multiple tissues rather than a single pathway. This makes a label like Developmental Gene Regulation appropriate, though the diverse tissue terms mean the connection is broad rather than pathway-specific. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0048935","count":2},{"id":"GO:0090009","count":2},{"id":"GO:0021642","count":1},{"id":"GO:0061017","count":1}]},{"hash":"527754626551779701","title":"Developmental Angiogenesis and Cell Migration","description":"The top GO terms cluster around vascular development and movement\u2014angiogenesis (including wound healing and sprouting), cartilage development, and cell adhesion/migration signals (e.g., PDGF receptor signaling, calcium-independent cell-matrix adhesion). This suggests a cohesive theme of developmental processes involving blood vessel formation and cellular movement, though a few terms (phagocytosis, lipoprotein regulation) seem less connected, possibly reflecting annotation noise.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":2},{"id":"GO:0007161","count":1},{"id":"GO:0051216","count":1},{"id":"GO:0050748","count":1},{"id":"GO:0060055","count":1}]},{"hash":"2074503410987002219","title":"Immune signaling and ubiquitination","description":"This cluster centers on antiviral innate signaling and adaptive immune activity, with GO terms for negative regulation of RIG-I signaling, adaptive immune response, and T cell proliferation. It is reinforced by ubiquitin-dependent protein catabolic processes and protein polyubiquitination, suggesting a role for ubiquitin-mediated protein turnover in regulating immune signaling. Additional terms point to broader immune-regulatory networks (NF-kappaB signaling, necroptosis regulation). Overall, the proteins appear linked to immune response modulation through ubiquitination.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0039536","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0042098","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0042787","count":2}]},{"hash":"1943843865774018854","title":"Unknown","description":"The terms span diverse processes (cell adhesion, immune signaling, proteasome turnover, ion transport, and even a plant-specific term) with no single cohesive function tying the set together, so no clear cluster label can be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007161","count":2},{"id":"GO:0006821","count":2},{"id":"GO:0006956","count":2},{"id":"GO:0002291","count":2},{"id":"GO:0006511","count":2}]},{"hash":"70885065359630517","title":"Neurovascular development signaling","description":"The set combines brain development with multiple growth factor receptor pathways (EGF and IGF) and neuronal signaling (glutamate receptor signaling), plus angiogenesis-related migration terms. This suggests a coherent theme of coordinated neural and vascular development driven by signaling pathways and; thus, a Neurovascular development signaling cluster.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0071364","count":2},{"id":"GO:0007215","count":2},{"id":"GO:0035723","count":2},{"id":"GO:0048009","count":2}]},{"hash":"1045747186406359826","title":"Ubiquitin-Proteasome Pathway","description":"The cluster is characterized by ubiquitin-dependent protein catabolic processes, including K48- and K6-linked ubiquitination and SCF-dependent proteasomal degradation, with histone catabolism and links to apoptosis signaling\u2014hallmarks of proteins involved in tagging substrates for proteasomal destruction and regulating protein turnover.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:1903378","count":2},{"id":"GO:0085020","count":2},{"id":"GO:0036205","count":2},{"id":"GO:1903265","count":2}]},{"hash":"999788234499622484","title":"Unknown","description":"The top GO terms are highly diverse (immune signaling, development, apoptosis, osmosensing, metabolism) with no clear shared biological function or pathway across the cluster, making a cohesive label inappropriate. A single, specific function cannot be inferred from the limited, heterogeneous terms and lack of edges.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060044","count":1},{"id":"GO:1902498","count":1},{"id":"GO:0007499","count":1},{"id":"GO:0006915","count":1},{"id":"GO:0001806","count":1}]},{"hash":"1998667521471209725","title":"Mitotic Cell Cycle and Embryonic Development","description":"This cluster shows a strong enrichment for mitotic cell cycle terms (mitosis, sister chromatid movement, G1/S transition, metaphase/anaphase transition) and processes tied to cell-cycle control such as SCF-dependent proteasomal protein degradation. Embryonic development terms (in utero embryonic development, embryonic cleavage) further support a developmental role linked to cell proliferation. While a plant-specific term like photomorphogenesis appears, the overarching pattern points to coordination of cell division during early development, making this label representative.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0031146","count":1},{"id":"GO:0040016","count":1},{"id":"GO:0044346","count":1},{"id":"GO:0001701","count":1}]},{"hash":"212026684761796157","title":"Unknown","description":"The top terms are highly diverse (protein monoubiquitination; metal ion transport for Cu, Zn, Cd; calcium homeostasis; P450 epoxygenase pathway; stilbene catabolism; testosterone response). This scattered mix does not reveal a cohesive functional theme for the cluster, given the lack of shared pathway or high co-occurrence.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006513","count":2},{"id":"GO:0046839","count":1},{"id":"GO:0006825","count":1},{"id":"GO:0046272","count":1},{"id":"GO:0033574","count":1}]},{"hash":"1182243680521478416","title":"Ribosome Biogenesis & Kinase Activation","description":"The two top GO terms are ribosome biogenesis and activation of protein kinase activity, each with equal support, suggesting a cluster that links ribosome assembly with kinase signaling. Although the functions are distinct, their co-occurrence implies a potential coordinated role in growth-related processes. The small cluster size supports a focused, dual-function theme rather than a broad functional category.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0032147","count":3}]},{"hash":"847616750879438561","title":"APC/C-Driven Cell Cycle Regulation","description":"The terms point to mitotic and meiotic control and ubiquitin-dependent degradation, notably APC/C-dependent catabolic processes and K11-linked ubiquitination, signaling a cluster centered on cell-cycle progression governed by targeted proteolysis. While RNA-processing terms appear, they seem peripheral to the main theme of ubiquitin-mediated cell-cycle regulation.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030071","count":1},{"id":"GO:0007127","count":1},{"id":"GO:0000278","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0070979","count":1}]},{"hash":"1107190728866869010","title":"Nucleotide metabolism and salvage","description":"The cluster's top GO terms are dominated by nucleotide metabolism: AMP salvage, nucleoside monophosphate phosphorylation, ADP and CDP biosynthesis, ITP metabolism, and purine ribonucleotide interconversion, suggesting a shared role in nucleotide biosynthesis and salvage. The brain and liver development terms are weaker signals and may reflect broader annotations rather than a core function of the cluster.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046939","count":3},{"id":"GO:0001889","count":3},{"id":"GO:0044209","count":3},{"id":"GO:0046940","count":3},{"id":"GO:0015951","count":3}]},{"hash":"1048795603836765562","title":"Larval neural development and learning","description":"The dominant GO terms point to neural development and behavior in larvae: dendrite development, memory (short- and long-term), habituation, larval locomotory behavior, and responses related to feeding (response to sucrose, regulation of response to food). Together these indicate neural differentiation and learning processes in larval stages. A couple terms (vascular smooth muscle relaxation, platelet aggregation) appear less connected and may reflect broader signaling contexts or annotation noise, but do not redefine the cluster\u2019s primary theme. Therefore this label captures the core function represented by the cluster.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019934","count":1},{"id":"GO:0046959","count":1},{"id":"GO:0032095","count":1},{"id":"GO:0016358","count":1},{"id":"GO:0007614","count":1}]},{"hash":"595903199447471592","title":"Cholesterol and lipid homeostasis","description":"This cluster centers on lipid metabolism and cholesterol handling, with GO terms covering cholesterol homeostasis, triglyceride storage regulation, lipid digestion, reverse cholesterol transport, LDL signaling, and ceramide biosynthesis. While a couple of terms (cellular defense response and kidney development) are less directly related, the overall theme is lipid mobilization, transport, and cholesterol-related pathways, suggesting these proteins collectively participate in lipid homeostasis rather than other processes.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042632","count":1},{"id":"GO:0010890","count":1},{"id":"GO:0044241","count":1},{"id":"GO:0043691","count":1},{"id":"GO:0055096","count":1}]},{"hash":"1651430704524468077","title":"Vesicle trafficking and signaling","description":"The cluster shows strong signals for vesicle transport between the Golgi and ER (both directions), Rab-mediated signal transduction, and GPCR signaling, complemented by related pathways like ERK cascade regulation and lysosomal membrane organization. While a few terms relate to cell junctions or neuron migration, the dominant theme is intracellular trafficking coupled with signaling, suggesting a cohesive label around vesicle trafficking and associated signaling networks.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032482","count":2},{"id":"GO:0007186","count":2},{"id":"GO:0070830","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0097212","count":2}]},{"hash":"2005463584703434346","title":"Epithelial polarity and tight junction assembly","description":"The GO terms point to processes that establish and maintain epithelial cell polarity and tight junctions, including bicellular tight junction assembly, establishment of epithelial cell polarity, apical/basal polarity, apical protein localization, and EGFR signaling. The presence of small GTPase-mediated signal transduction supports a signaling framework driving these polarity and junctional functions. A couple terms like mitochondrial membrane organization and kidney development appear tangential, but the dominant theme across the cluster is epithelial polarity and junction formation.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070830","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0090162","count":2},{"id":"GO:0045197","count":2},{"id":"GO:0007173","count":2}]},{"hash":"1360082470559327361","title":"Epithelial Morphogenesis and Trafficking Signaling","description":"This cluster is dominated by GO terms tied to epithelial morphogenesis and development (epidermis and lung morphogenesis) plus signaling pathways (ephrin receptor signaling, Rab signaling) and intracellular trafficking (endosome to melanosome transport). The combination suggests a group of proteins coordinating epithelial tissue formation with membrane trafficking and associated signaling, rather than a single narrowly defined process. Some terms (mast cell chemotaxis, heart contraction) are less specific but can reflect broader developmental signaling networks; overall, the theme centers on epithelial development and related trafficking/signaling functions.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060501","count":3},{"id":"GO:0010514","count":3},{"id":"GO:1905289","count":3},{"id":"GO:0035646","count":3},{"id":"GO:0032482","count":3}]},{"hash":"1432459082078440735","title":"Cytokine-mediated inflammatory response","description":"The GO terms cluster around immune defense and cytokine production, with multiple entries for defense against protozoan/virus and production/regulation of IL-1\u03b2 and IL-18 in inflammatory contexts, indicating a module centered on cytokine signaling and inflammatory response. Some terms about ER organization and neuromuscular junction assembly are ancillary or contextual, but the dominant theme is inflammatory cytokine activity.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042832","count":2},{"id":"GO:0050702","count":1},{"id":"GO:0045687","count":1},{"id":"GO:0007029","count":1},{"id":"GO:1900017","count":1}]},{"hash":"1327845989515797225","title":"B cell Activation and Cytoskeleton Remodeling","description":"The cluster shows enrichment for B cell receptor signaling and positive regulation of B cell proliferation, together with actin filament bundle assembly and actin cytoskeleton reorganization, suggesting a theme of immune signaling coupled to cytoskeletal dynamics and cell migration. Some terms refer to broader signaling pathways (e.g., GPCR signaling, epithelial polarity), but the strongest shared function appears to be B cell\u2013specific signaling linked to cytoskeletal remodeling.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":2},{"id":"GO:2000297","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0030890","count":2},{"id":"GO:0090162","count":2}]},{"hash":"193650219566069521","title":"Growth signaling and translational control","description":"The cluster\u2019s GO terms point to nutrient-sensing and growth-related pathways (TOR signaling, insulin receptor signaling, response to amino acid starvation) together with regulation of protein synthesis (IRES-dependent translation, translational initiation and its negative regulation) and cell cycle progression (G1/S transition, positive regulation of mitosis). While a couple terms (social behavior, dexamethasone response) are less directly aligned, the dominant theme is growth signaling linked to translation control and proliferation, justifying this label.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1990928","count":1},{"id":"GO:0035176","count":1},{"id":"GO:0031929","count":1},{"id":"GO:0008286","count":1},{"id":"GO:0002192","count":1}]},{"hash":"923211939867573228","title":"mRNA processing and splicing","description":"Dominant terms center on the mRNA lifecycle: processing, splicing via the spliceosome, export, and modification. This points to roles in RNA maturation and spliceosome activity. A few unrelated terms appear, but they do not outweigh the RNA processing signal.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0000381","count":2},{"id":"GO:1905663","count":2},{"id":"GO:0008380","count":2},{"id":"GO:0016556","count":2}]},{"hash":"252326328570388909","title":"Ubiquitin-Dependent Protein Degradation","description":"The cluster\u2019s terms are dominated by ubiquitination and proteasome- and ERAD-mediated protein breakdown (polyubiquitination, K11-linked ubiquitination, ubiquitin-dependent catabolic processes, ERAD pathways) plus APC-dependent proteolysis and related protein turnover. A few terms touch on deubiquitination and signaling/cell-cycle effects, but the core theme is tagging proteins for degradation via ubiquitin pathways.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:1903265","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0031145","count":2},{"id":"GO:0051301","count":2}]},{"hash":"1660967886549088342","title":"Developmental tissue remodeling","description":"These proteins appear tied to morphogenesis and tissue remodeling across multiple contexts: lung epithelial branching, bone/cartilage remodeling (collagen catabolic process, bone resorption, intramembranous ossification), and uterine decidualization. The shared theme is structural remodeling during organ development, with additional regulatory cues (regulation of catalytic activity, thyroid hormone response) that fit a developmental regulation context.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010813","count":1},{"id":"GO:0050790","count":1},{"id":"GO:0060441","count":1},{"id":"GO:0097067","count":1},{"id":"GO:0060448","count":1}]},{"hash":"370241802999100045","title":"Epidermal Keratinization and Lipid Homeostasis","description":"GO terms point to skin barrier biology: keratinization (formation of keratinocytes), lipid homeostasis (lipid regulation in the epidermis), and glycoprotein metabolic processes (glycoprotein components of the skin/keratinocyte surfaces). The cluster likely represents proteins involved in epidermal differentiation and barrier assembly.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055088","count":1},{"id":"GO:0009100","count":1},{"id":"GO:0031424","count":1}]},{"hash":"1129813838033200039","title":"Synaptic signaling and neuromuscular function","description":"The top GO terms point to neurotransmission and neural signaling (dopaminergic and cholinergic synapses, excitatory postsynaptic potential) with calcium import essential for transmitter release, plus skeletal muscle contraction and walking behavior. This pattern suggests a cluster of proteins coordinating neuronal communication and downstream neuromuscular activity, with some related behavioral and pharmacological responses. Confidence reflects a coherent link across these terms. ","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032226","count":2},{"id":"GO:0098703","count":2},{"id":"GO:0003009","count":2},{"id":"GO:0007628","count":2},{"id":"GO:1902004","count":2}]},{"hash":"1579021213603376801","title":"Phosphatidylserine biosynthesis","description":"Based on GO:0006659, the cluster is enriched for phosphatidylserine biosynthesis, suggesting these proteins function in producing phosphatidylserine for membrane phospholipid synthesis; likely includes phosphatidylserine synthase or related enzymes.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006659","count":3}]},{"hash":"391825514117992875","title":"Unknown","description":"The top terms show a mix of DNA damage repair and apoptosis along with a variety of unrelated developmental processes (mesoderm, cartilage, endocardial cushion EMT, pancreatic and trophoblast development), suggesting no single coherent function linking these proteins. With no edges to reinforce a common pathway, a specific label cannot be reliably assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901255","count":2},{"id":"GO:0033683","count":2},{"id":"GO:0008630","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0000122","count":2}]},{"hash":"2284921483741406177","title":"Hair Keratinization Proteins","description":"The cluster\u2019s top GO terms are keratinization and hair cycle, pointing to proteins involved in hair structure and turnover. With three proteins showing these terms, the group likely represents keratin-related components essential for hair formation and maintenance.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":3},{"id":"GO:0042633","count":3}]},{"hash":"30655761603257048","title":"Organogenesis","description":"The top GO terms indicate developmental processes across multiple organs and tissues during embryogenesis (neural, cardiac, renal, hepatic, cartilage, lung, muscle), suggesting a broad organ formation theme rather than a single pathway. Hence Organogenesis is a concise, representative label.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021642","count":3},{"id":"GO:0061017","count":3},{"id":"GO:0021544","count":3},{"id":"GO:0051216","count":3},{"id":"GO:0035849","count":3}]},{"hash":"2263356440070284390","title":"Embryonic development and tissue differentiation","description":"These GO terms cluster around embryogenesis and formation of body structures: EMT in heart development, cartilage morphogenesis, pancreatic and placental differentiation, left-right patterning, and endocrine system development. Also present are general gene expression processes (splicing, Pol II regulation, ribosomal export) that support developmental programs. Taken together, the dominant theme is developmental differentiation and organogenesis across tissues, rather than a single precise pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0000398","count":3}]},{"hash":"2000372635647252292","title":"Developmental morphogenesis and EMT","description":"The dominant GO terms point to embryonic tissue development and morphogenesis, including palate development, mesoderm formation, cartilage morphogenesis, and epithelial-to-mesenchymal transition in heart development. These shared themes suggest a development-focused cluster, with transcriptional regulation and splicing terms likely reflecting gene-expression programs during these processes. Overall, it coherently captures morphogenetic differentiation and EMT events.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":3},{"id":"GO:0006366","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0060536","count":2}]},{"hash":"1263631007609565308","title":"Embryonic Organogenesis Across Tissues","description":"The top GO terms span development across multiple tissues and organs (nervous system structures, heart, liver, cartilage, nephric duct, bronchioles), suggesting a broad theme of embryonic organogenesis and tissue differentiation rather than a single pathway.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021642","count":3},{"id":"GO:0061017","count":3},{"id":"GO:0021544","count":3},{"id":"GO:0051216","count":3},{"id":"GO:0035849","count":3}]},{"hash":"1063515471396911317","title":"Osteoblast Differentiation and Bone Formation Regulation","description":"The cluster is strongly linked to osteoblast differentiation and bone formation, with terms like regulation and negative regulation of osteoblast differentiation and bone trabecula formation, plus involvement in non-canonical Wnt signaling and receptor tyrosine kinase signaling, which are key pathways in osteogenesis. Some outlier terms (immunoglobulin immune response, ureteric bud development, iron response) are present but do not overshadow the dominant bone-development theme.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045667","count":2},{"id":"GO:0016064","count":2},{"id":"GO:0001657","count":2},{"id":"GO:0055114","count":1},{"id":"GO:0010039","count":1}]}]