[{"hash":"342871522040857826","title":"mRNA processing and translation regulation","description":"Top GO terms indicate involvement in mRNA export, splicing and stabilization, plus translation initiation and reinitiation, suggesting these proteins form a module coordinating mRNA maturation with subsequent translation control.","confidence":"High","size":29,"edges":332,"triangles":2118,"max_degree":28,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":9},{"id":"GO:0006406","count":8},{"id":"GO:0001731","count":6},{"id":"GO:0002188","count":6},{"id":"GO:0006378","count":6}]},{"hash":"289102603994359407","title":"Cardiac signaling and muscle regeneration","description":"The top terms include regulation of SA node cell action potential, cellular electrical coupling, skeletal muscle tissue regeneration, and Wnt signaling, which together point to signaling and remodeling in muscle tissue with emphasis on cardiac electrical conduction. Supporting terms like mechanosensing, ubiquitination, and endocytosis reflect accompanying regulatory processes in muscle/cardiac adaptation. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":13},{"id":"GO:0098907","count":12},{"id":"GO:0048549","count":11},{"id":"GO:0016055","count":11},{"id":"GO:0010745","count":11}]},{"hash":"2046448973814863930","title":"Ubiquitin-Dependent NF-kappaB Signaling Regulation","description":"The cluster is dominated by ubiquitin-related processes (ubiquitin-dependent protein catabolic process, autoubiquitination, and multiple ubiquitin linkages including K6, K63, and linear polyubiquitination) and by pathways that regulate NF-kappaB signaling, TNF-mediated signaling, and activation of NIK. It also includes histone ubiquitination, linking chromatin dynamics to these signaling events, and notes negative regulation of necroptosis\u2014titting NF-kappaB-driven cell survival. Together, these terms point to a cohesive function in ubiquitin-mediated regulation of gene expression and inflammatory signaling via the NF-kappaB axis.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":18},{"id":"GO:0051865","count":11},{"id":"GO:0085020","count":11},{"id":"GO:1903265","count":11},{"id":"GO:0036205","count":11}]},{"hash":"1615611070898091706","title":"Developmental regulation and transcription machinery","description":"This cluster is dominated by developmental terms (forebrain development, neural tube closure, multicellular organism development) alongside general gene expression processes (DNA-templated transcription, ribosome biogenesis) and cell cycle activity. The presence of TGF-beta signaling and ER stress-related responses adds context of signaling and adaptation, but the core theme appears to be development linked with transcriptional/biogenesis machinery. Confidence: Medium","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0071276","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0070059","count":4},{"id":"GO:0050830","count":4}]},{"hash":"1257196997056165227","title":"Steroid hormone biosynthesis and lipid metabolism","description":"The top GO terms emphasize androgen metabolic process, testosterone biosynthetic process, retinoic acid biosynthetic process, and fatty acid elongation, pointing to synthesis of steroid- and lipid-derived metabolites as the cluster\u2019s core function. While DNA replication/integration terms appear, they are less representative of the overall theme, so the label reflects the dominant metabolic biosynthesis signal. ","confidence":"Medium","size":29,"edges":5,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0015074","count":4},{"id":"GO:0008209","count":3},{"id":"GO:0061370","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0035902","count":2}]},{"hash":"1700697058646278695","title":"Developmental signaling pathways","description":"The top GO terms point to several signaling pathways (T cell receptor, Roundabout, Smoothened) and developmental processes across nervous system, kidney, hippocampus, and bone contexts, suggesting the proteins cluster around signaling networks governing development and organ patterning rather than a single tissue. ","confidence":"Medium","size":29,"edges":220,"triangles":537,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":9},{"id":"GO:0035385","count":9},{"id":"GO:0007399","count":9},{"id":"GO:0001822","count":8},{"id":"GO:0007224","count":8}]},{"hash":"1869653495965432614","title":"Neuronal synaptic development and plasticity","description":"Top terms indicate neuronal synapse assembly and plasticity: receptor clustering, dendritic spine morphogenesis, protein localization to synapse, LTD, and excitatory signaling, with related brain functions such as visual learning and social behavior. The presence of transcription-related terms suggests activity-dependent gene regulation accompanying synaptic changes. Overall, the cluster represents proteins involved in building and modulating synapses in neurons and the transcriptional programs that accompany plasticity.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0043113","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0035176","count":4},{"id":"GO:0060292","count":4}]},{"hash":"1686680349609344717","title":"Retroviral Entry, Replication, and Latency","description":"This cluster strongly centers on the retroviral life cycle: DNA integration and recombination, DNA replication, RNA-templated DNA synthesis (reverse transcription), and viral entry into the host nucleus, with aspects of proviral latency and viral counter-defense (e.g., suppression of siRNA processing). The presence of symbiont entry terms likely reflects broader annotations for intracellular pathogens, but the dominant signal is retroviral integration and latency.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0015074","count":7},{"id":"GO:0006260","count":6},{"id":"GO:0046718","count":5},{"id":"GO:0039651","count":5},{"id":"GO:1903704","count":5}]},{"hash":"1390854353561977985","title":"Amino acid and cofactor biosynthesis cluster","description":"The top GO terms are dominated by biosynthetic processes for amino acids and cofactors (biotin biosynthesis, lysine-related pathways, pyruvate biosynthesis, porphyrin/protoporphyrin IX biosynthesis, coenzyme M biosynthesis) along with antibiotic biosynthesis. This pattern points to a cohesive group of proteins involved in producing a variety of metabolites and cofactors, with only a few outliers (e.g., morphine response) that are less central. ","confidence":"High","size":29,"edges":269,"triangles":1237,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019878","count":11},{"id":"GO:0009102","count":8},{"id":"GO:0009089","count":8},{"id":"GO:0006782","count":8},{"id":"GO:0042866","count":7}]},{"hash":"721935434860307450","title":"Translation Machinery and tRNA Charging","description":"The proteins are enriched for translation (GO:0006412) and for multiple aminoacyl-tRNA synthetase activities (methionyl-, leucyl-, valyl-, isoleucyl-tRNA charging) as well as mitochondrial translation, indicating a cohesive role in protein synthesis and tRNA charging. Some ancillary terms appear noise but do not override the main translation-focused signal.","confidence":"High","size":29,"edges":38,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0006450","count":3},{"id":"GO:0006431","count":3},{"id":"GO:0006429","count":3},{"id":"GO:0006438","count":3}]},{"hash":"1001422099326250677","title":"Unknown","description":"The cluster includes diverse GO terms spanning phosphorylation, metabolism (fucose catabolism), DNA processes (replication, recombination, transposition), RNA hydrolysis, and development (lung and brain). There is no coherent single function or pathway tying these terms together, and several entries are obsolete, so a concise, representative label cannot be determined.","confidence":"","size":29,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":4},{"id":"GO:0042355","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0009097","count":3},{"id":"GO:0090502","count":3}]},{"hash":"243323233739779556","title":"Mobile genetic elements and genome dynamics","description":"This cluster is dominated by GO terms for DNA-templated transcription, DNA transposition, DNA integration, and retrotransposition, indicating a focus on genome mobility and regulation. Additional terms related to RNA (guanine-N7) methylation and various stress/xenobiotic responses suggest coordinated transcriptional and stress-related functions, with metabolic biosynthesis (antibiotics, biotin) appearing as secondary themes. Overall, the core theme appears to be genome dynamics influenced by mobile elements, with ancillary stress and metabolic processes.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0006313","count":4},{"id":"GO:0017000","count":3},{"id":"GO:0009102","count":3},{"id":"GO:0035902","count":3}]},{"hash":"522648618148933990","title":"Integrin-mediated adhesion and ECM remodeling","description":"The top GO terms cluster around cell-matrix adhesion (calcium-independent adhesion, heterotypic adhesion), integrin signaling, and extracellular matrix remodeling (ECM assembly regulation, metallopeptidase activity, hyaluronan metabolism). Additional terms on blood coagulation and complement activation point to vascular/immune contexts where ECM interactions are central. The endodermal differentiation term is peripheral to the core theme. Therefore, labeling as integrin-mediated adhesion and ECM remodeling is most representative.","confidence":"High","size":28,"edges":2,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007161","count":6},{"id":"GO:0034113","count":6},{"id":"GO:0007229","count":6},{"id":"GO:0045123","count":6},{"id":"GO:0035987","count":6}]},{"hash":"1244626032222726325","title":"Unknown","description":"The top terms span neural processes (visual learning, prepulse inhibition, responses to morphine/amphetamine, pain regulation) alongside inflammatory/coagulation and even a cell wall catabolic process, with no clear single shared function. The cluster has no edges, suggesting a heterogeneous collection rather than a cohesive pathway. Confidence: None","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":6},{"id":"GO:0007596","count":5},{"id":"GO:0040015","count":5},{"id":"GO:0043278","count":5},{"id":"GO:0060134","count":4}]},{"hash":"389416655041338492","title":"Developmental signaling and cell proliferation regulation","description":"The top GO terms cluster around development and growth control (multicellular development, cell division, mitotic cycle, positive regulation of proliferation) with additional regulation of signaling (GTPase activity, GPCR signaling, autophosphorylation) and related processes (mRNA transport, hypoxia response). This suggests a broad regulatory module coordinating development and cell growth rather than a single pathway, though the term diversity reduces path-specificity. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0007605","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0071456","count":4}]},{"hash":"659417080588386250","title":"Developmental signaling and cytoskeletal regulation","description":"This cluster centers on proteins involved in diverse signaling pathways that influence development (thymus and forebrain development), cytoskeletal dynamics (actin remodeling and Rho signaling), and related processes like translation initiation and apoptosis, plus responses to nitric oxide. The shared theme appears to be signaling-driven control of development and cytoskeletal architecture, with ancillary roles in protein turnover and cell fate decisions.","confidence":"Medium","size":28,"edges":36,"triangles":18,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071732","count":9},{"id":"GO:0060396","count":9},{"id":"GO:2000251","count":9},{"id":"GO:0032436","count":9},{"id":"GO:0048538","count":9}]},{"hash":"1481387677105151004","title":"Neurodevelopment and cranial skeletogenesis","description":"This cluster is dominated by neural development signals: dendrite morphogenesis, sensory neuron function, Wnt signaling, and cranial skeleton morphogenesis; together with broad developmental terms like multicellular organism development. The DNA replication/transcription terms likely reflect proliferative cells in developing tissues, not a single pathway.","confidence":"Medium","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":13},{"id":"GO:0006351","count":13},{"id":"GO:0006813","count":13},{"id":"GO:0048813","count":12},{"id":"GO:0043552","count":12}]},{"hash":"621451356409659585","title":"Ribosome Biogenesis and Translation","description":"The cluster's top GO terms cluster around protein synthesis: translation, translational initiation, cytoplasmic translation, translational termination, ribosome biogenesis, tRNA modification, and ribosomal subunit export. This strongly points to core components of the ribosome and the translation machinery, including assembly and processing steps. A few terms related to stress responses (amino acid starvation, antibiotic response) may reflect regulatory contexts that connect translation to growth and stress, but the dominant signal is ribosome function and protein synthesis.","confidence":"High","size":28,"edges":3,"triangles":0,"max_degree":2,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0006413","count":4},{"id":"GO:0002181","count":4},{"id":"GO:1903833","count":4},{"id":"GO:0042254","count":4}]},{"hash":"1154891748831809274","title":"T cell signaling and hematopoietic development","description":"The top GO terms point to T cell receptor signaling and its negative regulation, ERK cascade modulation, and hematopoietic lineage processes (megakaryocyte development, beta selection), with ubiquitination suggesting signaling control and LPS response reflecting innate-immune activation. Together, these terms indicate a cohesive module of T cell\u2013centered immune signaling and hematopoietic development, rather than a disparate set of functions.","confidence":"High","size":28,"edges":230,"triangles":910,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0035855","count":3},{"id":"GO:0050860","count":3},{"id":"GO:0070373","count":3}]},{"hash":"746542225295481715","title":"Neural development and excitatory synaptic signaling","description":"The cluster\u2019s top GO terms are dominated by nervous system development, excitatory postsynaptic potential, and ion transmembrane transport, pointing to neuronal signaling and synaptic function. ERK cascade regulation and PI3K signaling support synaptic plasticity, aligning with memory-related terms. Some outlier terms for heart development and bone maturation may reflect broader tissue expression or annotation artifacts, but the central theme is clearly neural development and excitatory neurotransmission.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":6},{"id":"GO:0060079","count":5},{"id":"GO:0071805","count":5},{"id":"GO:0035725","count":5},{"id":"GO:0007507","count":5}]},{"hash":"1371384694363936153","title":"Neural Development and Axon Guidance Signaling","description":"The GO terms point to nervous system development, brain development, and axon guidance pathways (Roundabout signaling, Hedgehog/Smoothened, ERK cascade) as well as synaptic vesicle exocytosis regulation, indicating a cluster of proteins involved in neural development and signaling. An immune term (T cell receptor signaling) appears less central to this theme, but the neural-related terms dominate, supporting a neural development/axon guidance focus.","confidence":"High","size":28,"edges":296,"triangles":1568,"max_degree":25,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":15},{"id":"GO:0035385","count":15},{"id":"GO:0007399","count":15},{"id":"GO:0001822","count":15},{"id":"GO:0007224","count":15}]},{"hash":"1355329060760887373","title":"Gene Expression and Protein Processing","description":"Based on GO terms such as DNA-templated transcription, DNA replication, regulation of translation, and ER-Golgi trafficking/ERAD, the proteins appear involved in core gene expression and their maturation/trafficking. Development-related terms (mesoderm formation, placenta development) are less central but suggest broader roles in differentiation. Overall, the cluster seems to group proteins tied to expression, processing, and transport of genetic information rather than a single pathway.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006977","count":2},{"id":"GO:0045727","count":2},{"id":"GO:0006260","count":2},{"id":"GO:1901621","count":2}]},{"hash":"440721935387371423","title":"Inflammation and coagulation with angiogenesis","description":"The cluster is enriched for innate immune and hemostatic processes, including complement activation, coagulation, fibrinolysis, acute-phase response, and defense against Gram-positive bacteria, along with angiogenesis and Wnt signaling, suggesting a program coordinating immune defense with blood clotting and vascular remodeling.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0045079","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0045766","count":4}]},{"hash":"1100797296809621435","title":"Eye and Midbrain Development Transcription Regulators","description":"This cluster shows enrichment for neural/ocular development terms (midbrain development, camera-type eye development, embryonic eye morphogenesis, embryonic cranial skeleton morphogenesis) and transcriptional regulation (positive/negative regulation of transcription by RNA polymerase II, transcription by RNA polymerase II), suggesting a theme of transcription-regulated development in eye/brain tissues. Immune-related terms are present but less central.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0030901","count":9},{"id":"GO:0045944","count":8},{"id":"GO:0050832","count":6},{"id":"GO:0032496","count":6}]},{"hash":"2003119109527186273","title":"Nuclear gene expression and RNA processing","description":"Most frequent terms point to nuclear functions: transcription, DNA integration, histone methylation, spliceosome-mediated mRNA splicing, and rRNA maturation. While a couple of terms hint at trafficking between ER and Golgi, these are less representative. Overall, the cluster seems to group proteins involved in regulation of gene expression and RNA processing within the nucleus.","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:0015074","count":3},{"id":"GO:0007420","count":2},{"id":"GO:0051568","count":2},{"id":"GO:0000747","count":2}]},{"hash":"2074052149782943694","title":"Lipid and Steroid Biosynthesis","description":"This cluster is dominated by GO terms for biosynthetic processes of lipids and sterols, including fatty acid elongation, retinol/retinoic acid biosynthesis, C21-steroid hormone metabolism, and androgen metabolism, plus mentions of mycolic acid and other antibiotic/tropane alkaloid biosynthesis. The common theme is enzymatic synthesis of lipid- and steroid-derived molecules across diverse organisms, rather than broad categories like signaling or transport.","confidence":"High","size":28,"edges":255,"triangles":1008,"max_degree":27,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":21},{"id":"GO:0030497","count":21},{"id":"GO:0002138","count":21},{"id":"GO:0006710","count":21},{"id":"GO:0042572","count":21}]},{"hash":"1473002252909087264","title":"Developmental EMT and tissue remodeling with immune regulation","description":"The cluster\u2019s GO terms cluster around development (substantia nigra development, lung epithelial differentiation) and epithelial-to-mesenchymal transition, plus tissue remodeling activities (lymphangiogenesis, connective tissue replacement) and immune context (negative regulation of inflammatory response, T cell homeostasis). This suggests proteins involved in developmental signaling and EMT-driven remodeling, with concurrent immune modulation, rather than a single canonical pathway.","confidence":"Medium","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0021762","count":5},{"id":"GO:0060487","count":4},{"id":"GO:0001946","count":4},{"id":"GO:0051343","count":4},{"id":"GO:0007114","count":4}]},{"hash":"2136684349369737658","title":"Stress Response and Metabolic Biosynthesis","description":"The cluster shows a mix of stress-related GO terms (response to stress, hyperosmotic response, response to tellurium ion) alongside various biosynthetic processes (antibiotic, polyamine, biotin). There are also RNA processing and protein modification terms, suggesting a broad biological state rather than a single pathway. Thus the label reflects the overarching themes of stress response coupled with metabolic/secondary metabolite biosynthesis, representing the cluster's general function rather than a specific process.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006950","count":6},{"id":"GO:0085014","count":6},{"id":"GO:0017000","count":6},{"id":"GO:0006596","count":5},{"id":"GO:0009102","count":5}]},{"hash":"661551722141211734","title":"Neural development and synaptic signaling","description":"The cluster centers on neural development and synaptic regulation, with GO terms for nervous system development, hippocampus development, dendritic spine morphogenesis, synapse structural plasticity, and signaling pathways (ephrin, Roundabout, Wnt) that govern axon guidance, synapse formation, and plasticity. Rho signaling supports cytoskeletal changes essential for dendritic spine remodeling, while the presence of mitotic cell cycle terms may reflect shared annotations in proliferative neural progenitors. A single immune-related term (T cell receptor signaling) is present but does not define the predominant theme, which remains neural development and synaptic signaling.","confidence":"Medium","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021766","count":6},{"id":"GO:0007266","count":6},{"id":"GO:0050852","count":6},{"id":"GO:0060997","count":6},{"id":"GO:0000278","count":5}]},{"hash":"358348539610171836","title":"Ubiquitin-regulated cell cycle","description":"The top GO terms emphasize K63-linked ubiquitination and autoubiquitination, pointing to ubiquitin signaling, plus mitotic chromosome condensation and cell division, indicating a focus on ubiquitin-mediated control of the cell cycle. Other terms touch on vesicle trafficking and mRNA transport, suggesting related regulatory processes, but the central theme remains ubiquitin-dependent regulation of mitosis.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070534","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0007076","count":2},{"id":"GO:0070306","count":2}]},{"hash":"1130946051502494979","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050873","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0006808","count":2},{"id":"GO:0006203","count":2},{"id":"GO:0001680","count":2}]},{"hash":"1291983029903048937","title":"Rho signaling and developmental gene regulation","description":"This cluster centers on Rho-mediated signal transduction and its regulation, with accompanying terms indicating development (oogenesis, cell differentiation) and gene expression control (translation, Pol II tethering, nuclear localization). The combination suggests proteins that couple signaling pathways with nuclear organization and transcriptional regulation during development and neural functions (serotonin uptake regulation). Confidence: Medium","confidence":"","size":28,"edges":13,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0051612","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0007266","count":2},{"id":"GO:0048477","count":1},{"id":"GO:0030154","count":1}]},{"hash":"1037958605444984682","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006370","count":3},{"id":"GO:0036265","count":3},{"id":"GO:0000472","count":3},{"id":"GO:0000447","count":3},{"id":"GO:0000480","count":3}]},{"hash":"2104776644854528219","title":"Neural development and ER-Golgi trafficking","description":"Top GO terms show neural development (brain, spinal cord, neuron projection), eye-related differentiation (lens fiber), and pigmentation, alongside vesicle trafficking between ER and Golgi. This suggests a cohesive theme where neural/eye development relies on ER-Golgi transport mechanisms, justifying the label. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0007064","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0000724","count":3},{"id":"GO:0021510","count":3}]},{"hash":"558451749464831755","title":"Neural Development Signaling","description":"The top GO terms cluster around neural development and neuron signaling\u2014forebrain development, neurotrophin TRK receptor signaling, and ephrin receptor signaling\u2014along with a mechanotransduction cue, all pointing to neural development pathways. Some terms also touch on signaling cascades (ERK) and immune processes, but the dominant theme is neural development signaling.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030097","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0048011","count":3},{"id":"GO:0048013","count":3}]},{"hash":"1030961558501633256","title":"Muscle-immune signaling and remodeling","description":"Proteins in this cluster show regulation of chemokine production (CXCL1, CCL5), a vitamin D response, and responses to mechanical stimuli, along with skeletal muscle regeneration and cardiac signaling (SA node action potential). Additional hints include Rho signaling, SNARE complex regulation, and pinocytosis, suggesting a module of signaling crosstalk linking immune chemokine regulation with muscle and heart remodeling rather than a single unified function.","confidence":"Medium","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":4},{"id":"GO:0071651","count":4},{"id":"GO:0071260","count":4},{"id":"GO:2000340","count":4},{"id":"GO:0035544","count":4}]},{"hash":"1571471009261137809","title":"Neuronal pain signaling and ion transport","description":"This cluster is enriched for GO terms related to pain detection (chemical and mechanical) and calcium signaling (calcium import, response to calcium), plus neuropeptide release (GABA, vasopressin) and ion transport (manganese). The combination points to proteins involved in neuronal signaling and ion-dependent secretion that underpin pain perception and related neuroendocrine/physiological processes, including cardiac action potential regulation. Hence the label reflects a cohesive theme of neuronal signaling with ion transport contributing to pain processing and secretion.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006828","count":6},{"id":"GO:0050968","count":6},{"id":"GO:0050966","count":6},{"id":"GO:0098703","count":6},{"id":"GO:0098907","count":5}]},{"hash":"401041411554404983","title":"Bacterial envelope and metabolite biosynthesis","description":"This cluster is dominated by biosynthesis-related terms: lipopolysaccharide biosynthesis, lipoteichoic acid biosynthesis, antibiotic biosynthesis, and poly-hydroxybutyrate biosynthesis, pointing to bacterial cell envelope and metabolite production. The presence of transcription regulation and sporulation terms suggests additional regulatory or developmental roles co-occurring with biosynthesis. Overall, the set seems to reflect bacterial biosynthetic pathways rather than a single specific function.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0009103","count":5},{"id":"GO:0046677","count":5},{"id":"GO:0070395","count":5},{"id":"GO:0017000","count":4}]},{"hash":"24164202025821983","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":6},{"id":"GO:0000278","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0006349","count":5},{"id":"GO:0070059","count":4}]},{"hash":"727090293928889225","title":"Neuronal development and secretory trafficking","description":"Reasoning: The cluster is dominated by GO terms for Golgi organization and ER-to-Golgi transport, alongside neuronal development and synaptic plasticity elements (excitatory postsynaptic potential, dendritic spine morphogenesis, substantia nigra development, oligodendrocyte differentiation). Immune signaling terms are present but appear ancillary to the main neuronal/secretory theme. Thus the label emphasizes neuronal development coupled with the secretory pathway.","confidence":"Medium","size":27,"edges":23,"triangles":15,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007030","count":11},{"id":"GO:0060079","count":11},{"id":"GO:0035690","count":11},{"id":"GO:0006888","count":11},{"id":"GO:0021762","count":11}]},{"hash":"235483203401918734","title":"Cholesterol Homeostasis & SREBP Signaling","description":"The top GO terms are strongly cholesterol-centric\u2014intestinal cholesterol absorption (4), cholesterol efflux (4), cholesterol homeostasis (3), and SREBP signaling pathway (3)\u2014pointing to a core cholesterol metabolism/regulatory function. Additional terms for DNA-templated transcription and DNA replication suggest broader housekeeping activity, while a few immune/ERAD-related terms appear ancillary. Overall, the cluster is best described by cholesterol regulation and lipid homeostasis, with secondary involvement of transcription-related processes.","confidence":"Medium","size":27,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030299","count":4},{"id":"GO:0033344","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0030433","count":3}]},{"hash":"1592663546861140977","title":"Neuronal signaling and circadian behavior","description":"The top GO terms cluster around neural signaling and excitability: gamma-aminobutyric acid signaling, sodium/potassium ion transport, and excitatory postsynaptic potentials, plus phenomena like locomotory behavior, conditioned taste aversion, and regulation of sleep/wake cycles. The inclusion of optic nerve morphogenesis and negative regulation of action potential further ties this cluster to neural development and neuronal excitability. Together, these terms point to a cohesive function centered on neurotransmission, ion-channel\u2013mediated excitability, and circadian/behavioral outputs.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007214","count":25},{"id":"GO:0071805","count":25},{"id":"GO:0060079","count":25},{"id":"GO:0035725","count":25},{"id":"GO:0001661","count":25}]},{"hash":"820705743002839321","title":"Nervous System Development and Sensory Perception","description":"The cluster\u2019s top GO terms are dominated by nervous system development, sensory perception of sound, and optic nerve morphogenesis, with supporting signals like Wnt and general neural development, suggesting a cohesive theme around neural development and sensory function, despite some accompanying cell-cycle/translation terms indicating broader cellular processes.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0002181","count":2},{"id":"GO:0021631","count":2},{"id":"GO:0051262","count":2}]},{"hash":"714223412313420809","title":"Embryonic eye and brain development","description":"The top GO terms repeatedly point to embryonic development of neural and sensory structures (eye morphogenesis, retina development, habenula development) and pituitary formation, plus shared transcriptional regulation during development. While there are a few terms for other organogenesis, the strongest signal is the eye/brain developmental program, supporting a label centered on neural and ocular development.","confidence":"Medium","size":27,"edges":136,"triangles":179,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048048","count":11},{"id":"GO:0021983","count":11},{"id":"GO:0000122","count":10},{"id":"GO:0006366","count":10},{"id":"GO:2000288","count":10}]},{"hash":"628128715266726076","title":"MAPK-ERK\u2013driven Synaptic Plasticity","description":"The cluster is dominated by GO terms tied to synaptic signaling and plasticity\u2014long-term potentiation, dopaminergic synaptic transmission, and visual learning\u2014with clear involvement of MAPK/ERK signaling (positive regulation of ERK cascade). Other terms (glucose response, immune responses, and heparan sulfate biosynthesis) appear less frequently and may reflect broader metabolic/immune associations with neural signaling, but the core theme centers on MAPK-regulated synaptic plasticity.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071333","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0015012","count":4},{"id":"GO:0014068","count":3},{"id":"GO:0060291","count":3}]},{"hash":"2156505191036937583","title":"RNA processing and translation initiation regulation","description":"The terms cluster around RNA maturation and control of translation: mRNA splicing and splice-site recognition, mRNA polyadenylation and stabilization, stress-related regulation of mRNA stability, and formation of the translation preinitiation complex. The inclusion of regulatory ncRNA-mediated gene silencing and translation initiation/termination steps supports a coherent theme of post-transcriptional RNA processing linked to translational control.","confidence":"High","size":27,"edges":350,"triangles":2900,"max_degree":26,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":17},{"id":"GO:0006378","count":16},{"id":"GO:0045292","count":15},{"id":"GO:0048026","count":11},{"id":"GO:0031047","count":11}]},{"hash":"685554250699737198","title":"Coagulation and tissue remodeling in development","description":"This cluster\u2019s top GO terms mix developmental processes (pancreas morphogenesis, midbrain development, multicellular organism growth) with ECM remodeling and coagulation/fibrinolysis activities (plasminogen activation, fibrinolysis regulation, elastin catabolic process, Factor XII activation). The common thread appears to be development-associated tissue remodeling linked to coagulation and fibrinolysis pathways, rather than a single narrow function.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein folding","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0035264","count":10},{"id":"GO:0061113","count":9},{"id":"GO:0031639","count":9},{"id":"GO:0050830","count":9}]},{"hash":"1890112545719621097","title":"Lung epithelial differentiation and EMT","description":"These proteins show a common emphasis on epithelial cell fate in the lung, with strong signals for lung epithelial differentiation and epithelial-to-mesenchymal transition (EMT), plus related tissue remodeling processes. While some terms touch on broader regulatory processes (DNA replication, calcium signaling, chromatin regulation), the dominant theme is epithelial differentiation and EMT, suggesting roles in lung development and epithelial plasticity.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060487","count":3},{"id":"GO:0051343","count":3},{"id":"GO:0007114","count":3},{"id":"GO:1905205","count":3},{"id":"GO:0001837","count":3}]},{"hash":"294262383130678206","title":"Diverse membrane transport of xenobiotics and metabolites","description":"The top GO terms overwhelmingly point to transmembrane transport across membranes for a broad set of substrates, including xenobiotics, vitamins, phosphate, ascorbate, sugars, urate, and ions like potassium. This pattern suggests a cohesive cluster of membrane transporter proteins with wide substrate specificity, rather than a single-substrate function. A single outlier term regarding replicative senescence is present but does not define the cluster\u2019s main theme. ","confidence":"High","size":27,"edges":89,"triangles":46,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":27},{"id":"GO:0035461","count":27},{"id":"GO:0042891","count":25},{"id":"GO:0006817","count":23},{"id":"GO:0019852","count":23}]},{"hash":"1235532622367342336","title":"Embryogenesis and organ morphogenesis regulators","description":"The top GO terms indicate early embryonic processes (primitive streak formation, transcription by RNA polymerase II, and transcriptional regulation) alongside diverse organ morphogenesis programs (eye development, pituitary gland development, lung morphogenesis, skeletal muscle development, peripheral nervous system development). This suggests a cluster of proteins that coordinate transcriptional control during embryogenesis and subsequent organ formation, justifying a label focused on embryogenesis and organ morphogenesis regulation.","confidence":"High","size":27,"edges":30,"triangles":3,"max_degree":11,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0090009","count":10},{"id":"GO:0006366","count":10},{"id":"GO:0048048","count":10},{"id":"GO:0048935","count":10}]},{"hash":"155602966256123587","title":"Metabolic Regulation and Stress Response","description":"The cluster centers on energy metabolism and stress adaptation, with terms highlighting fatty acid beta-oxidation, gluconeogenesis regulation, nitrogen utilization, and responses to starvation and cold. While there are a couple development-related terms (liver and post-embryonic development), the dominant pattern is metabolic processes tied to energy management and environmental responses, suggesting a cohesive metabolic-stress theme.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0071320","count":2},{"id":"GO:0019740","count":2},{"id":"GO:0033539","count":2},{"id":"GO:0001889","count":2}]},{"hash":"1021253111936198416","title":"Neural development and signaling","description":"This cluster centers on neural development and synaptic signaling, with terms like axonogenesis, long-term potentiation, and regulation of signaling cascades (GTPase activity, calcineurin-NFAT). While there are also terms related to heart and retinal cone cell development and glucocorticoid response, the dominant theme is signaling modulation and plasticity in the nervous system. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051384","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0046549","count":3},{"id":"GO:0051764","count":3}]},{"hash":"446518083457891250","title":"DNA replication and repair machinery","description":"Top GO terms are dominated by DNA maintenance: DNA repair, DNA replication, DNA recombination, and regulation of DNA-templated transcription, indicating genome maintenance as the core function. A couple of metabolic terms are present but less represented and likely incidental.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":3},{"id":"GO:0016126","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0006596","count":2}]},{"hash":"250237628926535991","title":"Neuronal signaling and sensory perception","description":"The top GO terms are dominated by neural functions: optic nerve morphogenesis, sensory perception of sound, locomotory behavior, GABA signaling, regulation of nerve impulses, and circadian sleep/wake regulation. These indicate proteins involved in neural development and, importantly, neuronal signaling and sensory processing, suggesting a coherent cluster of genes tied to sensory neuron function and neural communication.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021631","count":12},{"id":"GO:1901214","count":12},{"id":"GO:0050910","count":12},{"id":"GO:0007626","count":12},{"id":"GO:0007214","count":11}]},{"hash":"1500117608521056488","title":"Ribosome biogenesis and translation during cell division","description":"This cluster is enriched for ribosome-related processes (ribosome biogenesis, ribosomal large subunit export from nucleus, cytoplasmic translation, tRNA modification) and cell cycle activity (cell division, mitotic cell cycle), suggesting a cohesive group of proteins involved in ribosome assembly and protein synthesis linked to cell division. Some terms like neuron projection development and RNA editing may be incidental noise, but the dominant signal points to ribosome- and translation-centric functions with links to cell proliferation.","confidence":"High","size":27,"edges":25,"triangles":6,"max_degree":14,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0000055","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0000747","count":4}]},{"hash":"1530262685677477143","title":"Female reproductive development and prostaglandin biosynthesis","description":"The top GO terms strongly point to female reproductive development (female gonad development, uterus development, maternal process in parturition) and prostaglandin biosynthesis, suggesting a core theme centered on reproductive biology and prostaglandin signaling. Although there are xenobiotic metabolism terms in the mix (carbazole and dioxin catabolic processes), they appear less representative of the cluster\u2019s dominant function. Therefore, the label emphasizes reproductive development with prostaglandin involvement.","confidence":"Medium","size":27,"edges":113,"triangles":179,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":13},{"id":"GO:0046232","count":11},{"id":"GO:0008585","count":10},{"id":"GO:0070989","count":9},{"id":"GO:0060065","count":9}]},{"hash":"2109177677507758487","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0019076","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0039702","count":2},{"id":"GO:0030260","count":2}]},{"hash":"1978004697693046015","title":"Multimodal sensory perception signaling","description":"The top terms point to multiple sensory modalities (temperature/pain detection and smell) and related signaling pathways (cGMP, NO, ion transport, neuromodulatory processes). While some terms are broader (e.g., development or learning), the shared theme across the cluster is sensory perception coupled with downstream signaling, making this a coherent label for a cluster enriched in sensory detection and signaling functions.","confidence":"Medium","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050965","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0007608","count":2},{"id":"GO:0010754","count":2},{"id":"GO:0071321","count":2}]},{"hash":"111115800506241401","title":"Ubiquitin-mediated innate antiviral signaling","description":"This cluster is strongly enriched for innate immune response and defense against virus, with several ubiquitination-related terms (K63-linked ubiquitination, autoubiquitination) and positive regulation of canonical NF-kappaB signaling, all hallmark features of host antiviral signaling pathways. The inclusion of vitamin D response and suppression of viral release by host further supports an immune-modulatory role. The cytoskeletal terms (microtubule regulation, spindle assembly) may reflect related cellular processes during infection but do not override the central antiviral/ubiquitin theme.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":9},{"id":"GO:0051607","count":9},{"id":"GO:0070534","count":7},{"id":"GO:0033280","count":6},{"id":"GO:0043123","count":6}]},{"hash":"314326421489325909","title":"Gene Expression and Cell Cycle Regulation","description":"The cluster centers on transcription-related processes (DNA-templated transcription, mRNA processing) and cell-cycle control (G1/S transition, regulation of CDK activity), implying a group of proteins involved in gene expression and cell-cycle progression. While a few terms touch on other contexts (epithelial proliferation, viral genome suppression), the dominant GO terms point to transcriptional regulation and cell-cycle machinery.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0048265","count":2},{"id":"GO:0006397","count":2},{"id":"GO:2000775","count":1},{"id":"GO:0033598","count":1}]},{"hash":"580806468621840957","title":"Hypoxia-Responsive Transcription and Kinase Signaling","description":"The enriched terms point to stress-responsive signaling that boosts transcription (RNA Pol II) and regulates kinase activity, autophosphorylation, and GTPase signaling, along with cell cycle/proliferation under hypoxia. This hints at a cohesive module where hypoxic stress triggers kinase-driven transcriptional upregulation and coordinated cell cycle control.","confidence":"High","size":26,"edges":153,"triangles":285,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045944","count":8},{"id":"GO:0071456","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0031954","count":7},{"id":"GO:0051028","count":7}]},{"hash":"379383544778112943","title":"Cardiac muscle development and signaling","description":"The cluster is enriched for terms related to heart biology, including cardiac muscle contraction, ventricular cardiac muscle tissue morphogenesis, and fiber-type transitions, with supporting signals from calcineurin-NFAT and Rho pathways that govern cardiac gene expression and development. Angiogenesis and apoptotic regulation may reflect heart tissue vascularization and survival, reinforcing a cardiac focus. ","confidence":"High","size":26,"edges":4,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070886","count":8},{"id":"GO:0008585","count":7},{"id":"GO:0043065","count":6},{"id":"GO:0006470","count":5},{"id":"GO:0001525","count":5}]},{"hash":"718417860619005487","title":"Neural development and signaling","description":"This cluster is enriched for neural-related processes: retina development, prepulse inhibition, regulation of acetylcholine metabolism, and signaling regulators like GTPase activity and PKA. While there are immune-related terms present (defense against bacteria and inflammatory regulation) and thymocyte differentiation, the neural-development and signaling terms are most prominent, supporting a neural-centric interpretation of the cluster.","confidence":"Medium","size":26,"edges":82,"triangles":73,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008283","count":23},{"id":"GO:0008284","count":23},{"id":"GO:0060041","count":23},{"id":"GO:0043547","count":23},{"id":"GO:0060134","count":21}]},{"hash":"892770409326735165","title":"Neural development and axon guidance","description":"The cluster shows multiple GO terms tied to nervous system development and connectivity, including neural crest migration, cerebellar Purkinje cell layer development, facial nerve organization, axon extension and guidance, and presynaptic membrane organization, with some sensory differentiation terms (neuromast hair cells). A few terms (e.g., cellular response to lipopolysaccharide, intestinal cholesterol absorption) appear as outliers, but the dominant theme is neural development and neural connectivity.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":2},{"id":"GO:1902946","count":2},{"id":"GO:1901166","count":2},{"id":"GO:0021680","count":2},{"id":"GO:0021612","count":2}]},{"hash":"2176735422313421500","title":"Ubiquitin-Dependent Antiviral Innate Immunity","description":"This cluster centers on ubiquitination processes (autoubiquitination, K63-linked ubiquitination, polyubiquitination) and related proteolysis, together with antiviral defense and innate immune signaling (NF-kappaB). The convergence of ubiquitin modification with defense responses to viruses and innate immune pathways suggests proteins that regulate antiviral signaling via ubiquitin tagging and degradation, making this an apt, cohesive label.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":11},{"id":"GO:0070534","count":8},{"id":"GO:0000209","count":8},{"id":"GO:0051607","count":8},{"id":"GO:0045087","count":8}]},{"hash":"1380061347676457092","title":"Growth control and differentiation signaling","description":"The cluster is enriched for cell cycle and growth-regulating pathways (mitotic cell cycle; Hippo and Wnt signaling), together with differentiation and apoptotic processes (keratinocyte differentiation; apoptosis). Visual perception is prominent, which may reflect retina-related components within a broader growth-control program. Overall, this set appears to coordinate proliferation, fate specification, and nuclear transport in development.","confidence":"Medium","size":26,"edges":142,"triangles":430,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":18},{"id":"GO:0007601","count":18},{"id":"GO:0046827","count":17},{"id":"GO:0033160","count":17},{"id":"GO:0035329","count":16}]},{"hash":"1169681579794978631","title":"RNA Splicing and Translation Regulation","description":"The cluster is dominated by post-transcriptional RNA processing terms: multiple splicing-related GO terms (spliceosome-mediated splicing, splice site recognition, and regulation of splicing), mRNA export and stability, as well as translation initiation/reinitiation and ncRNA-mediated gene silencing. Together these suggest a cohesive role in coordinating RNA maturation and subsequent translation, rather than a single transcriptional function.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":9},{"id":"GO:0001731","count":9},{"id":"GO:0002188","count":9},{"id":"GO:0006378","count":9},{"id":"GO:0045292","count":9}]},{"hash":"1542242561734772118","title":"Genome Maintenance and Tissue Morphogenesis","description":"The top terms include DNA recombination and base-excision repair, pointing to genome maintenance, while tissue morphogenesis and cell adhesion-related terms suggest developmental/tissue organization roles. The presence of xenobiotic response hints at broader stress handling, but the most cohesive theme is genome maintenance combined with tissue development processes.","confidence":"Medium","size":26,"edges":109,"triangles":119,"max_degree":14,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":7},{"id":"GO:0007568","count":6},{"id":"GO:0006284","count":6},{"id":"GO:0042493","count":6},{"id":"GO:0048729","count":5}]},{"hash":"1651330980753470272","title":"Actin Remodeling and GTPase Signaling in Endothelial\u2013Immune Regulation","description":"This cluster centers on actin cytoskeleton organization and small GTPase\u2013mediated signaling, which drive cytoskeletal remodeling, membrane repair, and signal transduction. The presence of terms related to neutrophil degranulation, extravasation, and vascular remodeling suggests coordinated regulation of endothelial and immune cell interactions, with cross-talk from insulin/IGF signaling. The label captures the core themes of cytoskeletal dynamics and signaling in vascular and immune contexts.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060313","count":4},{"id":"GO:0043314","count":4},{"id":"GO:0048009","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1047091231182316878","title":"Stress Response and Core Cellular Processes","description":"This cluster is dominated by stress-related GO terms (response to stress) and also includes core cellular functions (translation, DNA replication and recombination, cell growth) along with bacterial-specific processes (peptidoglycan biosynthesis, arginine methylation). The presence of dormancy-related term supports a link to stress-induced or symbiont dormancy states. Although one term (brain development) is less consistent, the overall pattern points to cells adjusting to stress while maintaining essential cellular machinery. The lack of network edges suggests mostly parallel or co-regulated roles rather than direct interactions, but the recurring themes align well with a coherent stress-and-core-function cluster.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006950","count":6},{"id":"GO:0085014","count":6},{"id":"GO:0007420","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0006412","count":3}]},{"hash":"1513514954508300133","title":"Neuroendocrine-immune regulation","description":"The cluster's top GO terms center on nervous system signaling (neuropeptide signaling, pain perception, acetylcholine regulation) and endocrine control (insulin secretion, regulation of kinase activity), with immune/inflammatory terms (defense response to bacterium, inflammatory regulation). This pattern suggests proteins involved in cross-talk among nervous, endocrine, and immune systems rather than a single pathway, so a neuroendocrine-immune regulatory theme fits best.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007218","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0007596","count":8},{"id":"GO:0060134","count":7},{"id":"GO:2000479","count":7}]},{"hash":"129558342308202208","title":"Hemostasis and Fibrinolysis Regulation","description":"This cluster centers on coagulation and fibrinolysis processes (blood coagulation, plasminogen activation, fibrinogen regulation, Factor XII activation) with vascular remodeling and immune interaction signals (lectin pathway complement activation, LPS response), suggesting a cohesive role in hemostasis with inflammatory links.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030194","count":8},{"id":"GO:0007596","count":8},{"id":"GO:0031214","count":7},{"id":"GO:0051919","count":7},{"id":"GO:0002542","count":7}]},{"hash":"1481928879430578179","title":"Cardiac Electrical Signaling and Muscle Remodeling","description":"Top GO terms point to cardiac electrical activity (regulation of SA node cell action potential; positive regulation of cell communication by electrical coupling) and muscle-related remodeling (actin filament bundle assembly; skeletal muscle tissue regeneration). While some terms are broader or less specific (pain response, NF-kappaB sequestration), the highlighted terms collectively describe signaling and structural changes relevant to heart and muscle tissue, supporting this label as a concise summary of the cluster\u2019s core functions.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098907","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0048265","count":4},{"id":"GO:0035556","count":4},{"id":"GO:0097284","count":4}]},{"hash":"583537181093233243","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0043123","count":7},{"id":"GO:0051092","count":7},{"id":"GO:0051607","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0035372","count":5}]},{"hash":"2211757447889429858","title":"Leukocyte signaling and motility","description":"This cluster is dominated by immune-related signaling pathways (B cell receptor signaling, NK cell\u2013mediated cytotoxicity, neutrophil chemotaxis, integrin signaling) and cytoskeletal remodeling processes (Rho signaling, lamellipodium assembly), pointing to a cohesive theme of leukocyte communication and movement. Some DNA-replication/repair terms appear in the list but are not clearly central to the shared function, suggesting they may be less representative annotations.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0015074","count":4},{"id":"GO:0051092","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0035023","count":3}]},{"hash":"1480864205495730935","title":"Neuroendocrine-immune signaling","description":"This cluster emphasizes brain-related processes (prepulse inhibition, acetylcholine regulation, GABAergic interneuron migration, brain renin-angiotensin system) alongside endocrine (insulin secretion regulation) and immune/metabolic functions (defense against bacteria, inflammatory regulation, electron transport chain, thymocyte differentiation), pointing to a neuroendocrine-immune axis with metabolic support.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060134","count":25},{"id":"GO:2000479","count":25},{"id":"GO:0042742","count":25},{"id":"GO:0050728","count":25},{"id":"GO:1904156","count":25}]},{"hash":"2113280094853664170","title":"Neuroimmune development and signaling","description":"This cluster is enriched for both immune-related GO terms (T cell receptor signaling, TH1 immune response) and neural development/function terms (hippocampus development, dendritic spine morphogenesis, dopamine response), suggesting proteins involved in neuroimmune communication and neural development. The presence of JNK cascade regulation and mechanosensitive signaling hints at shared signaling pathways across immune and neural contexts.","confidence":"Medium","size":25,"edges":14,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":10},{"id":"GO:0007399","count":10},{"id":"GO:0046330","count":10},{"id":"GO:0042088","count":9},{"id":"GO:0061001","count":9}]},{"hash":"736105702293384665","title":"Ribosome Biogenesis and Translation","description":"The cluster prominently features GO terms for translation, ribosome biogenesis, and maturation/processing of SSU and LSU rRNA, plus large subunit assembly. Together these point to proteins involved in ribosome assembly and RNA processing essential for ribosome function; the RNA surveillance term supports a broader RNA-quality control context around ribosome biogenesis.","confidence":"High","size":25,"edges":40,"triangles":52,"max_degree":10,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0042254","count":7},{"id":"GO:0000462","count":5},{"id":"GO:0000463","count":4},{"id":"GO:0042273","count":4}]},{"hash":"1748461145282857181","title":"Developmental Signaling and Differentiation","description":"The proteins appear to participate across multiple signaling cascades (PDGF receptor signaling, T cell receptor signaling, STAT tyrosine phosphorylation, JUN phosphorylation) and developmental processes (skeletal muscle development, myoblast differentiation, hippocampus development), with additional hints of nitric oxide response and cell cycle regulation. This suggests a shared role in signaling pathways that govern cell fate decisions and tissue development across different lineages, rather than a single, narrow function.","confidence":"Medium","size":25,"edges":258,"triangles":1492,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010641","count":25},{"id":"GO:0050852","count":25},{"id":"GO:0042523","count":25},{"id":"GO:0071732","count":25},{"id":"GO:0007519","count":25}]},{"hash":"2286876639331241446","title":"Embryonic and Organ Development Across Systems","description":"The top GO terms point to diverse developmental and morphogenetic programs across multiple tissues (eye/retina, heart/outflow tract, placenta, bone, muscle, brain structures like the habenula) plus general transcriptional activity, indicating the cluster groups proteins involved in broad organogenesis rather than a single pathway.","confidence":"High","size":25,"edges":121,"triangles":317,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060041","count":8},{"id":"GO:0002076","count":8},{"id":"GO:0002087","count":8},{"id":"GO:0006366","count":8},{"id":"GO:0003148","count":8}]},{"hash":"940714033626726930","title":"Immune Activation and Cytokine Regulation","description":"The top GO terms center on regulation of inflammatory cytokines (IL-1\u03b2, IFN-\u03b1), dendritic cell differentiation, neutrophil clearance, and steroid hormone response, plus a general transcription elongation process. This pattern points to a module involved in immune signaling and transcriptional control during immune activation, with cytokine production and immune cell differentiation as core themes. Confidence: Medium","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050718","count":3},{"id":"GO:0006368","count":2},{"id":"GO:0032727","count":2},{"id":"GO:2001200","count":2},{"id":"GO:0003308","count":2}]},{"hash":"285611857751412066","title":"Adherens junctions and synaptic localization","description":"Top GO terms cluster around adherens and tight junction assembly and protein localization to synapses, indicating a shared role in junction organization and neural connectivity. Some terms touch on signaling and behavior, but the dominant theme is the formation and targeting of cell-cell junctions in neural contexts.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044387","count":2},{"id":"GO:0006470","count":2},{"id":"GO:0070830","count":2},{"id":"GO:0071625","count":2},{"id":"GO:0051660","count":2}]},{"hash":"140771945154473062","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":10},{"id":"GO:1903762","count":9},{"id":"GO:1901253","count":9},{"id":"GO:0042787","count":8},{"id":"GO:0061158","count":8}]},{"hash":"234119115238711320","title":"Mitotic Regulation and Telomere Maintenance","description":"This cluster is dominated by terms related to the mitotic cell cycle, regulation of telomere maintenance via telomerase/capping, and associated proliferative and signaling processes (e.g., GTPase activity, kinase activity, development). The combination suggests a cohesive theme around cell division control, telomere biology, and growth signaling, with supportive roles in development and stress responses. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0032212","count":5},{"id":"GO:1904355","count":5},{"id":"GO:0007275","count":5}]},{"hash":"1652706464098039171","title":"Unknown","description":"These GO terms cover diverse biological areas\u2014defecation rhythm regulation, foregut morphogenesis, germarium-derived cyst formation, ion transport, protein hexamerization, and immune signaling\u2014without a unifying process. The absence of edges and triangles suggests the proteins do not form a single cohesive module, so no coherent function ties the cluster together. Therefore the appropriate label is Unknown.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:2000746","count":3},{"id":"GO:0010496","count":3},{"id":"GO:0034214","count":3},{"id":"GO:0007440","count":3},{"id":"GO:0050717","count":3}]},{"hash":"187458488169977697","title":"Wnt antagonism in neural development and cell migration","description":"The cluster centers on regulatory processes in neural development (neural plate development) and patterns of cell behavior such as migration and adhesion, with a notable emphasis on negative regulation of canonical Wnt signaling and modulation of signaling pathways (GTPase activity) and nuclear import. This combination suggests proteins involved in shaping neural tissue through controlled signaling and cellular movement.","confidence":"Medium","size":25,"edges":86,"triangles":150,"max_degree":19,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0015991","count":11},{"id":"GO:0008285","count":10},{"id":"GO:0090090","count":10},{"id":"GO:0016477","count":10},{"id":"GO:0043547","count":10}]},{"hash":"1686817301572480176","title":"Kidney development and cholesterol metabolism","description":"The cluster's top GO terms center on cholesterol metabolic processes and cholesterol homeostasis, coupled with kidney development and metanephros-related differentiation (e.g., cell differentiation in kidney development, metanephros development, cholesterol absorption). This suggests proteins involved in cholesterol handling within kidney development contexts, rather than a single isolated pathway, making \"Kidney development and cholesterol metabolism\" a concise, representative label.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008203","count":5},{"id":"GO:0061005","count":5},{"id":"GO:0010157","count":5},{"id":"GO:0021997","count":5},{"id":"GO:0010875","count":5}]},{"hash":"1058966574250250083","title":"Embryonic organ morphogenesis and transcriptional regulation","description":"The top GO terms point to broad embryonic development and organ morphogenesis across midbrain, eye, pancreas, placenta, pituitary, and outflow tract structures, indicating proteins involved in shaping tissues during development. A core regulatory signal is negative regulation of transcription by RNA polymerase II, suggesting transcriptional control in these developmental processes. While there is some peripheral activity related to immune response and myoblast proliferation, the dominant theme is embryonic organ morphogenesis and associated transcriptional regulation.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0030901","count":13},{"id":"GO:0048048","count":9},{"id":"GO:0032496","count":9},{"id":"GO:0035264","count":9}]},{"hash":"247673102672482856","title":"Cardiac electrical signaling and muscle regeneration","description":"This cluster is driven by terms pointing to heart-specific signaling (regulation of SA node action potential, electrical coupling) and skeletal muscle regeneration, with supporting signaling pathway and GTPase activity terms. While a few terms (pinocytosis, CDK regulation, cold response) are broader, the cardiac and muscle-related terms dominate the functional theme.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":6},{"id":"GO:0098907","count":5},{"id":"GO:0048549","count":5},{"id":"GO:0007049","count":5},{"id":"GO:0043547","count":4}]},{"hash":"1951467274237677685","title":"Neural signaling and memory plasticity","description":"The cluster centers on neuronal functions: excitatory postsynaptic potentials, calcium and potassium ion transport, and myelination in the PNS, alongside terms like long-term memory, amphetamine response, and thyroid hormone metabolism, which align with neural signaling and plasticity. NF-kappaB signaling can relate to activity-dependent transcription, supporting plastic changes. A few terms (mitotic cell cycle) are less neuron-specific and could reflect proliferative glial or housekeeping processes, but the dominant theme is neural signaling and memory-related processes.","confidence":"Medium","size":24,"edges":11,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0001975","count":2},{"id":"GO:0042403","count":2},{"id":"GO:0007616","count":2}]},{"hash":"927785695637742516","title":"Developmental morphogenesis and patterning","description":"Top GO terms are dominated by embryonic development and morphogenesis (spermatogenesis, blastocyst development, left-right pattern formation, organ development) with supporting roles for vesicle trafficking and glycosaminoglycan biosynthesis, suggesting a cohesive theme of developmental morphogenesis and tissue patterning.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007283","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0001824","count":2},{"id":"GO:1904938","count":1},{"id":"GO:0048105","count":1}]},{"hash":"1137898584013386872","title":"Unknown","description":"The top terms are mixed across neural development and synaptic signaling (long-term potentiation, forebrain development, neural tube closure) and broad cellular processes (DNA replication/transcription, mitotic cell cycle), plus stress-induced apoptosis, skeletal development, and immune defense. There is no single dominant function tying all proteins together, and the cluster has no edges, suggesting no cohesive theme. Hence Unknown with None. ","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060291","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0001403","count":5},{"id":"GO:0001843","count":5},{"id":"GO:0070059","count":5}]},{"hash":"1573827763053451717","title":"Retroviral genome integration and latency","description":"Top GO terms cluster around reverse transcription, DNA integration, replication, and proviral latency, with explicit references to viral entry into the host nucleus and establishment of integrated proviral latency. The presence of related host defense terms (e.g., negative regulation of siRNA processing) further supports a retroviral life cycle and genome maintenance theme. This combination makes a cohesive, specific label: retroviral genome integration and latency.","confidence":"High","size":24,"edges":5,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006278","count":6},{"id":"GO:0015074","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0046718","count":4},{"id":"GO:0039651","count":4}]},{"hash":"747551654909082460","title":"Innate immune response and neuroimmune signaling","description":"The cluster is characterized by strong enrichment for innate immune and antiviral defense GO terms\u2014response to lipopolysaccharide, defense against Gram-positive bacteria, response to exogenous dsRNA, and positive regulation of interferon-beta production\u2014plus innate immune response overall. A few terms related to neural development or signaling (synapse assembly, corpus callosum development, dopamine response) suggest neuroimmune interactions. Taken together, it reflects innate immune activity with possible neural context.","confidence":"Medium","size":24,"edges":12,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032298","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0043330","count":2},{"id":"GO:0014068","count":2}]},{"hash":"576713338928970380","title":"Neural signaling and sensory processing","description":"The top GO terms show a strong emphasis on neural signaling and sensory functions: regulation of ERK cascade, visual perception, dopamine uptake in synaptic transmission, and locomotory behavior, along with potassium transport relevant to neuronal excitability. While there are some immune-related terms, the dominant theme points to neuron signaling and sensory processing as the core of this cluster.","confidence":"Medium","size":24,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":6},{"id":"GO:0007601","count":6},{"id":"GO:0051586","count":5},{"id":"GO:0008283","count":5},{"id":"GO:0010513","count":5}]},{"hash":"1651670092718055558","title":"Translation and ribosome biogenesis","description":"This cluster shows strong enrichment for translation-related processes (translation, ribosome biogenesis, translational initiation/termination, and regulation of cytoplasmic translation), with selenocysteine incorporation tied to translation; other terms appear incidental.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0042254","count":4},{"id":"GO:0015074","count":4},{"id":"GO:0001514","count":4},{"id":"GO:2000767","count":4}]},{"hash":"825306811233746798","title":"Membrane Transporters for Xenobiotics and Nutrients","description":"The cluster is dominated by transmembrane transport GO terms, including xenobiotic transport, vitamin transport, potassium ion transport, phosphate transport, and uptake of sugars like fructose and ascorbate, indicating a group of membrane transporter proteins with broad substrate specificity. A single outlier term about replicative senescence likely reflects incidental annotation rather than a core function. ","confidence":"High","size":24,"edges":6,"triangles":0,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006855","count":21},{"id":"GO:0035461","count":21},{"id":"GO:0071805","count":17},{"id":"GO:0042908","count":17},{"id":"GO:0042891","count":17}]},{"hash":"1310502511333304205","title":"Immune signaling and antigen processing","description":"The cluster is enriched for immune-related GO terms: T cell receptor signaling, stimulatory C-type lectin receptor signaling, and antigen processing and presentation via MHC class I (TAP-dependent). Also present are deubiquitination and non-canonical NF-kappaB signaling, suggesting regulation of immune signaling by ubiquitin processes. Some terms (cadmium response, APC/C, hypoxia-related) are less central but do not override the core immune theme.","confidence":"Medium","size":24,"edges":275,"triangles":2002,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":11},{"id":"GO:0038061","count":8},{"id":"GO:0046686","count":7},{"id":"GO:0031145","count":7},{"id":"GO:0002479","count":7}]},{"hash":"1967862233977419731","title":"Retrotransposons and Proviral Integration","description":"The top GO terms cluster around DNA-level mobility and integration, including DNA integration, recombination, transposition (DNA and retrotransposition), and proviral latency/entry into the nucleus, suggesting activity of transposable elements and endogenous viral elements. Immune signaling terms (IL-12 response, non-canonical NF-kB) imply host responses linked to viral elements. Overall, the cluster seems centered on retroelement/proviral dynamics and their interaction with host pathways.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":4},{"id":"GO:0046718","count":3},{"id":"GO:0039651","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0075732","count":3}]},{"hash":"1556031258591080338","title":"Developmental Metabolism and Translation","description":"This cluster centers on developmental processes (heart and liver development, post-embryonic development) and metabolic activities (fatty acid beta-oxidation, transmembrane ion transport), with a core protein synthesis component (translation) and stress responses (starvation and cold). Together these terms suggest proteins that coordinate organ development with energy metabolism and protein production, rather than a single narrow function.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0042594","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0099132","count":2}]},{"hash":"1203740662641748935","title":"Mitochondrial metabolism and cell-cycle regulation","description":"The terms most represented connect to mitochondrial function (membrane potential regulation, pyrimidine nucleotide import into mitochondrion, pyridoxal phosphate transport) and to cell-cycle control (mitotic cell cycle, G2/M transition). Other terms (protein dephosphorylation, cellular response to xenobiotic stimulus) suggest broader regulatory roles but do not override the central mitochondrial-cell-cycle theme. Thus, the cluster appears to group proteins involved in mitochondrial metabolism linked to cell-cycle regulation, though with some functional noise.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097274","count":7},{"id":"GO:0000278","count":6},{"id":"GO:0006470","count":6},{"id":"GO:0021762","count":5},{"id":"GO:0035690","count":5}]},{"hash":"2108483405543137031","title":"Oxidative detox and stress-response signaling","description":"The GO terms cluster around antioxidant defense and detoxification (cellular oxidant detoxification; glutathione metabolic process) and responses to toxic stimuli, coupled with hormonal and metabolic stress signals (glucocorticoid, insulin, prostaglandin biosynthesis, ascorbic acid). This suggests a coherent theme of oxidative stress defense linked to hormone- and metabolism-related signaling, rather than a single linear pathway.","confidence":"Medium","size":24,"edges":275,"triangles":2002,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":19},{"id":"GO:2000255","count":16},{"id":"GO:0001516","count":15},{"id":"GO:0006749","count":15},{"id":"GO:0033591","count":14}]},{"hash":"1031665893482677848","title":"RNA processing and translation machinery","description":"This cluster is driven by RNA metabolism and protein synthesis terms: mRNA splicing, polyadenylation, stabilization, translation initiation and overall translation, plus ribosome assembly and cell cycle signals. An innate immune term is present but not dominant, suggesting the core theme centers on RNA processing and translation machinery, with some association to cell division.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0048255","count":2}]},{"hash":"1306798928658889743","title":"Neuronal axon guidance and projection development","description":"The cluster is dominated by GO terms tied to axon guidance and neuronal projection, including axonal fasciculation, neuron projection development, branchiomotor and sympathetic neuron axon guidance, and semaphorin-plexin signaling. BMP signaling and regulation of Rho pathways further point to cytoskeletal dynamics and neural development, while cell adhesion supports connectivity. A stress response term is likely incidental noise. Overall, the proteins appear to function in guiding axons and establishing neural projections.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007413","count":4},{"id":"GO:0007155","count":3},{"id":"GO:0031175","count":3},{"id":"GO:0030509","count":3},{"id":"GO:0035023","count":3}]},{"hash":"538144849682873609","title":"RNA processing and DNA replication machinery","description":"The cluster highlights RNA-related modifications (rRNA methylation, mRNA capping) and protein methylation, alongside DNA replication, suggesting a core role in nucleic acid metabolism and gene expression; other terms like antibiotic biosynthesis and stress responses appear as secondary signals, with karyogamy reflecting a potential fungal context but not defining the main function.","confidence":"Medium","size":23,"edges":46,"triangles":46,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0017000","count":5},{"id":"GO:0035690","count":5},{"id":"GO:0031167","count":5},{"id":"GO:0006260","count":4},{"id":"GO:0070389","count":4}]},{"hash":"2194934510360502541","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":20,"triangles":0,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006477","count":6},{"id":"GO:0006068","count":6},{"id":"GO:0048702","count":6},{"id":"GO:0015015","count":6},{"id":"GO:0015012","count":6}]},{"hash":"1684412250504264974","title":"Retroviral Integration and Latency","description":"The top GO terms form a coherent retroviral life cycle theme: DNA integration, replication, and recombination, plus RNA-templated DNA biosynthesis (reverse transcription) and the establishment of integrated proviral latency. Additional terms about symbiont entry into host cells and viral penetration into the host nucleus, along with host responses like apoptosis and oxidative stress, together point to virus\u2013host interactions centered on viral genome integration and latency.","confidence":"High","size":23,"edges":42,"triangles":28,"max_degree":11,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0006310","count":6},{"id":"GO:0046718","count":4},{"id":"GO:0039651","count":4}]},{"hash":"1867028308541282168","title":"GPCR Signaling and Cellular Stress Responses","description":"The top GO terms center on signaling through G protein-coupled receptors, including dopamine response and mechanical-stimulus sensing, with concurrent cellular stress and trafficking processes such as ER stress and retrograde transport. Cell cycle and kinase activity regulation appear alongside, suggesting a broader signaling/trafficking network that can intersect development and immune signaling. Overall, this cluster seems best described as a GPCR-driven signaling and stress-response module rather than a single, narrow pathway.","confidence":"Medium","size":23,"edges":35,"triangles":10,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042088","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0006469","count":3},{"id":"GO:0001822","count":3}]},{"hash":"279719407211463573","title":"Neural signaling and brain metabolism","description":"This cluster is dominated by neural-related GO terms: prepulse inhibition, acetylcholine regulation, GABAergic interneuron migration, and cerebral cortex involvement, suggesting a theme of neural signaling and development. Supporting terms include regulation of PKA activity and insulin secretion, pointing to signaling pathways and metabolic regulation in neural contexts, plus electron transport chain indicating neuronal energy needs. A few immune-related terms appear (defense response to bacterium, inflammatory regulation, thymocyte differentiation), which may reflect gene pleiotropy or cross-talk but do not override the primary neural theme. Overall, the cluster appears to reflect neural signaling/development with metabolic context.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060134","count":18},{"id":"GO:2000479","count":18},{"id":"GO:0042742","count":18},{"id":"GO:0050728","count":18},{"id":"GO:1904156","count":18}]},{"hash":"380508063808863444","title":"Membrane Solute and Vesicular Transporters","description":"This cluster is dominated by GO terms for transmembrane transport of diverse solutes (sugars like galactose and fucose, sialic acid, ions like potassium and phosphate, vitamins) and a vesicular process related to loading neurotransmitters into synaptic vesicles. The common thread is membrane transporter activity and vesicle-associated transport, with one outlier term (visual learning) that is not directly tied to transport. ","confidence":"Medium","size":23,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0015739","count":3},{"id":"GO:0008542","count":3},{"id":"GO:1900754","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0035435","count":2}]},{"hash":"1937148573165555956","title":"Ribosome biogenesis and translational regulation","description":"The cluster shows strong enrichment for ribosome biogenesis, rRNA maturation, formation of the translation preinitiation complex, translation reinitiation, and regulation of translational initiation, with supporting signals from rRNA methylation. These together point to a cohesive role in ribosome assembly and control of protein synthesis, despite a few ancillary RNA processing terms. Confidence: High","confidence":"","size":23,"edges":242,"triangles":1556,"max_degree":22,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":5},{"id":"GO:0001731","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0036265","count":4},{"id":"GO:0000466","count":4}]},{"hash":"992797510294534164","title":"Retroviral lifecycle and proviral latency","description":"GO terms point to retroviral infection steps: entry into the host, reverse transcription (RNA-templated DNA synthesis), DNA integration, and establishment of proviral latency, with associated host\u2013pathogen interaction terms. This combination strongly suggests proteins involved in the retroviral life cycle rather than ordinary cellular processes, despite some peripheral terms. ","confidence":"High","size":23,"edges":20,"triangles":1,"max_degree":18,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0015074","count":4},{"id":"GO:0046718","count":4},{"id":"GO:0039651","count":4},{"id":"GO:0075713","count":4}]},{"hash":"269485935777841470","title":"Amino acid and cofactor biosynthesis","description":"The cluster\u2019s top GO terms cluster around biosynthesis and metabolism of small molecules and cofactors (antibiotic biosynthesis, biotin biosynthesis, protoporphyrinogen IX for heme biosynthesis, menaquinone biosynthesis) as well as amino acid catabolic pathways (L-alanine, L-kynurenine). Notch signaling appears as an outlier, suggesting the core theme is metabolic pathways rather than a single signaling process. Confidence: Medium","confidence":"","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":10},{"id":"GO:0007219","count":9},{"id":"GO:0042853","count":9},{"id":"GO:0097053","count":9},{"id":"GO:0019878","count":7}]},{"hash":"145489254682450823","title":"Transmembrane Transport and Metabolic Processes","description":"The top GO terms are dominated by various transmembrane transport activities (sodium, phosphate, vitamin, nitrate, 4-hydroxyphenylacetate transport) and related metabolic processes (fucose metabolism), with a few immune terms as less central signals. This points to a common theme of membrane transporters linked to metabolism, rather than a single, cohesive immune function. Confidence: Medium","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0030299","count":3},{"id":"GO:0098700","count":2}]},{"hash":"1444562597294502497","title":"Neuronal signaling and circadian rhythm regulation","description":"The top GO terms are dominated by neural activity and signaling (potassium and calcium ion transport, regulation of action potential, GABA signaling, startle response) with accompanying circadian sleep/wake cycle terms (non-REM and REM) and optic nerve morphogenesis, suggesting a cohesive cluster of neural signaling tied to circadian regulation. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":20},{"id":"GO:0098703","count":20},{"id":"GO:0045188","count":20},{"id":"GO:0001964","count":20},{"id":"GO:0007214","count":18}]},{"hash":"749398599181910537","title":"Neural development and GABA signaling","description":"The top GO terms cluster around nervous system development and GABAergic synaptic transmission, suggesting proteins involved in neuronal differentiation and inhibitory synaptic signaling. Additional terms such as ERK cascade regulation and vesicle trafficking support a neuronal signaling theme, while some terms (mitotic cell cycle and ossification) may reflect broader developmental processes or incidental annotations. Overall, the cluster most coherently aligns with neural development and synaptic activity.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006890","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0090307","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0008283","count":4}]},{"hash":"1090807666277790156","title":"Unknown","description":"The top GO terms are highly diverse, spanning inflammatory response, nucleotide and CDP metabolism, mitochondrial DNA replication, apoptosis regulation, renal system processes, pain-related behavior, and even meiotic division. There is no single coherent biological theme linking these functions, and the cluster has no edges or connectivity to suggest a unified pathway, so no meaningful, specific label can be assigned.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":4},{"id":"GO:0006240","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0006264","count":3},{"id":"GO:0046704","count":3}]},{"hash":"427691104597997791","title":"Development and Immune Signaling","description":"The top GO terms span heart and nervous system development, GI epithelium maintenance, innate immunity and cytokine production, and signaling cascades (Rho and ERK). This points to proteins involved in developmental processes that also participate in immune signaling and cellular signaling regulation, rather than a single narrow function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0035973","count":2},{"id":"GO:0001666","count":2},{"id":"GO:0002374","count":2}]},{"hash":"1051242159930500825","title":"RNA Pol II Transcription Regulators","description":"The top GO terms are dominated by transcription by RNA polymerase II and negative regulation of Pol II transcription, suggesting a core of transcriptional regulatory proteins. Other terms (xenobiotic response, development-related processes, and metabolism) indicate broader regulatory roles across signaling and development, but the strongest signal points to transcriptional control.","confidence":"Medium","size":22,"edges":230,"triangles":1520,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0042493","count":6},{"id":"GO:0006366","count":6},{"id":"GO:0060303","count":5},{"id":"GO:0030245","count":5}]},{"hash":"517571128961258454","title":"RNA processing and translational control","description":"This cluster is dominated by terms for translation initiation and reinitiation, along with multiple RNA processing steps (splicing, polyadenylation) and mRNA stability/regulation, including stress responses and viral translation. The shared theme is RNA metabolism coupled to control of translation, making this label representative.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":12},{"id":"GO:0002188","count":12},{"id":"GO:0006378","count":11},{"id":"GO:0048026","count":10},{"id":"GO:0031047","count":10}]},{"hash":"2160332668173408294","title":"Unknown","description":"The terms span transcription, stress responses (redox, antibiotic, hypoxia), development (neural tube closure, sporulation), metabolism, signaling, and protein turnover, with no cohesive theme linking them. This makes a single intuitive label difficult, so the appropriate choice is Unknown with no confidence.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0006351","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0001666","count":2},{"id":"GO:0030435","count":2}]},{"hash":"255448671030077664","title":"miRNA/siRNA Processing and Gene Silencing","description":"The cluster centers on RNA processing and gene silencing, with multiple terms for miRNA/siRNA processing and ncRNA-mediated silencing plus mRNA capping, indicating involvement in RNA maturation and RNA interference pathways. A couple of terms related to energy homeostasis and presynaptic assembly are peripheral to the main theme.","confidence":"Medium","size":22,"edges":30,"triangles":8,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010801","count":3},{"id":"GO:0006370","count":3},{"id":"GO:0030422","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0031053","count":3}]},{"hash":"1254459871929545092","title":"Unknown","description":"The terms span a broad mix of processes\u2014from neuronal signaling (calcium channel regulation, synaptic vesicle recycling, GPCR internalization) to development (face morphogenesis), immunity, and organelle inheritance. Because there isn\u2019t a single coherent biological theme linking these terms, a specific functional label isn\u2019t supported. ","confidence":"","size":22,"edges":25,"triangles":2,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:1901387","count":4},{"id":"GO:0060325","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0000001","count":2},{"id":"GO:0048662","count":2}]},{"hash":"636657804356953931","title":"Chromatin organization during replication and gametogenesis","description":"These proteins cluster around chromatin dynamics: localization to chromatin, replication-coupled chromatin assembly, transcription-coupled remodeling, heterochromatin formation, and cohesion maintenance, with contributions to oogenesis and spermatid development. The clear emphasis on chromatin structure and gamete development supports a label focusing on chromatin organization tied to meiosis/gametogenesis.","confidence":"High","size":22,"edges":226,"triangles":1442,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0071169","count":18},{"id":"GO:0006335","count":18},{"id":"GO:0051290","count":18},{"id":"GO:0000183","count":18},{"id":"GO:0045815","count":18}]},{"hash":"2054133441636188796","title":"Lipid Biosynthesis and Fatty Acid Metabolism","description":"The top GO terms cluster around lipid metabolism, with multiple entries for fatty acid biosynthesis, long-chain and very long-chain fatty acid metabolism, and lipoteichoic acid biosynthesis, suggesting a core function in lipid synthesis and lipid-associated processes. Several plant-specific or non-lipid terms (seed coat development, seed germination, bioluminescence, siderophore biosynthesis) appear as outliers, likely from cross-species annotations, but do not override the primary lipid-centric signal.","confidence":"High","size":22,"edges":48,"triangles":20,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070395","count":10},{"id":"GO:0010214","count":9},{"id":"GO:0010030","count":9},{"id":"GO:0044539","count":9},{"id":"GO:0090410","count":9}]},{"hash":"49653352852328164","title":"Calcium-Dependent Signaling Across Tissues","description":"The cluster is dominated by GO terms tied to calcium signaling, including detection of calcium ions, positive regulation of the calcineurin-NFAT pathway, and negative regulation of calcium import, with additional terms pointing to calcium-influenced processes like strengthening heart contraction. Developmental terms for kidney (metanephric distal convoluted tubule) and lung epithelial differentiation suggest calcium signaling plays a role in organ development. Neurotransmitter secretion and xenobiotic response can be Ca2+-dependent or reflect stress-response signaling, reinforcing a unifying theme of calcium-driven signaling across tissues.","confidence":"Medium","size":22,"edges":21,"triangles":0,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":3},{"id":"GO:0007269","count":3},{"id":"GO:0005513","count":3},{"id":"GO:0051533","count":3},{"id":"GO:0072221","count":3}]},{"hash":"1360257527533940561","title":"Neuronal Signaling and Circadian Regulation","description":"The top GO terms cluster around neural communication and sensory processing (excitatory/inhibitory synaptic activity, GABA signaling, sensory perception) with circadian regulation and responses to psychoactive substances (cocaine, ethanol). This points to a coherent theme of neuronal signaling modulated by circadian cues and environmental stimuli.","confidence":"Medium","size":22,"edges":29,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0021631","count":21},{"id":"GO:0007605","count":21},{"id":"GO:0042220","count":21},{"id":"GO:1901214","count":21},{"id":"GO:0071361","count":21}]},{"hash":"286753508239191795","title":"Developmental morphogenesis and tissue remodeling","description":"The top GO terms cluster around development and morphogenesis across multiple tissues (angiogenesis, brain development, pericardium morphogenesis, spermatid development) and remodeling processes (plasminogen activation). There are also broader multicellular development signals and hormonal responses (estradiol, fatty acid), suggesting a generalized developmental program rather than a single, tight pathway. The lack of edges implies these proteins are loosely connected by this theme rather than forming a cohesive complex.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0070542","count":3},{"id":"GO:0032355","count":2}]},{"hash":"1073916753769601082","title":"Cell-Cell Junction Assembly and Protein Localization","description":"This cluster is dominated by GO terms for assembling bicellular tight junctions (tight and adherens junctions) and for localizing proteins to junctions and synapses, as well as establishing endothelial barriers. Together these indicate a common theme of cell\u2013cell junction organization and targeted protein localization, with some peripheral terms reflect broader tissue contexts.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070830","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0071625","count":2},{"id":"GO:0051660","count":2},{"id":"GO:2000821","count":2}]},{"hash":"16827671647099639","title":"Neuronal development and gene expression","description":"The cluster shows strong enrichment for neural development terms (neuron projection development, pyramidal neuron development, neural tube closure, multicellular organism development) along with DNA-templated transcription and ribosome biogenesis, suggesting active gene expression programs supporting neuronal development. This combination points to proteins involved in neuronal differentiation and development rather than a single housekeeping process.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0001843","count":2}]},{"hash":"1279312561176701246","title":"Axon Guidance and Developmental Morphogenesis","description":"The cluster's GO terms are dominated by developmental signaling and morphogenesis, especially nervous system patterning and axon guidance (semaphorin-plexin signaling, branchiomotor neuron axon guidance, trigeminal nerve organization) along with endothelial morphogenesis and bone ossification. A few terms like insulin secretion or pigmentation regulation are peripheral. This combination points to a core theme of developmental wiring and tissue shaping, hence the name.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030073","count":3},{"id":"GO:0035855","count":3},{"id":"GO:0048070","count":3},{"id":"GO:0035584","count":2},{"id":"GO:0021637","count":2}]},{"hash":"241557587558001955","title":"Wnt signaling and telomere maintenance in cell division","description":"The top GO terms center on Wnt signaling, several aspects of telomere maintenance (lengthening, telomerase regulation, capping), and mitotic processes (spindle assembly, chromatid cohesion), suggesting a theme of signaling coordinating telomere dynamics and cell division. Some additional terms (protein ADP-ribosylation, pinocytosis) may reflect broader regulatory layers but do not override the core theme. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":5},{"id":"GO:1904357","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0032212","count":4},{"id":"GO:0070213","count":4}]},{"hash":"620280491018058102","title":"Transcription Regulation and Ion Transport Signaling","description":"The cluster combines strong signals for DNA-templated transcription and protein homooligomerization with regulatory processes affecting chemokine production (CXCL1/5), PKA activity, Ras signaling, and membrane ion transport (sodium/potassium). This suggests a module where transcriptional regulation intersects with signaling pathways controlling cardiac function and inflammatory responses, including membrane transport components. Therefore, a label that emphasizes gene expression control alongside signaling and ion transport is appropriate.","confidence":"Medium","size":21,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0051260","count":7},{"id":"GO:2000340","count":7},{"id":"GO:0071651","count":7},{"id":"GO:0034638","count":6}]},{"hash":"314187214065676849","title":"Developmental gene regulation and reproductive signaling","description":"This cluster is characterized by GO terms tied to organismal development (thymus and placenta development), DNA-templated transcription, and growth-factor signaling (PDGF receptor pathway), with a reproductive term (sperm capacitation) reinforcing a developmental/reproductive theme. Some stress-related terms appear but do not dominate the cluster\u2019s core function.","confidence":"Medium","size":21,"edges":38,"triangles":13,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046827","count":13},{"id":"GO:0019233","count":13},{"id":"GO:0006351","count":13},{"id":"GO:0007275","count":13},{"id":"GO:0071276","count":12}]},{"hash":"1563024432350024639","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":4},{"id":"GO:0090503","count":2},{"id":"GO:0009638","count":2},{"id":"GO:0009663","count":1},{"id":"GO:0009831","count":1}]},{"hash":"799230484208979797","title":"Wnt signaling and ECM remodeling","description":"The proteins are enriched for the Wnt signaling pathway, with supporting terms related to extracellular matrix remodeling and coagulation (elastin catabolic process, biomineral tissue development, fibrinolysis regulation, Factor XII activation). This suggests a theme around developmental signaling coupled with tissue remodeling, though other terms (immune, metabolic) are also present. Confidence: Medium","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":4},{"id":"GO:0051919","count":2},{"id":"GO:0060309","count":2},{"id":"GO:0002542","count":2},{"id":"GO:0071333","count":2}]},{"hash":"701779846670993274","title":"Cardiac and neural development signaling","description":"The GO terms cluster around development and function of heart, muscle, and nervous system tissues, including axonogenesis, SA node action potential regulation, heart contraction, myoblast fusion, and neurotransmitter secretion. Additional terms on protein kinase regulation, calcium handling, and hypoxia response suggest these proteins participate in coordinated signaling during cardiac, muscular, and neural development. Overall, this points to a cardiovascular-neural-muscle development signaling theme.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":4},{"id":"GO:0007409","count":4},{"id":"GO:0098735","count":2},{"id":"GO:0060487","count":2},{"id":"GO:0090281","count":2}]},{"hash":"420682790755017049","title":"Tissue morphogenesis and ECM remodeling","description":"The proteins cluster around developmental remodeling: branching morphogenesis and tube formation in the lung, basement membrane disassembly, and ossification, all points to tissue morphogenesis and extracellular matrix remodeling. Peptide catabolic processes (bradykinin and neuropeptides) may regulate signaling during development, supporting a cohesive theme. A single term on T cell cytotoxicity is less aligned, but does not override the core pattern.","confidence":"Medium","size":21,"edges":91,"triangles":293,"max_degree":16,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0010815","count":16},{"id":"GO:0060448","count":13},{"id":"GO:0001957","count":13},{"id":"GO:0001913","count":13},{"id":"GO:0051603","count":13}]},{"hash":"1507746480617670588","title":"Mesodermal organ development and ion transport","description":"A concise label that captures the dominant themes among the terms: mesodermal differentiation, maintenance of organ identity, skin development, and cell-matrix adhesion point to developmental processes shaping tissues and organs, while the multiple ion transport terms (potassium, calcium, sodium) highlight essential membrane electrochemical regulation. The one term about heart contraction aligns with muscle/organ function tied to development, suggesting the cluster centers on organogenesis and ion homeostasis rather than a single signaling pathway.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":4},{"id":"GO:0098735","count":2},{"id":"GO:0010163","count":2},{"id":"GO:0048496","count":2},{"id":"GO:0007160","count":2}]},{"hash":"2245381057518222154","title":"Neural Development and Neurotransmitter Transport","description":"Top GO terms point to neural development (multicellular organism development, spinal cord and thalamus development) and neurotransmitter handling (serotonin uptake/secretion, dopamine catabolic process). Supporting terms on microtubule dynamics and ciliary function (microtubule severing, cilium beat frequency regulation, polyglutamylation) suggest cytoskeletal and ciliopathy involvement in neural cells. Overall, the cluster seems to reflect proteins involved in neural development and neuronal signaling/trafficking with cytoskeletal/ciliary components.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0021510","count":3},{"id":"GO:0051013","count":3},{"id":"GO:0060296","count":2},{"id":"GO:0018095","count":2}]},{"hash":"1264206419564753655","title":"Neural development and Schwann cell biology","description":"These proteins cluster around neural development and glial nerve support, including motor neuron differentiation, Schwann cell migration/proliferation and axon regeneration, as well as neuronal signaling (glutamate reuptake, neurofilament cytoskeleton) and nerve ECM remodeling (collagen biosynthesis) with related lipid signaling (ceramide biosynthesis). This combination suggests a theme of nerve development, maintenance, and repair with Schwann cell involvement.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043124","count":2},{"id":"GO:0001306","count":1},{"id":"GO:0002238","count":1},{"id":"GO:1900148","count":1},{"id":"GO:0021523","count":1}]},{"hash":"1476760749508363184","title":"GABAergic Signaling and Synaptic Plasticity","description":"Top GO terms indicate a strong GABA receptor\u2013mediated signaling focus with involvement in synaptic transmission, postsynaptic excitability, and plasticity (including long-term potentiation), alongside learning and circadian regulation aspects. This pattern suggests the cluster centers on GABAergic neural signaling and modulation of synaptic strength, with some developmental and sensory-context associations. ","confidence":"High","size":21,"edges":115,"triangles":229,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0007214","count":21},{"id":"GO:0060079","count":21},{"id":"GO:0001661","count":21},{"id":"GO:0021631","count":20},{"id":"GO:0042320","count":20}]},{"hash":"860548604933548801","title":"Neural signaling and sensory behavior","description":"The top GO terms cluster around glycinergic synaptic transmission, prepulse inhibition, startle response, locomotory behavior, and visual perception, all indicating neural communication and sensory-driven behaviors. Calcium import across the membrane and heat generation further support neuronal activity and metabolic regulation. A complement activation term is present but likely ancillary to the dominant neural/behavioral theme; overall, the cluster seems to reflect neural signaling tied to sensory processing and behavior rather than a single immune or metabolic pathway. Confidence: Medium","confidence":"","size":21,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":2},{"id":"GO:0060012","count":2},{"id":"GO:0060134","count":2},{"id":"GO:0001964","count":2},{"id":"GO:0042493","count":2}]},{"hash":"156572614473139989","title":"Nutrient-stress growth morphogenesis","description":"The top GO terms suggest growth changes under nutrient stress (invasive growth in response to glucose limitation and pseudohyphal growth) as well as transport and homeostasis of nutrients and metals (nitrogen utilization, ammonium transport, iron ion homeostasis, cadmium response, carbon dioxide transport). While some terms are general (mitotic cell cycle, innate immune response), the recurring theme is adaptation to nutrient stress affecting growth form and nutrient handling. This justifies a label focused on nutrient-stress\u2013driven growth and transport processes.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001403","count":6},{"id":"GO:0007124","count":6},{"id":"GO:0000278","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0071276","count":5}]},{"hash":"1266691104168682041","title":"Transcription and Chromatin Regulation","description":"The cluster is dominated by terms tied to DNA-templated transcription, mRNA capping, and histone modification, indicating regulation of gene expression at both transcriptional and epigenetic levels. While some terms reference tissue-specific development and stress responses, the central theme remains gene expression control via transcriptional and chromatin-related processes.","confidence":"Medium","size":21,"edges":40,"triangles":7,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035902","count":10},{"id":"GO:0006351","count":8},{"id":"GO:0060749","count":7},{"id":"GO:0033327","count":7},{"id":"GO:0006370","count":7}]},{"hash":"661319834007672455","title":"Immune Activation and Vascular Remodeling","description":"The GO terms cluster around complement pathways (lectin and classical), adaptive immune response, and NF-kappaB/ERK signaling, plus processes tied to angiogenesis, collagen fibril organization, and cell adhesion. This suggests a set of proteins that coordinate immune activation with tissue remodeling and vascular development, with some adhesion-related and extracellular matrix remodeling roles.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0090331","count":2}]},{"hash":"1563825809295509280","title":"Neuronal Synaptic Transmission and Plasticity","description":"Top terms indicate a strong emphasis on synaptic vesicle exocytosis, neurotransmitter secretion, calcium signaling, and long-term potentiation, with supporting references to brain development. While a few terms are unrelated or broad, the dominant theme points to neuronal synaptic signaling and vesicle-mediated communication.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000300","count":4},{"id":"GO:0010796","count":4},{"id":"GO:0031384","count":4},{"id":"GO:0007269","count":3},{"id":"GO:0048015","count":3}]},{"hash":"559751029896750550","title":"Unknown","description":"Top terms are a scattered mix of biosynthesis (antibiotic, biotin), metabolism, growth, aging, mitochondrial ribosome assembly, and even pain-sensing terms, with several obsolete GO entries; no clear shared function or network connectivity among the proteins (edges=0), so a coherent functional label cannot be assigned.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0016049","count":2},{"id":"GO:0001300","count":2},{"id":"GO:0007253","count":2}]},{"hash":"2018978343841726771","title":"Nucleolar RNA processing and transcription regulation","description":"The top terms include snoRNA localization and box C/D snoRNP assembly, which point to nucleolar RNA processing. Also, negative regulation of transcription by RNA polymerase II and regulation of histone deacetylation indicate transcriptional control. While there are ancillary terms related to cell cycle, ubiquitination, and immune signaling, the core theme appears to be nuclear RNA processing coupled with transcription regulation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051639","count":2},{"id":"GO:0071157","count":1},{"id":"GO:0043066","count":1},{"id":"GO:0000122","count":1},{"id":"GO:0000209","count":1}]},{"hash":"1328433206950576357","title":"Unknown","description":"The GO terms listed span very different biological processes (taste perception, ER-Golgi transport, GTPase signaling, ER-stress\u2013induced apoptosis, mitotic processes, hypoxia response, protein autophosphorylation, fertilization, and peptidyl-arginine methylation) with no clear shared function tying the cluster together. Therefore, there is no coherent theme to assign a specific label.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050909","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0070059","count":2},{"id":"GO:0007064","count":2}]},{"hash":"225712002236874908","title":"Chaperone-mediated folding and membrane targeting","description":"This cluster is dominated by GO terms pointing to protein maturation and trafficking, including SRP-dependent cotranslational and post-translational protein targeting to membranes, unfolded protein response, and chaperone-assisted refolding. Fe-S cluster assembly also ties into protein maturation in organelles. While a DNA replication term appears among the top terms, the prevailing signals are about protein folding, quality control, and targeting to membranes, suggesting a functional group centered on protein maturation rather than DNA replication or cell wall synthesis.","confidence":"Medium","size":20,"edges":85,"triangles":175,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":10},{"id":"GO:0070389","count":9},{"id":"GO:0006616","count":8},{"id":"GO:1902037","count":7},{"id":"GO:0031204","count":7}]},{"hash":"1816457267648798674","title":"Neuronal Synaptic Vesicle Cycling","description":"This cluster is dominated by GO terms related to synaptic vesicle life cycle and trafficking in neurons\u2014including exocytosis and endocytosis regulation, vesicle fusion, and retrograde transport between Golgi/ER and endosomes\u2014plus neuronal development cues such as excitatory postsynaptic potential and substantia nigra development. The convergence on vesicle dynamics at the synapse suggests a cohesive function in neurotransmitter release and recycling.","confidence":"High","size":20,"edges":154,"triangles":643,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0021762","count":5},{"id":"GO:0060079","count":5},{"id":"GO:0035690","count":5},{"id":"GO:0043524","count":5}]},{"hash":"1799101694609914154","title":"Developmental transcriptional regulation and chromatin remodeling","description":"This cluster shows strong representation of transcriptional regulation and chromatin remodeling terms (DNA-templated transcription, RNA polymerase II regulation, chromatin remodeling) alongside development-related terms (heart development, embryonic cranial skeleton morphogenesis, multicellular organism development) and related cell-cycle/signaling terms (centrosome cycle, Wnt signaling regulation), suggesting a cohesive module of factors coordinating gene expression and chromatin state to drive development.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097350","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0048701","count":5},{"id":"GO:0043044","count":4},{"id":"GO:0006351","count":4}]},{"hash":"2040330582780330402","title":"Developmental gene regulation and signaling","description":"This cluster centers on regulatory processes tied to animal development: DNA-templated transcription and mRNA transport point to gene expression control, while brain and male gonad development suggest organ- and system-specific differentiation. Additional terms like TGF-beta signaling, hypoxia response, cell cycle, and protein autophosphorylation indicate coordinated signaling and regulatory dynamics during development. Pigmentation also reflects differentiation programs, reinforcing a developmental theme rather than a single pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0007420","count":10},{"id":"GO:0008584","count":10},{"id":"GO:0071560","count":9},{"id":"GO:0051260","count":9}]},{"hash":"527707244595759824","title":"Multi-tissue Organogenesis and Cell Adhesion","description":"The top GO terms point to organ morphogenesis and tissue organization across several tissues (oviduct, metanephros/kidney, brain regions) along with cell\u2013cell junction processes (desmosome assembly, adhesion in cardiac conduction system). While a few terms touch on basic transport or growth dynamics, the dominant signal is developmental programs guiding organ formation and tissue architecture, rather than a single tissue-specific function.","confidence":"Medium","size":20,"edges":189,"triangles":1122,"max_degree":19,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0015991","count":10},{"id":"GO:0007050","count":10},{"id":"GO:0000011","count":9},{"id":"GO:0060066","count":9},{"id":"GO:0021550","count":9}]},{"hash":"1445321950702745063","title":"Neuronal signaling and synaptic function","description":"This cluster is dominated by neural-related processes: excitatory postsynaptic potential, neurotransmitter secretion, calcium ion transport, axonogenesis, and long-term memory, all pointing to synaptic transmission and plasticity, with supporting terms like clustering of voltage-gated potassium channels and modulation of kinase activity; a few terms (e.g., heart development, an obsolete GO term) may reflect broader developmental roles or annotation artefacts.","confidence":"High","size":20,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":3},{"id":"GO:0006816","count":3},{"id":"GO:0001975","count":3},{"id":"GO:0007616","count":3},{"id":"GO:0007269","count":3}]},{"hash":"1468304399734096293","title":"Muscle Development and Signaling","description":"The top GO terms center on signaling pathways (PDGF receptor, T cell receptor, STAT phosphorylation, JUN phosphorylation) and developmental processes, especially skeletal muscle development and myoblast differentiation. Additional terms for nitric oxide response, cell cycle, and hippocampus development suggest a broader, integrative signaling and developmental theme across muscle, immune, and neural contexts, indicating a cluster of proteins involved in convergent signaling motifs governing growth and differentiation rather than a single pathway.","confidence":"Medium","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010641","count":20},{"id":"GO:0050852","count":20},{"id":"GO:0042523","count":20},{"id":"GO:0071732","count":20},{"id":"GO:0007519","count":20}]},{"hash":"1120785988110604434","title":"Pain- and drug-response signaling network","description":"The cluster centers on sensory pain perception, responses to prostaglandin E, and drug-related behaviors (morphine, cocaine), along with ERK signaling and responses to temperature, indicating a cohesive theme of neural stimulus-induced signaling and behavioral modulation; ancillary terms like visual learning, macrophage chemotaxis, heart development, and thermogenesis suggest broader signaling roles but do not override the core theme.","confidence":"Medium","size":20,"edges":139,"triangles":502,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":8},{"id":"GO:0071380","count":6},{"id":"GO:0008542","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0071502","count":6}]},{"hash":"368920504855135355","title":"Rho GTPase\u2013Mediated Cytoskeleton Remodeling","description":"The top GO terms cluster around regulation of GTPase activity and especially Rho signaling, plus regulation of cell shape, indicating a shared role in cytoskeletal dynamics and morphology. Additional terms like neurotransmitter secretion, hypoxia response, and hormone responses suggest broader signaling roles that converge on cytoskeletal remodeling across tissues (e.g., heart, lung). Overall, the group is best characterized by Rho GTPase\u2013driven cytoskeletal remodeling and associated signaling.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0008360","count":5},{"id":"GO:0035023","count":4},{"id":"GO:0098735","count":4},{"id":"GO:0060487","count":4}]},{"hash":"1742731993785751765","title":"Immune signaling and hematopoiesis","description":"The cluster centers on immune system development and signaling: T cell receptor signaling, B cell differentiation, and hemopoiesis are prominent, with supporting pathways such as PDGFR and growth hormone receptor signaling, plus responses to fungal origin molecules and nitric oxide. This points to a cohesive theme of hematopoietic/immune cell development and activation, with ancillary vascular and protein-processing regulation.","confidence":"Medium","size":20,"edges":17,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":9},{"id":"GO:0010641","count":7},{"id":"GO:0050852","count":7},{"id":"GO:0071732","count":7},{"id":"GO:0030097","count":7}]},{"hash":"505393054023788375","title":"Neuronal Ion Channels and Sensory Signaling","description":"The cluster is dominated by ion transport and membrane excitability terms (potassium, sodium, calcium channels; membrane depolarization; excitatory postsynaptic potential) and includes GABA signaling, indicating neuronal excitability and synaptic transmission. It also contains sensory-related functions (startle response, sound perception, optic nerve development) and circadian regulation, suggesting a cohesive theme of neuronal ion-channel\u2013mediated signaling with sensory and circadian modulation.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":20},{"id":"GO:0045188","count":19},{"id":"GO:0001964","count":19},{"id":"GO:0098703","count":19},{"id":"GO:0050910","count":18}]},{"hash":"1509269677416690425","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061734","count":2},{"id":"GO:0070262","count":2},{"id":"GO:0051028","count":2},{"id":"GO:0038202","count":2},{"id":"GO:0043547","count":2}]},{"hash":"421864060956753689","title":"Translation and Transcription Machinery","description":"The top GO terms are dominated by translation (GO:0006412) and DNA-templated transcription (GO:0006351, GO:0006355) including transcription regulation, which points to gene expression machinery as the core signal. The presence of several biosynthetic and catabolic terms (some obsolete) likely reflects annotation noise or secondary processes, but the strongest cohesive theme is protein synthesis and transcription control. ","confidence":"Medium","size":20,"edges":189,"triangles":1122,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0006355","count":1}]},{"hash":"2248352780354325737","title":"Mesenchymal adipogenesis and chondrogenesis","description":"The terms show strong representation for fat cell differentiation (adipogenesis) and cartilage condensation (a step in chondrogenesis), plus supporting signals like cell migration and response to mechanical stretch, all pointing to mesenchymal differentiation pathways. Some terms (telomere maintenance, mRNA processing, peptidyl-serine phosphorylation) are broader regulatory processes and don\u2019t conflict with the main theme; one obsolete term appears to be noise. Overall, the cluster centers on mesenchymal differentiation toward adipocytes and cartilage.","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045444","count":6},{"id":"GO:2001275","count":6},{"id":"GO:0016477","count":6},{"id":"GO:0035994","count":6},{"id":"GO:0032212","count":6}]},{"hash":"1790053763407295653","title":"Wnt signaling regulators in development","description":"Top GO terms indicate involvement in regulation of canonical Wnt signaling, ECM\u2013cell signaling, and developmental processes such as retinal blood vessel morphogenesis and midgut development. While some RNA-processing terms appear, the strongest cohesive theme is modulation of Wnt signaling during development, implying a cluster of Wnt regulators linked to tissue morphogenesis rather than unrelated functions.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060828","count":2},{"id":"GO:0044332","count":2},{"id":"GO:0035426","count":2},{"id":"GO:0061304","count":2},{"id":"GO:0071397","count":2}]},{"hash":"1550787640622550662","title":"Ribosome Biogenesis and Translation","description":"This cluster centers on protein synthesis and ribosome-related processes: translation (including mitochondrial translation) and 90S preribosome assembly, suggesting a core theme around ribosome biogenesis and function. The presence of cell division and partially mitochondrial-related terms supports a biosynthetic/proliferative context, while the developmental terms (ossification, skeletal system development, ear morphogenesis, axial mesoderm development) are less frequent and may reflect broader annotations or pleiotropy rather than a single cohesive function. Overall, the strongest common theme is the machinery for ribosome assembly and translation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006783","count":1},{"id":"GO:0032543","count":1},{"id":"GO:0034463","count":1}]},{"hash":"1469886774000756536","title":"Ubiquitin-Dependent Antiviral NF-\u03baB Signaling","description":"This cluster centers on ubiquitin-dependent proteolysis and ubiquitination, alongside innate antiviral defense and NF-\u03baB pathway activation (I\u03baB phosphorylation, NIK activity). The presence of histone ubiquitination terms also suggests chromatin-level regulation linked to immune signaling. Together, these terms indicate a group of proteins involved in ubiquitin-mediated regulation of antiviral innate immunity, especially NF-\u03baB signaling.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0000209","count":7},{"id":"GO:0051607","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0036205","count":7}]},{"hash":"337314503538774658","title":"Vesicle trafficking to vacuole/lysosome and autophagy","description":"This cluster centers on intracellular membrane trafficking pathways involving transport from Golgi to endosome/vacuole and endosome-to-lysosome routes, vesicle docking, and autophagy, with Ca2+-dependent exocytosis as a supporting process. The GO terms consistently point to vesicle trafficking and degradation pathways, despite one outlier term related to synaptic depression. High confidence.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0008333","count":4},{"id":"GO:0035751","count":4},{"id":"GO:0060292","count":3},{"id":"GO:0006904","count":3},{"id":"GO:0045956","count":3}]},{"hash":"1798565612486342053","title":"Ubiquitin-dependent Antiviral Innate Immunity","description":"The cluster is dominated by GO terms for ubiquitin-mediated proteolysis (ubiquitin-dependent protein catabolic process, ERAD, autoubiquitination) along with antiviral and innate immune responses (defense response to virus, innate immune response) and autophagy, plus NF-kappaB signaling. This combination points to proteins involved in tagging and degrading viral or host factors to mount antiviral defenses, with autophagy and NF-kB pathways contributing to innate immunity. The label captures the core theme without overextending to unrelated functions.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0030433","count":8},{"id":"GO:0051865","count":8},{"id":"GO:0051607","count":7},{"id":"GO:0045087","count":7}]},{"hash":"120470226879378426","title":"Transmembrane transporters for ions and metabolites","description":"The top GO terms point to a set of membrane transport proteins handling diverse substrates, including various ions (sodium, potassium, phosphate, nitrite, nitrate) and small molecules (vitamins, xenobiotics), with an additional note on neurotransmitter loading into synaptic vesicles. This pattern indicates a cluster of transmembrane transporters with broad substrate specificity rather than a single metabolic pathway.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":3},{"id":"GO:0006004","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0035461","count":3}]},{"hash":"1965710741975606144","title":"Innate antiviral defense and cell cycle regulation","description":"The cluster\u2019s top GO terms center on innate immune response and defense against virus, plus regulation of the cell cycle, with supporting hints of ubiquitin-related regulation (protein autoubiquitination and ubiquitin-dependent ERAD). This points to a theme where antiviral defense is linked with cell-cycle control and ubiquitin-regulatory processes, justifying this label.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0007026","count":3},{"id":"GO:1903762","count":3}]},{"hash":"1736905355810311374","title":"Membrane Transporters and Vesicle Loading","description":"The dataset centers on transmembrane transport processes (various ions and metabolites) and a vesicle-related function for neurotransmitter loading, suggesting proteins that act as transporters or vesicle transport components. This combination supports a label focusing on membrane transport activities with a vesicle context.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":4},{"id":"GO:0006004","count":4},{"id":"GO:1900754","count":4},{"id":"GO:0035725","count":4},{"id":"GO:0035461","count":4}]},{"hash":"1055977696608800596","title":"Muscle, skin development and cardiac signaling","description":"The terms cluster around tissue development (multicellular development, skin development, skeletal muscle regeneration) and signaling/electrical coupling (SA node action potential regulation, cell communication by electrical coupling, GTPase activity regulation). Together they suggest a group of proteins involved in developmental processes across muscle, skin, and heart tissues, centered on intercellular signaling rather than a single pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0098907","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0006397","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0043588","count":4}]},{"hash":"915136981554434939","title":"GTPase-regulated actin dynamics","description":"This cluster is dominated by GO terms for regulating GTPase activity and Arp2/3-mediated actin nucleation, suggesting proteins that modulate the cytoskeleton through GTPase signaling and actin remodeling. Additional terms related to kinase activity regulation, hypoxia response, cell cycle, mRNA transport, and development imply a broader role in signaling and developmental processes. The core theme is GTPase-driven control of actin architecture, with supporting roles in signaling and development.","confidence":"Medium","size":19,"edges":102,"triangles":266,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":8},{"id":"GO:0006919","count":6},{"id":"GO:0034316","count":6},{"id":"GO:0031954","count":6},{"id":"GO:0071902","count":6}]},{"hash":"1676059007257663130","title":"RNA Processing and Translational Regulation","description":"The proteins cluster around post-transcriptional control: mRNA splicing regulation via spliceosome, regulatory ncRNA-mediated gene silencing, translation initiation/termination/reinitiation (including IRES-dependent viral initiation), and stress-related mRNA stability. This combination indicates a cohesive group of factors governing RNA processing and translation control, with viral translation mechanisms represented.","confidence":"High","size":19,"edges":16,"triangles":2,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":13},{"id":"GO:0031047","count":13},{"id":"GO:0075525","count":13},{"id":"GO:0001731","count":13},{"id":"GO:0006446","count":13}]},{"hash":"807071803552709476","title":"DNA Replication and Mitotic Cell Cycle Proteins","description":"This cluster's top GO terms cluster around nuclear processes: DNA replication, DNA-templated transcription, centrosome cycle, and mitotic cell cycle, with positive regulation of nuclear protein export as part of cell-cycle progression. These together indicate a cohesive theme of DNA replication and cell division machinery. Some terms (chemotaxis, T cell receptor signaling, embryonic cranial skeleton morphogenesis, visual perception) appear as outliers or reflect annotation breadth rather than core cluster function.","confidence":"High","size":19,"edges":63,"triangles":78,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":8},{"id":"GO:0006351","count":7},{"id":"GO:0048701","count":6},{"id":"GO:0010571","count":6},{"id":"GO:0007098","count":6}]},{"hash":"982558308586952552","title":"ERAD-Ubiquitin Proteostasis and NF-kappaB Signaling","description":"This cluster is dominated by ubiquitin-dependent ERAD and ER-to-cytosol retrograde transport, plus NF-kappaB signaling and links to cell fate. The terms point to protein quality control in the ER and ubiquitin-mediated regulation, with a few outliers like DNA replication terms that may reflect shared annotations or noise.","confidence":"Medium","size":19,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":5},{"id":"GO:0030970","count":3},{"id":"GO:0007249","count":3},{"id":"GO:0006260","count":2},{"id":"GO:2000157","count":2}]},{"hash":"2284885861296532150","title":"Cell signaling, polarity, and trafficking","description":"The cluster centers on diverse signaling pathways (GTPase signaling, Wnt, ephrin, TCR) and interfaces with cell movement and polarity (pseudopodium, cell shape maintenance), plus intracellular trafficking and secretion (endosome localization, exosomal secretion, tight junction assembly), suggesting a cohesive module coordinating signaling, polarity, and intercellular communication.","confidence":"Medium","size":19,"edges":147,"triangles":631,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007264","count":4},{"id":"GO:0031274","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0048013","count":4},{"id":"GO:1990182","count":3}]},{"hash":"1779841413764747865","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0001525","count":5},{"id":"GO:0060079","count":5},{"id":"GO:0060291","count":5},{"id":"GO:0007275","count":5}]},{"hash":"227320666962127301","title":"Spliceosome-Mediated mRNA Processing and Stability","description":"The cluster is dominated by GO terms around mRNA splicing via the spliceosome, plus regulation and stabilization of mRNA (including stress responses and ncRNA-mediated silencing), pointing to a cohesive role in post-transcriptional processing.","confidence":"High","size":19,"edges":52,"triangles":65,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":5},{"id":"GO:0010610","count":5},{"id":"GO:0048026","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0001825","count":4}]},{"hash":"948600175169326001","title":"Developmental transcriptional regulators","description":"This cluster shows enrichment for negative regulation of transcription by RNA polymerase II and multiple embryonic morphogenesis terms (midbrain development, embryonic eye morphogenesis, semicircular canal morphogenesis, primitive streak formation, outflow tract morphogenesis, placenta development, heart development, habenula development), suggesting proteins that coordinate gene expression during development across neural, cardiac, and placental lineages.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0030901","count":7},{"id":"GO:0048048","count":6},{"id":"GO:0048752","count":5},{"id":"GO:0090009","count":5}]},{"hash":"401161757600554347","title":"Cofactor biosynthesis and respiratory energy metabolism","description":"The cluster includes GO terms for biosynthesis of cofactors (protoporphyrinogen IX; biotin; iron-sulfur cluster assembly) and for energy-related processes (photosynthesis light reactions; mitochondrial respiratory chain complex IV assembly; transport), suggesting a cohesive module linking cofactor production with electron transport and energy metabolism across microbial/plant contexts.","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0097428","count":2},{"id":"GO:0006782","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0006810","count":2}]},{"hash":"151247625169345943","title":"Rho-regulated cytoskeletal remodeling in heart and retina","description":"The cluster is dominated by GO terms for positive regulation of GTPase activity and Rho signaling, along with cytoskeletal assembly processes like filopodium and microspike formation. Tissue-context terms include heart development, retina development, and visual perception, plus vascular permeability and cell proliferation regulation. This points to proteins that modulate Rho-dependent actin dynamics driving morphogenesis and function in heart and eye tissues, with related vascular effects.","confidence":"Medium","size":19,"edges":25,"triangles":2,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0008283","count":3},{"id":"GO:0035025","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0008284","count":3}]},{"hash":"646518482063476017","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0061158","count":2},{"id":"GO:0016567","count":2}]},{"hash":"63904419864851545","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by GO terms for translation and ribosome biogenesis, including translation, initiation, termination, and cytoplasmic translation, plus selenocysteine incorporation. There is also an association with mRNA decay, suggesting linked regulation of translation and mRNA turnover. Overall, these proteins likely form or regulate the ribosome-centric translation machinery.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":12},{"id":"GO:0046677","count":5},{"id":"GO:0006413","count":4},{"id":"GO:0006415","count":4},{"id":"GO:0042254","count":4}]},{"hash":"2207345918672106172","title":"Integrin signaling and reproductive tissue remodeling","description":"This cluster is driven by GO terms related to integrin-mediated signaling and regulation of cell adhesion via integrins, suggesting adhesion and signaling roles. It also includes reproductive-related terms (single fertilization and ovulation) and VEGF production, which together point to tissue remodeling and angiogenesis during ovulatory processes. Macrophage fusion and TNFSF11 production further support an inflammatory/immune remodeling context in reproduction. Some terms (like myelination) may reflect broader signaling roles but do not outweigh the reproductive/adherence theme.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0007338","count":5},{"id":"GO:0051044","count":5},{"id":"GO:0007229","count":5},{"id":"GO:0022011","count":4}]},{"hash":"467568183334631170","title":"Heme Biosynthesis and Stress-Response Signaling","description":"The strongest signals are porphyrin/heme biosynthesis (protoporphyrinogen IX biosynthetic process and heme biosynthetic process), indicating a core metabolism role. The accompanying terms point to broad cellular signaling and stress responses (insulin, glucocorticoid, hypoxia, LPS) and pathways like Notch and kynurenine catabolism, suggesting the cluster links metabolic/heme processes with diverse stress and signaling responses rather than a single, tight pathway.","confidence":"Medium","size":19,"edges":116,"triangles":455,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006782","count":5},{"id":"GO:0042853","count":5},{"id":"GO:0019518","count":5},{"id":"GO:0006783","count":4},{"id":"GO:0032869","count":4}]},{"hash":"689913182574042423","title":"Proteoglycan biosynthesis and tissue morphogenesis","description":"The cluster shows strong signals for glycosaminoglycan/proteoglycan biosynthesis (heparin proteoglycan, chondroitin sulfate biosynthetic processes), glycosylation, and developmental processes like tissue and kidney morphogenesis, along with cell adhesion molecule production. This points to extracellular matrix components and morphogenesis as the core theme. A few terms (inter-male aggressive behavior, response to insulin, intestinal absorption) appear weaker or less directly related and may reflect annotation noise or broader associations in a small cluster.","confidence":"High","size":19,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":4},{"id":"GO:0048729","count":2},{"id":"GO:0050892","count":2},{"id":"GO:0002121","count":2},{"id":"GO:0030206","count":2}]},{"hash":"990587521293682031","title":"Neurotransmitter Transport and Secretion","description":"The top GO terms cluster around uptake/transport and secretion of neurotransmitters (serotonin, dopamine, glycine) and synaptic transmission, indicating a module focused on neurotransmitter handling in neural signaling; a few terms on development/glia are present but overall the theme is coherent. ","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0051610","count":5},{"id":"GO:0015820","count":5},{"id":"GO:0021794","count":5},{"id":"GO:0042420","count":5},{"id":"GO:0014064","count":5}]},{"hash":"2297736733425880598","title":"Unknown","description":"The top GO terms are diverse, including protein heterooligomerization, defense response to virus and dsRNA, cell division, peptidyl-tyrosine sulfation, and several obsolete terms, with no clear single functional theme and no network connectivity. This lack of a cohesive biological process makes a specific, representative name inappropriate, so the cluster is labeled Unknown.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051291","count":6},{"id":"GO:0043278","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0051348","count":5},{"id":"GO:1901215","count":5}]},{"hash":"1219939262562395388","title":"Neural signaling and learning","description":"These GO terms cluster around nervous system signaling and plasticity\u2014positive regulation of GTPase activity and ERK1/2 (MAPK) signaling, innervation, morphine response, visual learning, and fear-related behaviors\u2014pointing to neural communication and learning processes. A few terms (e.g., lipopolysaccharide signaling and heart development) appear less central, suggesting the primary theme is neural signaling rather than a single non-neural function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0060384","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0031666","count":2}]},{"hash":"681341975206968167","title":"Steroid and lipid biosynthesis","description":"The top GO terms cluster around biosynthesis and metabolism of lipid- and steroid-related compounds (retinol/retinoic acid, fatty acid elongation, C21-steroid hormones, testosterone, androgen turnover). While a few terms relate to secondary metabolite biosynthesis (antibiotics, mycolic acids), the dominant theme is lipid- and steroid-related biosynthetic processes, justifying this label. ","confidence":"Medium","size":19,"edges":3,"triangles":1,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042572","count":7},{"id":"GO:0055114","count":5},{"id":"GO:0030497","count":5},{"id":"GO:0002138","count":5},{"id":"GO:0006710","count":5}]},{"hash":"1749844837443815246","title":"Transmembrane transport of ions and small molecules","description":"GO terms indicate transmembrane transport for multiple ions (sodium, potassium, phosphate), as well as transport of sugars/acid derivatives (sialic acid, fucose, 4-hydroxyphenylacetate), vitamins, and xenobiotics, plus neurotransmitter loading into synaptic vesicles. This pattern suggests the proteins cluster around membrane transport activities handling diverse substrates.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":4},{"id":"GO:0015739","count":4},{"id":"GO:0098700","count":3},{"id":"GO:0006004","count":3},{"id":"GO:1900754","count":3}]},{"hash":"113864258072844251","title":"Cytoskeleton Remodeling and Vesicle Trafficking","description":"The cluster's top GO terms center on actin filament depolymerization, cilium assembly, and ER-Golgi vesicle transport, pointing to cytoskeleton dynamics and intracellular trafficking. Additional terms like mRNA transport, ribosome biogenesis, and autophagy reflect broader cellular maintenance and growth processes that are often coordinated with cytoskeletal and vesicular pathways. Taken together, the proteins likely participate in coordinating cytoskeletal remodeling with vesicle trafficking and organelle transport, rather than a single narrow function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0001300","count":2},{"id":"GO:0051260","count":2}]},{"hash":"1469416246857093017","title":"Neural signaling and sensory processing","description":"This cluster is dominated by GO terms tied to neuronal communication and sensory function, including action potential, EPSP, GABA signaling, sensory perception of sound, optic nerve morphogenesis, and responses to psychoactive substances like cocaine and ethanol, plus circadian sleep/wake regulation. Together, these terms indicate a coherent theme of neural signaling and sensory processing with circadian modulation.","confidence":"High","size":19,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001508","count":16},{"id":"GO:0007628","count":16},{"id":"GO:0021631","count":16},{"id":"GO:0042220","count":16},{"id":"GO:0060079","count":16}]},{"hash":"894284067141359833","title":"Neural development and synaptic signaling","description":"Most represented terms point to neural development and function (hippocampus development, axonogenesis, excitatory postsynaptic potential) and signaling regulation (Wnt signaling, phosphorylation, dopamine response). Some terms (heart development, T cell receptor signaling) may reflect broader, pleiotropic roles of shared proteins, but the overarching theme appears to be neural development and synaptic communication.","confidence":"Medium","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021766","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0033138","count":7},{"id":"GO:0050852","count":6},{"id":"GO:0000278","count":6}]},{"hash":"159938110963449218","title":"Innate Immune Signaling and Antiviral Defense","description":"This cluster is dominated by GO terms for innate immunity and antiviral signaling, including positive regulation of canonical NF-kappaB signaling, RIG-I pathway activation, defense against viruses, and regulation of NLRP3 inflammasome activity, suggesting proteins collaborate in innate immune responses and antiviral defense. A few terms appear unrelated (placenta morphogenesis, imprinting), likely noise, but the core pattern supports an antiviral innate immune function.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0060368","count":2},{"id":"GO:0045869","count":2}]},{"hash":"1493530011470689659","title":"Cerebellar neuron development and signaling regulation","description":"Several top GO terms directly point to cerebellar development (cerebellar granular layer development, cerebellar Purkinje cell differentiation) and neuronal signaling (response to L-glutamate, calcium ion transport regulation). Additional terms about negative regulation of apoptotic pathways suggest neuron survival context. Taken together, the cluster appears centered on cerebellar neuron development and signaling with regulation of survival pathways.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902042","count":3},{"id":"GO:0090005","count":3},{"id":"GO:0010523","count":3},{"id":"GO:0009791","count":3},{"id":"GO:0051025","count":2}]},{"hash":"1873853314460341821","title":"Ubiquitin-Proteasome and Autophagy in Antiviral Defense","description":"The prominent GO terms point to ubiquitin-dependent protein degradation, autophagy, and host antiviral responses (defense against virus and suppression of viral release), with linked roles in circadian regulation and microtubule-mediated transport of viral material, suggesting a cohesive theme of protein turnover and antiviral defense.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:1903762","count":8},{"id":"GO:1901253","count":8},{"id":"GO:0051865","count":8},{"id":"GO:0000209","count":6}]},{"hash":"1690918582799906892","title":"Neuronal development and synapse assembly","description":"The cluster is enriched for terms related to neuronal development and synapse formation, including presynaptic membrane assembly, nicotinic receptor clustering, and factors implicated in amyloid-beta and tau pathologies, suggesting a theme of neural development and synaptic organization (with some related trafficking processes). ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":2},{"id":"GO:0001732","count":2},{"id":"GO:1902430","count":1},{"id":"GO:0071340","count":1},{"id":"GO:1902997","count":1}]},{"hash":"1930533123658130746","title":"Membrane Transport and Signaling","description":"The cluster shows enrichment for intracellular signal transduction and multiple membrane transport terms, including proline transport and nucleotide-sugar transport (UDP-N-acetylglucosamine, UDP-galactose) as well as sialic acid transport. This suggests a functional grouping around transport across cellular membranes and associated signaling pathways. Some plant development terms appear but are limited, so they are unlikely to define the core function. Overall, a membrane transport with signaling theme best fits the set.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":2},{"id":"GO:0015824","count":2},{"id":"GO:1990569","count":1},{"id":"GO:0097624","count":1},{"id":"GO:1903070","count":1}]},{"hash":"463996995549758009","title":"Neural signaling and circadian rhythm","description":"The cluster is enriched for circadian sleep/wake regulation terms (non-REM and REM) and neural signaling processes (GABA signaling, action potential regulation, transmission of nerve impulses), with calcium import across the plasma membrane and optic nerve morphogenesis supporting neuronal excitability and development. This combination best supports a theme of neuronal signaling modulated by circadian rhythms.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045188","count":3},{"id":"GO:0098703","count":3},{"id":"GO:0051260","count":2},{"id":"GO:0050966","count":2},{"id":"GO:0007214","count":2}]},{"hash":"1466655789033985782","title":"Neuronal Receptor Signaling and Synaptic Plasticity","description":"This cluster is dominated by neural-related terms: receptor clustering, receptor guanylyl cyclase signaling, social behavior, and long-term synaptic depression, which together point to neuronal signaling and synaptic modulation/plasticity. The nucleotide salvage terms appear as minor metabolic annotations and are likely incidental to the core neural function theme.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043113","count":2},{"id":"GO:0007168","count":2},{"id":"GO:0035176","count":2},{"id":"GO:0060292","count":2},{"id":"GO:1901925","count":2}]},{"hash":"973325122977235458","title":"Vascular cell migration and signaling","description":"These GO terms cluster around movement and signaling of vascular-associated cells: podocyte and fibroblast migration, labyrinthine layer blood vessel development, and responses to cAMP and prostaglandin E\u2014all pointing to signaling pathways that regulate cell motility and vessel formation. GPCR internalization and vasoconstriction regulation further tie receptor signaling to vascular function. A few terms (mitotic cytokinesis, transcription regulation) reflect broader cell-cycle and gene expression programs that can accompany migratory and developmental processes. Overall, the cluster appears to represent coordinated vascular cell migration and signaling.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090521","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0060716","count":2},{"id":"GO:0010761","count":2},{"id":"GO:0071320","count":2}]},{"hash":"708719132011623642","title":"Antiviral Innate Immunity and dsRNA Sensing","description":"The GO terms highlight defense response to virus, innate immune response, and cellular response to exogenous dsRNA, pointing to antiviral innate immune signaling and dsRNA sensing as the core theme of this cluster. Other terms (e.g., protein tetramerization, GTPase activity regulation) may reflect supporting signaling roles, while a few terms like sensory perception of sound appear incidental. Overall, the cluster seems representative of antiviral defense functions.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0051262","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1263624312225185252","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034316","count":9},{"id":"GO:0071560","count":9},{"id":"GO:0043547","count":9},{"id":"GO:2000601","count":9},{"id":"GO:0050731","count":9}]},{"hash":"1256440248267556559","title":"Golgi Trafficking and Organization","description":"The cluster is named Golgi Trafficking and Organization because the dominant GO terms describe vesicle transport to, from, and within the Golgi (ER-to-Golgi, intra-Golgi, Golgi-to-vacuole), Golgi ribbon formation, and regulation of Golgi organization. Additional terms cover vesicle fusion with the Golgi and endosome-to-Golgi transport, with autophagosome maturation linking Golgi trafficking to autophagy-related processes, indicating a cohesive Golgi-centric transport network.","confidence":"High","size":18,"edges":37,"triangles":17,"max_degree":7,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006888","count":10},{"id":"GO:0090161","count":7},{"id":"GO:0006891","count":7},{"id":"GO:0048280","count":7},{"id":"GO:0006896","count":7}]},{"hash":"795054345002086672","title":"Amino acid and cofactor biosynthesis","description":"The cluster\u2019s frequent GO terms cluster around biosynthetic and metabolic processes: L-glutamate biosynthesis (amino acid), thiamine biosynthesis (vitamin B1), tetrahydrofolate metabolism (folate cofactor), and dihydrolipoamide metabolism, with nitrate assimilation linking to nitrogen metabolism. Some terms appear obsolete or unrelated (e.g., sperm capacitation, aging), likely noise. Overall, the recurring theme is biosynthesis of amino acids and cofactors, justifying this label.","confidence":"Medium","size":18,"edges":91,"triangles":242,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0055114","count":11},{"id":"GO:0046653","count":9},{"id":"GO:0009228","count":8},{"id":"GO:0008283","count":8},{"id":"GO:0042128","count":7}]},{"hash":"1159938718741832921","title":"Neural development and synaptic regulation","description":"This cluster is enriched for brain-related terms: substantia nigra development and face morphogenesis (likely linked to neural crest\u2013driven development), plus strong signals for synaptic function such as regulation of vesicle exocytosis/endocytosis, neuronal synaptic plasticity, and excitatory postsynaptic potential. Together, these terms point to a cohesive theme of neural development and synaptic signaling, with additional developmental regulation reflected by mitotic cell cycle and kinase activity terms. ","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060325","count":4},{"id":"GO:0000278","count":3},{"id":"GO:1900242","count":3},{"id":"GO:2000300","count":3},{"id":"GO:0048168","count":3}]},{"hash":"1475607963225877525","title":"RNA processing and mitotic spindle dynamics","description":"The cluster prominently features GO terms for RNA handling (stress granule disassembly, mRNA export from nucleus) alongside mitosis and microtubule-related processes (mitotic metaphase chromosome alignment, spindle pole separation, microtubule polarity, minus-end directed sliding). This suggests proteins involved in RNA metabolism that intersect with cell division machinery, particularly regarding spindle dynamics and microtubule organization during mitosis. Some terms related to stress response and epidermal stem cell homeostasis may reflect broader cellular roles, but the core theme centers on RNA processing coupled with mitotic/spindle functions.","confidence":"Medium","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035617","count":4},{"id":"GO:0006406","count":4},{"id":"GO:0007080","count":3},{"id":"GO:0034599","count":3},{"id":"GO:0051301","count":3}]},{"hash":"1677137913483574515","title":"Central Metabolism and Biosynthesis","description":"The cluster is dominated by core metabolic processes: glycolysis and the TCA cycle, with supporting biosynthetic pathways such as thiamine biosynthesis, fatty acid (malonyl-CoA) biosynthesis, and amino acid metabolism. Although some terms like cell wall organization and antibiotic biosynthesis appear, the strongest signal is central energy production and building-block biosynthesis, suggesting a cohesive metabolism-focused cluster.","confidence":"High","size":18,"edges":119,"triangles":520,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":8},{"id":"GO:0055114","count":6},{"id":"GO:0006096","count":6},{"id":"GO:0009228","count":3},{"id":"GO:0042759","count":3}]},{"hash":"566463889158366136","title":"Developmental cell cycle and lineage differentiation","description":"The most represented terms point to cell proliferation and cell cycle (DNA replication, mitotic cell cycle, G2/M transition) together with diverse developmental lineages (mesoderm formation, Schwann cell development, myeloid progenitor differentiation). The presence of cell migration supports developmental processes, while terms like parathyroid hormone response and sperm capacitation are less clearly connected and may reflect broad annotations. Overall, the cluster seems to reflect proliferative development across multiple lineages rather than a single pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:1901621","count":5},{"id":"GO:0071374","count":5},{"id":"GO:0001707","count":5},{"id":"GO:0002318","count":4}]},{"hash":"1423012801584366645","title":"mRNA Processing and Proteostasis","description":"This cluster is dominated by GO terms for RNA maturation and decay (mRNA polyadenylation, spliceosome-mediated splicing, transcription, and deadenylation-dependent decay) together with proteostasis-related terms (ubiquitin-dependent protein catabolic process and aggresome assembly), suggesting a theme of nuclear RNA metabolism linked to cellular protein quality control.","confidence":"Medium","size":18,"edges":16,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0070842","count":2}]},{"hash":"905377959850533475","title":"MAPK/JNK Signaling Regulation in Muscle and Neurons","description":"This cluster is driven by regulation of JNK/MAPK signaling and phosphorylation (e.g., regulation of JNK cascade; MAPK activity), and it also includes terms related to muscle and neuromuscular junction function (skeletal muscle contraction, negative regulation of synaptic assembly at the NMJ) and neuronal structure (dendritic spine morphogenesis), with a note of calcium signaling (store-operated calcium entry). Together, these suggest a theme of signaling pathway regulation affecting muscle and neural connectivity. ","confidence":"Medium","size":18,"edges":71,"triangles":42,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":2},{"id":"GO:1900363","count":2},{"id":"GO:0060288","count":1},{"id":"GO:0010801","count":1},{"id":"GO:0045886","count":1}]},{"hash":"228847537320903984","title":"Mitotic Cell Cycle and rRNA Maturation","description":"The cluster is dominated by terms tied to cell division and mitosis (cell division, mitotic cell cycle, sister chromatid cohesion) and maturation of ribosomal RNA (LSU and 5.8S rRNA), with additional signals of DNA replication processing in mitosis. While there are ancillary references to stress responses and protein interactions, the core theme centers on mitosis-related processes and ribosome biogenesis.","confidence":"Medium","size":18,"edges":3,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051260","count":8},{"id":"GO:1903461","count":7},{"id":"GO:0000463","count":7},{"id":"GO:0051301","count":7},{"id":"GO:0000466","count":7}]},{"hash":"1357042009771552864","title":"RNA splicing and translation regulation","description":"The proteins are enriched for post-transcriptional control: spliceosome-mediated mRNA splicing and splice-site recognition, along with regulation of translation initiation and mRNA stabilization. This suggests a coherent module of gene-expression control at both RNA processing and translational levels.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":3},{"id":"GO:0006376","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0048255","count":2}]},{"hash":"1443140117564820652","title":"Embryonic organ development","description":"This cluster\u2019s top GO terms cover development and morphogenesis of multiple organs (heart, eye/retina, placenta, habenula, prostate, osteoblasts), indicating a shared role in embryonic organogenesis rather than mature physiological processes.","confidence":"High","size":18,"edges":143,"triangles":672,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2000288","count":8},{"id":"GO:0021986","count":8},{"id":"GO:0003148","count":7},{"id":"GO:0001890","count":7},{"id":"GO:0007507","count":7}]},{"hash":"897862522000443003","title":"Mitochondrial Cofactor and Nucleotide Transport","description":"These proteins cluster around transport of key cofactors and metabolites into mitochondria (pyridoxal phosphate, NAD, thiamine pyrophosphate, nucleotides) and related regulation of mitochondrial membrane potential, plus mitochondrial apoptosis signals. The dominant GO terms point to mitochondrial metabolite transport and maintenance of mitochondrial function, with insulin/pregnancy terms likely reflecting broader systemic metabolic regulation. Therefore, the label \u201cMitochondrial Cofactor and Nucleotide Transport\u201d best captures the shared function.","confidence":"High","size":18,"edges":47,"triangles":17,"max_degree":13,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0031921","count":12},{"id":"GO:0051881","count":12},{"id":"GO:1990519","count":12},{"id":"GO:0035352","count":12},{"id":"GO:0036233","count":12}]},{"hash":"99860222166221851","title":"Neuronal synapse assembly and behavior","description":"The top GO terms cluster around synapse assembly, social behavior, and vocalization, pointing to neuronal connectivity and behavioral regulation. Actin cytoskeleton organization and cell migration support neurite outgrowth and synapse formation, while ubiquitin-dependent degradation/ERAD terms may reflect general protein quality control during remodeling. Some terms like mitotic cell cycle are less directly related, but the dominant theme is neuronal synapse development and behavior.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0007416","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0030433","count":3}]},{"hash":"1181541577975624415","title":"Unknown","description":"The top GO terms span very diverse processes (ribosome biogenesis, cell division, multicellular development, foregut morphogenesis, defecation rhythm regulation, intercellular transport, protein hexamerization, and even immune/anesthetic responses) with no clear single theme. The cluster has no edges, suggesting the proteins aren\u2019t cohesively linked to one function, so a precise, representative label cannot be assigned. ","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000747","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0051301","count":2},{"id":"GO:2000746","count":2}]},{"hash":"1367474661443818641","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":5,"triangles":2,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0043433","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0000122","count":3}]},{"hash":"1298232979637436317","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":1},{"id":"GO:0009718","count":1},{"id":"GO:0010253","count":1},{"id":"GO:0019305","count":1},{"id":"GO:0097171","count":1}]},{"hash":"207902779960394089","title":"Lymphocyte Activation and Cytokine Signaling","description":"This cluster centers on adaptive immune signaling: several terms point to B cell processes (B cell affinity maturation; B cell receptor signaling) and T/NKT lineage signaling (NK T cell differentiation; interleukin-4 production; cellular response to IL-7). ERK/MAPK and Rho pathway regulation support activation and cytoskeletal changes in immune cells. Some outliers (e.g., heart development, obsolete terms) likely reflect broader ontology coverage, but the dominant theme is lymphocyte activation and cytokine-mediated signaling.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002344","count":6},{"id":"GO:0098761","count":5},{"id":"GO:0010863","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0007507","count":5}]},{"hash":"208587971033993774","title":"GPCR Signaling in Heart and Immunity","description":"This cluster centers on receptor-mediated signaling, especially GPCR-related processes (GPCR internalization, ERK cascade, Rho signaling, Hedgehog/Smoothened pathway) with terms touching heart development, vasoconstriction, and immune functions (macrophage chemotaxis, defense against bacteria) and prostaglandin response. The GO terms sketch a connected theme of signaling pathways that coordinate cardiovascular and immune responses.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071380","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0007224","count":3},{"id":"GO:0042742","count":2}]},{"hash":"2059132124667345526","title":"Cardiac contraction and vascular cytoskeletal signaling","description":"The terms point to a cardiovascular theme, with clear signals for cardiac muscle contraction and relaxation, plus endothelial/vascular processes (endothelial lumen extension) and cytoskeletal regulation (Rho/Rac GTPases, stress fiber assembly, MAPK/JNK activity). This combination suggests a coherent cluster of proteins coordinating heart function with cytoskeletal dynamics and vascular remodeling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":2},{"id":"GO:0043507","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0055119","count":2},{"id":"GO:0097498","count":2}]},{"hash":"1819510082315622342","title":"Neural temperature and pain signaling","description":"This cluster is enriched for temperature- and pain-related GO terms (cellular response to temperature stimulus, sensory perception of pain, diet-induced thermogenesis), and also shows neural signaling features (regulation of membrane potential, regulation of acetylcholine metabolic process, prepulse inhibition). While some immune and metabolic terms are present, the strongest theme centers on neural responses to thermal/pain stimuli and associated signaling pathways.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":15},{"id":"GO:0019233","count":15},{"id":"GO:0002024","count":15},{"id":"GO:0042391","count":14},{"id":"GO:0060134","count":13}]},{"hash":"601892769189104575","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0017000","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0051568","count":2},{"id":"GO:2001162","count":2}]},{"hash":"1193056562101190434","title":"Vertebrate Embryogenesis and Organogenesis","description":"The cluster is dominated by developmental terms (embryonic development, habenula and heart development, pancreas morphogenesis, neuron maturation, in utero development) and transcription-related terms (DNA-templated transcription, negative regulation of RNA polymerase II), indicating a group of proteins involved in vertebrate development and transcription control. A few terms like response to lipopolysaccharide appear as noise but do not override the overall theme.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0021986","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0035264","count":4}]},{"hash":"1175124128926711640","title":"Neural Sensory Perception and Signaling","description":"The GO terms cluster around neural and sensory functions: sensory perception of pain, thermosensation, dopaminergic synaptic transmission, and visual learning, with supporting signaling roles such as ERK cascade activation. While there are a couple of broader terms like skin development and macrophage chemotaxis, the dominant theme centers on nervous system signaling and sensory processing, suggesting a cohesive but broad neural-function cluster. Overall, the label captures the core pattern with some tangential functions.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":6},{"id":"GO:0071502","count":5},{"id":"GO:0002024","count":5},{"id":"GO:0008542","count":4},{"id":"GO:0007275","count":4}]},{"hash":"2091373037984523097","title":"Neural development and synaptic signaling","description":"The top GO terms are heavily weighted toward brain development and regulation of synaptic plasticity, with associated terms like neurotransmitter secretion and reelin-mediated signaling. Although some terms point to non-neuronal processes, the strongest and most frequent signals describe neural development and synaptic regulation, suggesting the cluster centers on neuronal signaling and maturation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031914","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0001778","count":3},{"id":"GO:0007269","count":2},{"id":"GO:0007520","count":2}]},{"hash":"480765384708732334","title":"Ubiquitin-Proteasome Degradation and Antiviral Signaling","description":"The top GO terms strongly point to ubiquitin-mediated protein turnover (autoubiquitination, ubiquitin-dependent proteolysis, K48-linked ubiquitination) and links to immune signaling pathways, including innate antiviral responses, defense against viruses, and regulation of TNF and JNK cascades. While a couple of terms are less clearly connected (e.g., an obsolete voltage-gated potassium channel term), the dominant themes center on ubiquitin-proteasome\u2013driven protein turnover and antiviral innate signaling.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":6},{"id":"GO:0042787","count":5},{"id":"GO:0070936","count":5},{"id":"GO:0046328","count":5},{"id":"GO:1903762","count":5}]},{"hash":"1322817525804308889","title":"Neuronal signaling and behavior","description":"The top GO terms cluster around neural activity and behavioral responses: ion transport (sodium/potassium), excitatory postsynaptic potential, nervous system\u2013regulated respiration, locomotory and fear-related behaviors. Although a few terms touch on development or inflammation, the dominant pattern supports neural signaling and behavioral output.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0002087","count":2},{"id":"GO:0007626","count":2}]},{"hash":"93538055888209406","title":"Neuronal vesicle loading and membrane transport","description":"The cluster prominently features terms tied to neural function (substantia nigra development, neurotransmitter loading into synaptic vesicles) and membrane transport across various ions and metabolites (sodium, phosphate, vitamin transport), along with supporting redox homeostasis and cytochrome assembly. This pattern suggests a group of proteins involved in neuronal signaling and membrane transport, with some transcription regulation components providing regulatory context. Confidence: Medium","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0017004","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0021762","count":2},{"id":"GO:0098700","count":2}]},{"hash":"1439998323028034975","title":"Metal Ion Transport and Homeostasis","description":"The top GO terms are dominated by metal ion homeostasis and transport (iron, cobalt, zinc, cadmium), including iron/cobalt transport, zinc response, and cadmium detoxification. While a couple development terms appear, the strongest shared function across many proteins is regulation and movement of metal ions, suggesting a cohesive cluster centered on metal ion balance and transport.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055072","count":2},{"id":"GO:0035435","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0048705","count":2}]},{"hash":"981123794015563224","title":"Transmembrane Transporters for Ions and Metabolites","description":"The top GO terms cluster around transmembrane transport of various ions (K+, Na+), nutrients (vitamins, phosphates, nitrite/nitrate, fucose, 4-hydroxyphenylacetate), xenobiotics, and even neurotransmitter loading into synaptic vesicles, indicating a cohesive set of membrane transporter proteins with broad substrate specificity.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":4},{"id":"GO:0098700","count":3},{"id":"GO:0006004","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0035725","count":3}]},{"hash":"1976158141256471382","title":"Membrane transport and intracellular trafficking","description":"This cluster is dominated by GO terms for ion transmembrane transport (potassium and sodium), intracellular protein transport, and vesicle fusion with the Golgi apparatus, indicating a core theme of membrane trafficking and cargo movement in the secretory pathway. Additional terms point to signaling responses (glucocorticoid, GM-CSF) and transcriptional regulation, which can reflect downstream effects of trafficking-related signaling but do not override the trafficking-centric core. Overall, the label captures the primary functional thread of ion transport and vesicular trafficking.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0032781","count":1},{"id":"GO:0006886","count":1},{"id":"GO:0048280","count":1}]},{"hash":"655287721673138017","title":"Synaptic plasticity and auditory behavior","description":"Dominant GO terms relate to dendritic spine morphogenesis, regulation of excitatory postsynaptic potentials, long-term synaptic depression, and synapse structural plasticity, along with sensory perception of sound and vocalization behavior, indicating a neuronal synapse/hearing function. Immune signaling terms are present but appear incidental to the main theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":3},{"id":"GO:0035176","count":3},{"id":"GO:0071625","count":3},{"id":"GO:2000463","count":3},{"id":"GO:0060292","count":3}]},{"hash":"390378840081358029","title":"Unknown","description":"The terms span a wide and disparate set of processes (heart development, transcription regulation, spliceosome assembly, receptor recycling, germ-line feminization, signaling via Rho), and with no evident connectivity among the proteins (edges = 0), there is no cohesive shared function to name the cluster.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":1},{"id":"GO:0000122","count":1},{"id":"GO:0045736","count":1},{"id":"GO:1901798","count":1},{"id":"GO:0000387","count":1}]},{"hash":"2027159604657676645","title":"Neurodevelopment and Neural Signaling","description":"This cluster is dominated by GO terms related to neural development and function, including nerve impulse transmission, sodium ion transport in neurons, cortical neuron migration, and neuronal stem cell maintenance, pointing to roles in neuronal signaling and cortical development. While a few terms touch on immune cell migration or glycosylation, they are less representative of the main theme.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":3},{"id":"GO:0051971","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0007626","count":2},{"id":"GO:0002361","count":2}]},{"hash":"2062697474730152384","title":"Inflammatory and vascular signaling","description":"The top GO terms cluster around immune/inflammatory cues (response to LPS, prostaglandin stimulus) and vascular regulation (blood coagulation, vasoconstriction, GPCR internalization, calcium signaling, GTPase activity). This suggests a cohesive theme of signaling pathways governing inflammation and vascular responses, with fever/pain-related terms providing broader systemic context.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0002024","count":4},{"id":"GO:0051209","count":4},{"id":"GO:0043547","count":4}]},{"hash":"669874007202720293","title":"Coagulation and ECM remodeling","description":"The top GO terms point to coagulation-related processes (positive regulation of blood coagulation, Factor XII activation, positive regulation of fibrinolysis) and extracellular matrix/composite tissue remodeling (elastin catabolic process, biomineral tissue development). There are additional terms related to development and transcriptional regulation, but the strongest and most coherent signal across the cluster is clotting/fibrinolysis and ECM turnover, suggesting proteins involved in vascular remodeling and connective tissue dynamics.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030901","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0031214","count":4},{"id":"GO:0030194","count":4},{"id":"GO:0050830","count":4}]},{"hash":"1344339170565096241","title":"Unknown","description":"The GO terms span calcium transport, placental morphogenesis, heart rhythm regulation, temperature response, neuroendocrine secretion, oligodendrocyte differentiation, immune chemokine production, endothelial remodeling, and cell cycle, indicating diverse and widespread processes with no single cohesive function tying all proteins together. ","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098703","count":3},{"id":"GO:0060669","count":2},{"id":"GO:0098907","count":2},{"id":"GO:0009409","count":2},{"id":"GO:0030103","count":2}]},{"hash":"2282330642303295369","title":"DNA replication and repair cluster","description":"Most of the top GO terms map to DNA replication and nucleotide-excision repair (DNA replication, NER, DNA incision, DNA duplex unwinding), with accompanying signals for DNA damage response (apoptotic process, hypoxia response). The dominant theme is genome maintenance and repair, with a few development-associated terms that are less central to the core cluster. This makes a DNA replication/repair-focused label appropriate and representative.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":8},{"id":"GO:0019079","count":5},{"id":"GO:0070389","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0048568","count":3}]},{"hash":"1340562314075205924","title":"Neural development and synaptic regulation","description":"The top GO terms converge on neuronal development and synaptic function: dendritic spine morphogenesis and actin cytoskeleton organization point to synapse formation and structure, while social and vocalization behaviors imply neural circuitry involvement. JNK cascade regulation and IGF stimulus indicate signaling pathways that shape neuronal growth and survival, and centrosome localization relates to cellular polarity important in neurons. Although innate immune response and necroptosis regulation appear, the prevailing theme centers on neural development and synaptic regulation.","confidence":"Medium","size":17,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":3},{"id":"GO:1990314","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0060546","count":3},{"id":"GO:0060997","count":2}]},{"hash":"1471462527724209235","title":"Copper transport and cisplatin response","description":"The cluster is dominated by GO terms tied to copper ion homeostasis and transport (intracellular copper homeostasis, copper import, regulation of copper transport) and to xenobiotic/drug transport and cisplatin response, suggesting a group of metal/copper transporters involved in drug handling. A few terms (immune response, hair orientation, embryonic development) appear unrelated and may reflect annotation noise. Overall, the core theme centers on copper homeostasis and transport with implications for cisplatin/drug transport. ","confidence":"Medium","size":17,"edges":18,"triangles":4,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0001662","count":2},{"id":"GO:0006878","count":1},{"id":"GO:0015680","count":1},{"id":"GO:0006855","count":1},{"id":"GO:0072719","count":1}]},{"hash":"2265260710854432978","title":"Ribosome Biogenesis and Cell Cycle","description":"Top GO terms are dominated by ribosome biogenesis (ribosomal subunit biogenesis, ribosome biogenesis, ribosomal subunit export from nucleus) and tRNA processing, pointing to nucleolar/nuclear roles in assembling and exporting ribosomes. Additional terms for cell cycle, cell division, and cell septum assembly suggest coordination between growth machinery and cytokinesis. Although the cluster has no reported edges, the convergence of these processes indicates a cohesive group of proteins involved in ribosome assembly and cell-cycle\u2013related functions.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0016310","count":2},{"id":"GO:0008033","count":2},{"id":"GO:0051301","count":2}]},{"hash":"1989797984052303174","title":"Neural development and cytoskeletal dynamics","description":"Top terms are dominated by neuron development (neuron differentiation, neuron migration) and core cell-cycle/cytoskeletal processes (cell division, cell cycle, mitotic cytokinesis, microtubule nucleation). This suggests a theme of neural development coupled with cytoskeletal remodeling, where microtubule dynamics underlie both neuron morphogenesis and division-related processes. A few outlier terms (interleukin-4 response, cell septum assembly) are less aligned, but do not override the dominant neuronal/cytoskeletal pattern.","confidence":"Medium","size":17,"edges":132,"triangles":626,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0030182","count":17},{"id":"GO:0051301","count":17},{"id":"GO:0007049","count":17},{"id":"GO:1905789","count":17},{"id":"GO:1902408","count":17}]},{"hash":"402225305042781839","title":"Neuronal Signaling and Circadian Regulation","description":"The terms point to neuronal excitability and synaptic transmission, with ion transport (Na+/K+/Ca2+), membrane depolarization, and GABA signaling driving neural activity (excitatory postsynaptic potentials, startle responses). Added features like optic nerve morphogenesis and regulation of circadian sleep/wake cycles (REM and non-REM) suggest a neural circuit and visual system\u2013related context, tying signaling with circadian and behavioral regulation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":10},{"id":"GO:0060079","count":10},{"id":"GO:0035725","count":10},{"id":"GO:0051899","count":10},{"id":"GO:0098703","count":9}]},{"hash":"1480896698928742746","title":"Innate immune and inflammatory signaling","description":"The cluster is best described by immune and inflammatory processes, with multiple terms tied to cellular responses to pathogens and inflammatory signaling (lipopolysaccharide response, inflammatory response, defense against Gram-positive bacteria, response to dsRNA, and interferon-mediated signaling). While there are a few developmental terms (bone development, nipple morphogenesis) and dopamine-related response, the strongest and most frequent signals point to innate immune defense pathways, suggesting the cluster represents an immune/inflammatory function group.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032298","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0006954","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0050830","count":2}]},{"hash":"366309548426464559","title":"Arabinogalactan Protein Glycosylation and Plant Cell Wall Biosynthesis","description":"This cluster centers on arabinogalactan proteins (AGPs) and related glycosylation pathways, including hydroxyproline O-glycosylation, seed coat mucilage biosynthesis, and root hair development, indicating a plant cell wall glycoprotein biosynthesis theme across the GO terms.","confidence":"High","size":17,"edges":24,"triangles":10,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":5},{"id":"GO:0042248","count":4},{"id":"GO:0048354","count":4},{"id":"GO:0080147","count":4},{"id":"GO:0010405","count":4}]},{"hash":"832917177554547479","title":"Ribosome biogenesis and cell division","description":"The cluster centers on ribosome biogenesis and translation (ribosomal subunit export, ribosomal biogenesis, cytoplasmic translation) and also includes cell cycle and division processes (cell division, cell cycle, cell septum assembly). This suggests a cohesive group of proteins involved in ribosome production and protein synthesis alongside growth-related cell division, with a minor presence of stress-response regulation terms. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0090529","count":2}]},{"hash":"1576855428742640760","title":"Golgi trafficking and cell cycle components","description":"This cluster shows clear enrichment for ER-to-Golgi vesicle transport and regulation of Golgi organization, pointing to a core role in Golgi trafficking/organization. A cell cycle term (G1/S transition) supports a potential link to proliferative processes. Other terms (metabolic assimilations, developmental processes) are more diverse and weakerly connected, so the strongest shared theme is Golgi-related transport and assembly, with some heterogeneity.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000082","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0000103","count":2},{"id":"GO:0009812","count":2}]},{"hash":"428713910952490041","title":"Gene expression and RNA processing","description":"Top GO terms cluster around transcription regulation, rRNA maturation, and translation, suggesting a core gene expression machinery theme from RNA processing to protein synthesis. Some terms (receptor recycling, endosome size, glutamatergic synaptic transmission) appear peripheral but do not override the central signal. Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031564","count":1},{"id":"GO:0000462","count":1},{"id":"GO:0006412","count":1},{"id":"GO:2000270","count":1},{"id":"GO:0001881","count":1}]},{"hash":"749546485309646671","title":"Unknown","description":"The GO terms cover a highly diverse set of processes (proteolysis, chlorophyll catabolic, detoxification, biotin and antibiotic biosynthesis, RNA capping/methylation, and immune/host-interaction terms) with no evident single shared function, and the cluster has no edges or connections to indicate a common pathway, so a specific cohesive label cannot be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":4},{"id":"GO:0015996","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0009102","count":3}]},{"hash":"1614220682852499658","title":"Muscle development and immune signaling","description":"This cluster centers on signaling pathways that drive muscle formation and immune signaling, including PDGF receptor signaling, T cell receptor signaling, STAT phosphorylation, nitric oxide response, and myoblast differentiation, with supporting muscle development terms; the dominant theme is signaling in muscle development with immune context.","confidence":"Medium","size":17,"edges":12,"triangles":2,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010641","count":14},{"id":"GO:0050852","count":14},{"id":"GO:0042523","count":14},{"id":"GO:0071732","count":14},{"id":"GO:0007519","count":14}]},{"hash":"657301377022885793","title":"Mitotic Cell Cycle and DNA Repair","description":"Based on the top GO terms, the protein set is enriched for mitotic processes (mitotic cell cycle, cell division, mitotic spindle assembly, sister chromatid cohesion) and genome maintenance (homologous recombination repair, chromatin modification). While some terms hint at stress responses, the dominant theme is cell division coupled with DNA repair, indicating a cluster of proteins involved in mitosis and genome integrity.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0034316","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0070059","count":3}]},{"hash":"535380667445626694","title":"Membrane trafficking and mitochondrial dynamics","description":"The cluster centers on membrane-associated processes: protein transmembrane transport, targeting to organelles, signaling at the cell surface (ephrin, Rac, ruffle assembly), and synaptic transmission, with additional hints of mitochondrial fission and inheritance. This suggests a theme of membrane trafficking and cytoskeletal remodeling coordinated with mitochondrial dynamics, rather than a single narrow function.","confidence":"Medium","size":17,"edges":18,"triangles":5,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071806","count":4},{"id":"GO:0000060","count":4},{"id":"GO:0000001","count":4},{"id":"GO:0060047","count":4},{"id":"GO:0000266","count":4}]},{"hash":"2065790140444937307","title":"GTPase Signaling and Endosomal Trafficking in Development","description":"This cluster shows enrichment for small GTPase signaling (Rho, Rap) and regulation of GTPase activity, along with vesicle trafficking from plasma membrane to endosome. The presence of cell cycle terms (cell division, mitotic cell cycle) and diverse development terms (brain development, egg activation, skeletal muscle growth) suggests a module where GTPase-regulated signaling intersects with trafficking and development processes. Hence, the label captures these core themes.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0032486","count":2},{"id":"GO:0048227","count":2}]},{"hash":"644260883446279887","title":"Developmental signaling and organogenesis","description":"Top GO terms cluster around developmental signaling (Smoothened/hedgehog, PI3K-Akt, EGFR response) and organ development (heart, placenta, brain regions) along with axon fasciculation and apoptosis, suggesting a group of proteins coordinating growth, patterning, and morphogenesis rather than a single function. The DNA integration term appears as an outlier, possibly reflecting a multi-functional protein in development rather than a core cluster function.","confidence":"Medium","size":17,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:0097155","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0007224","count":2},{"id":"GO:0006915","count":2}]},{"hash":"1826278737648450661","title":"Neuronal ion transport and synaptic plasticity","description":"Top terms point to neuronal signaling, specifically ion-channel\u2013mediated membrane transport (sodium and potassium), and synaptic modulation/plasticity (negative regulation of glutamatergic transmission, long-term potentiation), with related sensory/cognitive terms (prepulse inhibition, visual learning) and drug responses (amphetamine, morphine). A minor, likely incidental term about cell wall catabolic process appears unrelated. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":6},{"id":"GO:0071805","count":6},{"id":"GO:0060134","count":4},{"id":"GO:0001975","count":4},{"id":"GO:0008542","count":4}]},{"hash":"2230242530986738270","title":"RNA processing and translational control","description":"The GO terms cluster around mRNA splicing and stabilization, spliceosome regulation, regulatory ncRNA-mediated gene silencing, and various aspects of translational initiation including IRES-dependent viral translation and preinitiation complex formation, suggesting a shared role in RNA metabolism and control of gene expression at both RNA processing and translation stages.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006376","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0048255","count":2},{"id":"GO:0075525","count":2}]},{"hash":"1796816483097936875","title":"Neural development and axon regeneration","description":"This cluster is dominated by GO terms for neurogenesis, peripheral nervous system axon regeneration, collateral sprouting, prepulse inhibition, and forebrain cell proliferation, indicating a focus on neural development and neuronal plasticity. There are also immune-related terms (cytokine regulation and virus response), suggesting some neuroimmune modulation, but the core signal aligns with neural development and axonal regeneration. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900016","count":3},{"id":"GO:0022008","count":3},{"id":"GO:0048672","count":3},{"id":"GO:0009615","count":3},{"id":"GO:0060134","count":2}]},{"hash":"959130630720501553","title":"Cell Division and ESCRT-Mediated Vesicle Sorting","description":"This cluster's terms cluster around cell cycle and cytokinesis, plus ESCRT-dependent pathways for vesicle sorting and viral budding via host ESCRT and multivesicular body formation. Together they point to a cohesive theme of cell division coupled with membrane-trafficking machinery, with a few incidental endocrine-development terms as outliers.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0039702","count":1},{"id":"GO:0071985","count":1},{"id":"GO:0030163","count":1}]},{"hash":"1722137185847591556","title":"Mitotic division and spindle assembly","description":"The top GO terms are dominated by mitosis- and spindle-related processes (cell division, mitotic cell cycle, mitotic spindle assembly, microtubule-based movement), indicating a cluster of proteins involved in mitotic machinery and cytoskeletal dynamics. Some terms like brain development or TORC1 signaling are supplementary, but the core signal supports a mitotic/ spindle assembly functional theme.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0070208","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0030433","count":6}]},{"hash":"800277779188478317","title":"Neurotransmission and hormone signaling","description":"This cluster is dominated by GO terms related to neural communication (serotonin uptake, positive regulation of serotonin secretion, dopamine catabolic process, glycine secretion, neurotransmission) and endocrine signaling (steroid hormone receptor complex assembly; thalamus development; male sex differentiation; prostate gland development). The combination suggests proteins involved in neurotransmission with hormonal regulation and brain-endocrine development. Some terms are broader metabolic processes (cell division, amino acid transport), but the strongest signal points to neuroendocrine signaling. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021794","count":5},{"id":"GO:0046661","count":3},{"id":"GO:0030850","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0006463","count":3}]},{"hash":"1595629295380998225","title":"MAPK/ERK Signaling Negative Regulation","description":"The top GO terms point to negative regulation of ERK1/2 signaling and T cell receptor signaling, as well as peptidyl dephosphorylation (tyrosine/threonine). This pattern suggests the cluster is enriched for phosphatases or regulators that dampen MAPK signaling, with a secondary spread to related processes, making MAPK pathway inhibition the most representative theme.","confidence":"High","size":16,"edges":118,"triangles":532,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0000200","count":9},{"id":"GO:0035335","count":9},{"id":"GO:0050860","count":9},{"id":"GO:0070373","count":9},{"id":"GO:0006370","count":7}]},{"hash":"1689283019532034968","title":"Angiotensin signaling and ciliary/Hedgehog pathways","description":"The cluster is enriched for terms related to the brain renin-angiotensin system, renin secretion, and regulation of renal output by angiotensin, suggesting a theme centered on angiotensin signaling and kidney function. Additionally, there are connections to cilium assembly and the Smoothened signaling pathway (a Hedgehog pathway component that operates via cilia), indicating a secondary theme around ciliary regulation of signaling. Some terms (e.g., DNA replication, nuclear envelope organization) appear less coherent with this main theme, likely reflecting broader functional coverage or noise. Overall, the data point to a cohesive center on angiotensin signaling with ciliary/Hedgehog\u2013related signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002035","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0007224","count":2},{"id":"GO:0060271","count":2},{"id":"GO:0002001","count":2}]},{"hash":"751256523618217681","title":"Neuromuscular signaling and VEGF-regulated angiogenesis","description":"The GO terms show a clear mix of neural signaling (neurotransmitter secretion; synaptic vesicle exocytosis) and muscle development (myoblast fusion), with additional vascular cues (VEGF receptor signaling and remodeling regulation). Calcium signaling and apoptotic regulation further support coordinated signaling in neuromuscular-vascular contexts. Altogether, this cluster seems to reflect a module of neuromuscular communication intertwined with VEGF-mediated angiogenic regulation.","confidence":"High","size":16,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007269","count":2},{"id":"GO:0007520","count":2},{"id":"GO:0060313","count":2},{"id":"GO:0030948","count":2},{"id":"GO:0043065","count":2}]},{"hash":"983147549054404280","title":"GTPase-driven signaling and cell migration","description":"Many terms point to small GTPase\u2013mediated signal transduction and regulation of GTPase activity, together with processes like cell migration and podosome assembly. The presence of diverse receptor signaling pathways (T cell receptor, ephrin, insulin, Wnt) suggests these proteins participate in signaling networks that control cytoskeletal dynamics and motility via GTPases.","confidence":"High","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050852","count":6},{"id":"GO:0016477","count":6},{"id":"GO:0008286","count":5},{"id":"GO:0071803","count":5},{"id":"GO:0043547","count":5}]},{"hash":"333029286083297170","title":"Epithelial differentiation and EMT","description":"The top GO terms strongly point to epithelial development and transitions, notably lung epithelial differentiation and epithelial-to-mesenchymal transition, which suggests a cohesive theme around epithelial cell differentiation and morphogenesis. While other terms touch on neuronal signaling, DNA replication, and calcium sensing, these appear peripheral rather than defining; the strongest connection is epithelial differentiation/EMT. The lack of edges indicates annotations span multiple proteins without a single tightly connected pathway, supporting a broad developmental theme rather than a specific complex. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":3},{"id":"GO:0060487","count":2},{"id":"GO:0051343","count":2},{"id":"GO:0007114","count":2},{"id":"GO:1905205","count":2}]},{"hash":"585315481351223109","title":"Synaptic vesicle trafficking and Golgi organization","description":"The top GO terms cluster around vesicle handling at the synapse (negative regulation of synaptic vesicle recycling, spontaneous neurotransmitter secretion, synaptic vesicle docking) and broader secretory pathway logistics (ER to Golgi transport, Golgi ribbon formation, regulation of Golgi organization). This combination points to a functional module involving synaptic vesicle dynamics and Golgi apparatus organization, with a minor nod to related processes such as autophagy and lipid metabolism that can intersect vesicle pathways. ","confidence":"High","size":16,"edges":13,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1903422","count":3},{"id":"GO:0061669","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0016081","count":3},{"id":"GO:0006675","count":3}]},{"hash":"1445710718061937853","title":"Purine Nucleotide Salvage and Catabolism","description":"Most terms point to nucleotide turnover: deoxyguanosine, guanosine, inosine, and uridine catabolic processes, and purine ribonucleoside salvage, with urate biosynthesis reinforcing the purine catabolic theme. A few terms (carbohydrate metabolism, xenobiotic response, IL-2 production) are present but do not redefine the main function.","confidence":"High","size":16,"edges":7,"triangles":0,"max_degree":3,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0005975","count":3},{"id":"GO:0035690","count":3},{"id":"GO:0006161","count":3},{"id":"GO:0006166","count":3},{"id":"GO:0046115","count":3}]},{"hash":"1966818632316775726","title":"Unknown","description":"The GO terms span bacterial cell-wall biosynthesis, plant seed development and germination, and various lipid metabolism processes, indicating a highly heterogeneous set with no clear, single functional theme across species. ","confidence":"","size":16,"edges":88,"triangles":228,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0070395","count":9},{"id":"GO:0010214","count":8},{"id":"GO:0010030","count":8},{"id":"GO:0044539","count":8},{"id":"GO:0090410","count":8}]},{"hash":"2051174379443259996","title":"Cardiac electrical signaling and muscle regeneration","description":"Top GO terms point to cardiac electrical activity (SA node action potentials, electrical coupling) and muscle-related remodeling (skeletal muscle regeneration, cell migration), with some additional signaling terms (vasopressin secretion). The dominant theme is intercellular signaling governing heart rhythm and muscle tissue dynamics, though a few terms are more peripheral. Overall, this cluster best represents cardiac electrical signaling and muscle regeneration.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0043403","count":3},{"id":"GO:0098907","count":3},{"id":"GO:0010650","count":3},{"id":"GO:0007253","count":3}]},{"hash":"1196196958425783746","title":"Neural and Developmental Signaling","description":"The GO terms cluster around signaling pathways (ROBO, SHH, ERK) and developmental contexts (nervous system, hippocampus, kidney), with dopamine signaling suggesting neural relevance. This indicates proteins involved in signaling during development and neural differentiation rather than a single pathway, hence a Neural and Developmental Signaling label.","confidence":"Medium","size":16,"edges":46,"triangles":12,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":9},{"id":"GO:0035385","count":9},{"id":"GO:0007399","count":9},{"id":"GO:0000278","count":8},{"id":"GO:0021766","count":8}]},{"hash":"1225826952823359843","title":"N-terminal and polyamine acetylation enzymes","description":"The cluster\u2019s top GO terms are dominated by acetylation activities, including N-terminal peptidyl-acetylation across several amino acids (lysine, serine, glutamic acid, methionine) and polyamine acetylation (spermidine, spermine), plus melatonin biosynthesis which involves N-acetyltransferases. This points to a cohesive set of acetyltransferase enzymes acting on diverse substrates, with melatonin biosynthesis supporting the same enzymatic class. ","confidence":"High","size":16,"edges":62,"triangles":113,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0018003","count":8},{"id":"GO:0017198","count":8},{"id":"GO:0032918","count":8},{"id":"GO:0006044","count":8},{"id":"GO:0032919","count":8}]},{"hash":"1649564731418732920","title":"RhoGTPase-Integrin Signaling in Development","description":"Top GO terms emphasize Rho GTPase signaling and integrin pathways driving cytoskeletal dynamics and cell adhesion. Additional terms cover heart development, vascular permeability, myelination, and synaptic plasticity, indicating a developmental signaling program that coordinates vascular and neural remodeling via Rho/GTPase and integrin signaling.","confidence":"High","size":16,"edges":15,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0035025","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0043114","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0010863","count":2}]},{"hash":"1690765200376472587","title":"TLR Signaling and Inflammatory Response","description":"The top terms are dominated by Toll-like receptor pathways (TLR1/2/10) and associated inflammatory signaling, including dsRNA response, chemokine and interferon production, and IL-18 regulation, indicating a cohesive innate immune sensing cluster.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0006954","count":2},{"id":"GO:0034130","count":2},{"id":"GO:0034166","count":2},{"id":"GO:0002756","count":2}]},{"hash":"500717515298908918","title":"Embryonic Organogenesis","description":"The terms point to embryonic development across several organs (heart, placenta, eye, limb, habenula). The cluster likely includes factors coordinating early organ formation rather than a tissue-specific process, supporting a label of embryonic organogenesis.","confidence":"High","size":16,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":5},{"id":"GO:0048048","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0003148","count":4},{"id":"GO:0001890","count":4}]},{"hash":"2158588552280554591","title":"Developmental signaling and organogenesis","description":"The GO terms cluster around development of multiple organs (nervous system, heart, kidney) and associated signaling and transcriptional processes, suggesting a theme of developmental regulation and organogenesis rather than a single pathway. Some terms reflect general cellular maintenance (ribosome biogenesis, mitochondrial fission), but the strongest signals point to organ development and growth signaling across tissues.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0006351","count":3}]},{"hash":"672566151876125502","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046826","count":2},{"id":"GO:0007528","count":2},{"id":"GO:0070671","count":2},{"id":"GO:0070935","count":2},{"id":"GO:0061368","count":2}]},{"hash":"531772885467340386","title":"Membrane Transporters for Metabolites and Xenobiotics","description":"This cluster is dominated by transmembrane transport terms covering xenobiotics and various nutrients (vitamins, thiamine, methionine) as well as drug-related transport (daunorubicin, antibiotic transport). The inclusion of ceramide translocation and secretion terms (type I secretion system) supports a membrane-transport/secretion-centric function. A lactose biosynthetic process term appears less connected but does not negate the overarching transport theme. ","confidence":"High","size":16,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":5},{"id":"GO:0035461","count":5},{"id":"GO:0042891","count":4},{"id":"GO:0005989","count":3},{"id":"GO:0030253","count":3}]},{"hash":"522069087758225800","title":"Nucleolar ribosome biogenesis and RNA processing","description":"Top GO terms center on ribosome biogenesis and RNA processing, suggesting a nucleolar/nuclear role in ribosome production and maturation (small subunit biogenesis, export from nucleus, RNA processing, spliceosomal assembly). Some terms (bone development, innate immune response) are less connected and may reflect broader annotation rather than a shared function. Confidence: Medium","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0042023","count":1},{"id":"GO:0000056","count":1}]},{"hash":"67336185766883109","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms point to broad embryonic development processes, including placental/trophoblast differentiation, neural crest migration, midbrain and endocrine development, left/right patterning, cartilage morphogenesis, and EMT-related events in heart development. This indicates the cluster represents proteins involved in early tissue patterning and morphogenesis rather than a single specialized function.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0003323","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0035270","count":4}]},{"hash":"274289563090799504","title":"GPCR-cAMP Signaling and Thermogenesis","description":"The top GO terms cluster around GPCR-mediated signaling that activates adenylate cyclase and regulates cAMP/PKA, plus thermogenic and temperature-response processes (diet-induced thermogenesis, cellular response to temperature). The presence of electron transport chain terms ties in to energy production, supporting a coherent theme of GPCR-cAMP\u2013driven metabolic/thermogenic regulation, with vascular and neural associations also represented. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":13},{"id":"GO:0019233","count":13},{"id":"GO:0002024","count":13},{"id":"GO:0022900","count":12},{"id":"GO:0010579","count":12}]},{"hash":"1838045490143817958","title":"Lipid metabolism and sterol transport","description":"The most represented GO terms cluster around lipid handling: cholesterol transport/storage, bile acid secretion/biosynthesis, ceramide transport, and PPAR signaling, plus progesterone biosynthesis. This suggests the proteins are involved in lipid metabolism and sterol/steroid transport, with a couple of outlier terms (hematopoietic differentiation, myelination) that are less central to the main theme.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002244","count":2},{"id":"GO:0042552","count":2},{"id":"GO:0035360","count":1},{"id":"GO:0035621","count":1},{"id":"GO:0090051","count":1}]},{"hash":"560513344205270081","title":"TGF-\u03b2/SMAD signaling and cytoskeletal remodeling","description":"Enriched terms point to signaling (TGF-\u03b2 receptor signaling, SMAD complex assembly) and cytoskeletal control (Rho signaling, microspike assembly), suggesting a core function in signaling-driven cytoskeletal organization; metabolic/immunity terms appear less central, so the label reflects the dominant theme.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0007179","count":2},{"id":"GO:0030035","count":2},{"id":"GO:0007183","count":2},{"id":"GO:0035023","count":2}]},{"hash":"521431786270878182","title":"Meiotic and Mitotic Spindle Assembly","description":"The top GO terms point to spindle assembly and organization in both meiosis and mitosis (mitotic spindle assembly/organization, meiotic cell cycle, spindle assembly in female meiosis II), indicating a cohesive theme around the spindle apparatus during cell division. While there are some ancillary terms (transcription, signaling, stress responses), the dominant signal is proteins involved in forming and regulating the spindle during meiosis and mitosis.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0032147","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0007058","count":1}]},{"hash":"1152844231174884492","title":"Brain development and synaptic signaling","description":"The cluster is dominated by neural-related processes: brain development, neurotransmitter secretion, regulation of synaptic vesicle exocytosis, long-term potentiation, and synaptic plasticity. While a couple terms (myoblast fusion, ABA signaling) are not neural-specific, the overall theme centers on neuronal development and synaptic function.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007520","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0009738","count":3},{"id":"GO:0007269","count":2}]},{"hash":"1905290295897092813","title":"Mitotic spindle assembly and microtubule dynamics","description":"This cluster is driven by mitosis- and microtubule-related GO terms: spindle pole/body separation, centrosome separation, spindle assembly, plus- and minus-end directed microtubule sliding, and regulation of microtubule-based processes, indicating a cohesive theme of spindle formation and microtubule polarity; tissue context terms like epidermal stem cell homeostasis and zonula adherens maintenance likely reflect cell-type-specific regulatory layers.","confidence":"High","size":15,"edges":25,"triangles":18,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0000073","count":15},{"id":"GO:0036334","count":15},{"id":"GO:0030951","count":15},{"id":"GO:0031534","count":15},{"id":"GO:0032886","count":15}]},{"hash":"1047167641077876215","title":"Calcium-regulated cardiac muscle contraction","description":"The top GO terms cluster around regulation of heart contraction, calcium release, and muscle relaxation, pointing to proteins involved in calcium signaling and cardiac muscle function. Protein phosphorylation/autophosphorylation support signaling control, reinforcing this theme. A few terms are more general or divergent (lung differentiation, polysaccharide catabolism), but the dominant signal is calcium-mediated regulation of cardiac muscle contraction.","confidence":"High","size":15,"edges":104,"triangles":442,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0098735","count":15},{"id":"GO:0060487","count":15},{"id":"GO:0051343","count":15},{"id":"GO:1901077","count":15},{"id":"GO:1905205","count":15}]},{"hash":"1501224995401243635","title":"Lung epithelial differentiation and EMT signaling","description":"This cluster centers on epithelial differentiation in lung tissue and epithelial-to-mesenchymal transition (EMT), with supporting signaling activities such as protein phosphorylation/dephosphorylation and calcium-regulated processes. The presence of terms like lung epithelial cell differentiation, EMT, and regulation of calcium release-linked contraction points to a coordinated program of epithelial remodeling and signal transduction, while phosphorylation and endocytosis terms suggest broader regulatory and trafficking roles in this context.","confidence":"Medium","size":15,"edges":18,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060487","count":6},{"id":"GO:0051343","count":6},{"id":"GO:1905205","count":6},{"id":"GO:0031954","count":6},{"id":"GO:0010881","count":6}]},{"hash":"1400775414312218038","title":"N-acetyltransferases","description":"This cluster centers on acetylation enzymes that modify diverse substrates\u2014N-terminal residues (serine, glutamate), lysines, and polyamines (spermidine/spermine)\u2014as reflected by GO terms for various acetylation activities, N-acetylglucosamine metabolism, and melatonin biosynthesis (AANAT). The inclusion of mitotic cohesion (ESCO1/ESCO2) aligns with acetyltransferase functions regulating chromosomal cohesion. Overall, a coherent acetyltransferase-focused theme.","confidence":"High","size":15,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0018003","count":3},{"id":"GO:0017198","count":3},{"id":"GO:0032918","count":3},{"id":"GO:0006044","count":3}]},{"hash":"2206007874970900410","title":"Cytoskeleton dynamics and neuronal signaling","description":"The cluster centers on cytoskeletal regulation (polarity, GTPase signaling, actin dynamics) and signaling pathways (ERK cascade, ubiquitination) with accompanying roles in synaptic vesicle exocytosis and excitatory synaptic activity, suggesting a theme of cytoskeleton-guided signaling involved in neuronal communication and broader cell signaling; some mitotic terms may reflect shared cytoskeletal machinery but the prominent emphasis is on cytoskeletal regulation and synaptic-related signaling.","confidence":"Medium","size":15,"edges":18,"triangles":0,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071963","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0090307","count":4},{"id":"GO:0031532","count":4},{"id":"GO:0000278","count":3}]},{"hash":"2104506605253646596","title":"Cardiac development and contraction signaling","description":"The GO terms cluster around heart development and cardiac muscle function (heart development and cardiac muscle contraction), with supporting signals from IGF receptor signaling, calcineurin-NFAT regulation, actin cytoskeleton organization, and small GTPase\u2013mediated signaling\u2014all of which are key to cardiac growth, remodeling, and contractile signaling.","confidence":"High","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060313","count":2},{"id":"GO:0048009","count":2},{"id":"GO:0030036","count":2},{"id":"GO:0051531","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1192815853266924835","title":"Transmembrane Transporters for Vitamins and Xenobiotics","description":"The top GO terms indicate a broad collection of membrane transport activities across diverse substrates, including vitamins, xenobiotics, carbohydrates, amino acids, lipids, and drug-related compounds. This pattern points to a cluster of membrane transporter proteins mediating translocation of a wide range of small molecules rather than a single substrate class. ","confidence":"High","size":15,"edges":73,"triangles":172,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":15},{"id":"GO:0006855","count":15},{"id":"GO:0042891","count":13},{"id":"GO:0008643","count":9},{"id":"GO:0030153","count":8}]},{"hash":"192847057534717534","title":"Neuronal signaling and vascular regulation","description":"This cluster centers on neural communication functions (locomotory behavior, transmission of nerve impulses, glutamatergic synaptic transmission) and concurrent vascular-related regulation (vasoconstriction, endothelial cell migration, cell-matrix adhesion, peptide hormone secretion), with involvement of ERK signaling. Together, these terms suggest a coordinated neurovascular signaling/regulatory role for the proteins.","confidence":"High","size":15,"edges":12,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035641","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0045907","count":2},{"id":"GO:0090277","count":2},{"id":"GO:2000446","count":2}]},{"hash":"74815657490740013","title":"Organelle Protein Import and Prenylation","description":"The top GO terms center on importing proteins into mitochondrial and chloroplast compartments, including inner membrane insertion and stromal import, along with CAAX-box processing and prenylated protein catabolic processes. This suggests a cluster of proteins involved in targeting and integrating proteins into organelle membranes and in post-translational prenylation-related maturation, with a few less representative terms adding noise. Overall, the theme is membrane targeting/import and prenylation-related maturation.","confidence":"Medium","size":15,"edges":29,"triangles":2,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":4},{"id":"GO:0000002","count":4},{"id":"GO:0043547","count":2},{"id":"GO:0032094","count":2},{"id":"GO:0045037","count":2}]},{"hash":"1289175760298908716","title":"Neuro-immune axon guidance and LPS response","description":"This cluster shows a blend of neuronal development terms (axon guidance and extension) with immune-related responses to bacterial components (LPS and lipopeptides, interferon production, chemokine signaling). The common theme appears to be neural development proteins that also engage in innate/adaptive immune signaling or neuro-immune cross-talk, though the exact overlap is indirect. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021972","count":2},{"id":"GO:0071727","count":2},{"id":"GO:0032497","count":2},{"id":"GO:0042088","count":2},{"id":"GO:0070100","count":2}]},{"hash":"1981623483099027761","title":"Neurodevelopment and Transcriptional Regulation","description":"This cluster shows enrichment for nervous system development terms (neural tube closure, nervous system development) and DNA-templated transcription, with supporting hints from calcium-dependent exocytosis and ER-Golgi transport, plus placental development. The label captures the core themes of neural development and transcriptional control observed across the GO annotations.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0051497","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0001893","count":2},{"id":"GO:0045956","count":2}]},{"hash":"1767959444871507812","title":"Unknown","description":"The top GO terms are diverse across aging, RNA modification, neural development, immune response, and various developmental morphogenesis processes, with no shared pathway or function tying the proteins together. With no edges connecting proteins, there is no cohesive biological theme to name.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001300","count":2},{"id":"GO:0002098","count":2},{"id":"GO:0010976","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0002250","count":2}]},{"hash":"723134728867427394","title":"Ubiquitin-Dependent Proteolysis and ERAD","description":"The cluster is dominated by GO terms tied to ubiquitin-dependent protein catabolic processes, including K48-linked deubiquitination and the ER-associated degradation (ERAD) pathway, plus deglycosylation\u2014consistent with ER quality control and proteasomal turnover. The presence of inflammation regulation hints at stress signaling connection, but the central theme remains protein degradation via ubiquitin tagging and ERAD.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006517","count":3},{"id":"GO:0050729","count":3},{"id":"GO:0030433","count":3},{"id":"GO:2000157","count":3},{"id":"GO:1903094","count":3}]},{"hash":"125303653269564466","title":"Wnt signaling regulators","description":"The top terms are about regulation of canonical Wnt signaling, with both positive and negative regulation represented, suggesting proteins involved in modulating the Wnt pathway. Other terms (nucleotide and folate-related catabolic processes) are low-frequency and less cohesive, so the central theme remains Wnt pathway regulation.","confidence":"Medium","size":15,"edges":48,"triangles":84,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0090090","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0033615","count":1},{"id":"GO:0046057","count":1},{"id":"GO:0046709","count":1}]},{"hash":"102114017758559670","title":"Embryonic mesoderm and cardiovascular development","description":"Based on the top GO terms, the cluster is enriched for processes tied to early embryogenesis with a strong emphasis on mesodermal patterning and heart/vasculature formation (mesoderm migration in gastrulation, somite axis specification, vasculogenesis, sinoatrial node development). While neural plate morphogenesis appears, the majority of terms converge on mesoderm-derived structures and cardiovascular development, suggesting the cluster proteins participate in the early specification of body plan and heart formation rather than a single tissue-specific function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001839","count":2},{"id":"GO:0031532","count":2},{"id":"GO:0007509","count":2},{"id":"GO:0032525","count":2},{"id":"GO:0060931","count":2}]},{"hash":"1264413145283029950","title":"Phototransduction and GPCR-Ca2+ Signaling","description":"The top GO terms cluster around visual perception and opsin signaling, with activation of adenylate cyclase and regulation of calcium release, all pointing to GPCR-mediated cAMP and calcium signaling central to phototransduction. Additional terms like phosphorylation and GTPase regulation fit a signaling module, and heart development suggests broader roles for these components. The lack of edges indicates a functional grouping rather than a connected network, so this name captures the main theme: phototransduction-related GPCR signaling and calcium dynamics.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006468","count":7},{"id":"GO:0007190","count":7},{"id":"GO:0001975","count":7},{"id":"GO:0022400","count":7},{"id":"GO:0007507","count":7}]},{"hash":"849746119668906196","title":"Developmental Transcription Regulation and Oxidative Signaling","description":"The cluster centers on transcriptional regulation (DNA-templated transcription, positive regulation of DNA binding) and development (multicellular organism and heart development), with supporting roles for signaling via phosphorylation, cell cycle control (G2/M), and oxidative processes (hydrogen peroxide and superoxide generation), suggesting a cohesive theme of developmental gene regulation influenced by redox signaling.","confidence":"Medium","size":15,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0050665","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0043388","count":3},{"id":"GO:0031954","count":3}]},{"hash":"1768282394706455375","title":"Ubiquitin-Proteasome Regulation and NF-kappaB Signaling","description":"The cluster centers on ubiquitin-mediated protein turnover: SCF-dependent proteasomal degradation, autoubiquitination, and diverse ubiquitin linkages (K48, K63, K11), with neddylation supporting CRL activity, plus regulation of canonical NF-kappaB signaling. The inclusion of viral processes and genome repair terms suggests broader roles in genome maintenance and host-virus interactions via ubiquitin signaling.","confidence":"High","size":15,"edges":62,"triangles":124,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":9},{"id":"GO:0051865","count":8},{"id":"GO:0043123","count":7},{"id":"GO:0051092","count":7},{"id":"GO:0070534","count":7}]},{"hash":"964409446944722222","title":"Cell cycle, cytoskeleton, and stress signaling","description":"The top GO terms point to cell-cycle processes (mitotic cell cycle, sister chromatid cohesion, G0 to G1 transition) and cytoskeleton dynamics (actin filament depolymerization), with supporting signals from cilium assembly. There are also stress-related pathways (ER-stress\u2013induced apoptosis, hypoxia response) and signaling modulation (autophosphorylation, methylation), suggesting a cluster broadly tied to cell-cycle control and structural remodeling in the context of cellular stress.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060271","count":6},{"id":"GO:0070059","count":5},{"id":"GO:0007064","count":5},{"id":"GO:0071456","count":5},{"id":"GO:0000278","count":5}]},{"hash":"1454237171579974946","title":"Neuronal synapse regulation and trafficking","description":"The top GO terms point to synaptic plasticity (LTP/LTD), synaptic vesicle turnover, and receptor internalization, with related cues about dendritic spine maintenance and social behavior, all indicative of neuronal synapse modulation. Additional terms about lysosome localization and ER stress\u2013related signaling suggest intracellular trafficking and quality-control processes that influence synaptic function, forming a coherent cluster of proteins involved in synaptic regulation and vesicle trafficking.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900273","count":3},{"id":"GO:0035176","count":3},{"id":"GO:0060292","count":3},{"id":"GO:0061462","count":3},{"id":"GO:0031623","count":2}]},{"hash":"956357888144876692","title":"Neuronal ion transport and synaptic plasticity","description":"The top GO terms point to ion transmembrane transport of potassium and sodium, together with several synaptic plasticity-related processes (short-term regulation, long-term depression) and memory. This suggests a cluster of proteins involved in neuronal signaling and activity-dependent plasticity, with additional hints from cAMP signaling and dendrite-related morphogenesis that fit a neural control context. While there are some broader cellular processes noted (mitochondrial distribution, neuron survival), the strongest theme is ion transport linked to synaptic plasticity in neurons.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0007613","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0048172","count":2},{"id":"GO:0060292","count":2}]},{"hash":"1347644260072463131","title":"Spliceosome-Mediated mRNA Processing and Translation Control","description":"This cluster is dominated by GO terms for mRNA splicing via the spliceosome, formation of the translation preinitiation complex, translation reinitiation, and regulation/stabilization of mRNA, indicating a shared role in post-transcriptional gene regulation at both RNA processing and translation levels. While there are a few terms related to RNA silencing and viral translation, the core signal reflects spliceosome-driven mRNA processing and control of translation.","confidence":"High","size":14,"edges":20,"triangles":4,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":8},{"id":"GO:0001731","count":7},{"id":"GO:0002188","count":7},{"id":"GO:0048026","count":7},{"id":"GO:0031047","count":7}]},{"hash":"1555179497059541265","title":"Lipid and steroid biosynthesis","description":"The cluster is enriched in biosynthetic processes for lipids and lipid-derived molecules: fatty acid elongation, mycolic acid and poly-hydroxybutyrate biosynthesis, retinol/retinoic acid metabolism, and C21-steroid hormone metabolism, with additional hints of androgen catabolic and other steroid-related biosynthesis. Together, these terms point to lipid- and steroid-related metabolic pathways as the cohesive theme.","confidence":"Medium","size":14,"edges":13,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0042619","count":4},{"id":"GO:0030497","count":2},{"id":"GO:0002138","count":2},{"id":"GO:0006710","count":2}]},{"hash":"528243215258051118","title":"GTPase-regulated filopodium formation and cell migration","description":"This cluster is dominated by GO terms linking small GTPase signaling (positive/negative regulation of GTPase activity, small GTPase-mediated signal transduction) with filopodium assembly and actin cytoskeleton remodeling, plus regulation of fibroblast migration. Additional terms about endosome localization and SNARE disassembly suggest membrane trafficking roles that often accompany cytoskeletal dynamics and migration. Overall, the common theme is GTPase-driven actin remodeling leading to filopodium formation and cell movement.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051489","count":3},{"id":"GO:0034260","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0043547","count":3}]},{"hash":"148771188420546631","title":"Metabolism and Redox Homeostasis","description":"The cluster's top GO terms cluster around core metabolism and energy balance\u2014glycolytic process, thiamine biosynthesis, leucine and uracil catabolism, and cellular redox homeostasis\u2014suggesting a metabolism-focused group. A few outliers (antibiotic biosynthesis, defense response to virus, and some obsolete terms) exist but do not define the main function. Therefore, a metabolism- and redox-centric label is most representative.","confidence":"High","size":14,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0006096","count":2},{"id":"GO:0009228","count":2},{"id":"GO:0006552","count":2}]},{"hash":"876011102834277398","title":"Transcription and Ribosome Biogenesis","description":"This cluster is dominated by gene expression processes: transcription by RNA polymerase II and DNA-templated transcription, transcription termination/antitermination, along with translation and ribosome biogenesis/assembly. A couple of outliers (retina development; GPCR internalization) exist but do not override the main theme.","confidence":"Medium","size":14,"edges":9,"triangles":1,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0001172","count":3},{"id":"GO:0006366","count":3},{"id":"GO:0006353","count":2}]},{"hash":"1498839085721235972","title":"TNF-NF-\u03baB inflammatory signaling","description":"The cluster is driven by terms related to tumor necrosis factor-mediated signaling and NF-kappaB pathway activation (IKK activity and I\u03baB phosphorylation), which together define a coherent inflammatory signaling module. Other terms (histone modification, redox, proprioception, germ-line cyst formation) appear peripheral and do not override the central inflammatory theme.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":2},{"id":"GO:0010039","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0019230","count":1},{"id":"GO:0036205","count":1}]},{"hash":"2122094508423617977","title":"Ethylene-driven fruit ripening and hormone metabolism","description":"The top GO terms show a strong emphasis on plant hormone biology and fruit maturation, especially ethylene biosynthesis and the ripening process, with supporting auxin, gibberellin, and salicylic acid catabolic pathways, and some ROS-related processes. Despite some outliers and no network connections, the dominant theme is plant hormone regulation linked to ripening, supporting this label.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009835","count":4},{"id":"GO:0001701","count":3},{"id":"GO:0010421","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0045487","count":3}]},{"hash":"1101910108401072060","title":"Secretory vesicle trafficking and secretion","description":"The GO terms cluster around ER-Golgi transport, intra-Golgi and Golgi-to-plasma membrane trafficking, Golgi ribbon formation, and various secretory/exocytic processes (neutrophil degranulation, mucus and histamine secretion, synaptic vesicle exocytosis), indicating a cohesive role in the secretory pathway and vesicle trafficking.","confidence":"High","size":14,"edges":13,"triangles":2,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":6},{"id":"GO:0043001","count":4},{"id":"GO:0090316","count":4},{"id":"GO:0016079","count":3},{"id":"GO:0032869","count":3}]},{"hash":"127941301859900577","title":"Osmoregulation and xenobiotic detoxification","description":"The cluster includes terms tied to water homeostasis and osmotic stress (renal water homeostasis, response to water deprivation, potassium ion transport) as well as responses to xenobiotics and metals (cadmium ion response, daunorubicin metabolic process). Together, these terms suggest a theme of managing osmotic/ionic balance while handling detoxification of xenobiotics, leading to a concise label that captures both aspects. Some terms (e.g., retinol metabolism, D-xylose catabolism) are more peripheral, so the overall signal remains moderate in specificity.","confidence":"Medium","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0003091","count":6},{"id":"GO:0071276","count":6},{"id":"GO:0044597","count":6},{"id":"GO:0001516","count":6}]},{"hash":"2161504692136885305","title":"Cerebellar development and neural regulation","description":"The cluster is dominated by terms tied to cerebellar development, notably cerebellar cortex formation and Bergmann glial cell differentiation, with related neural processes such as axon regeneration. While other terms touch on signaling pathways and cell cycle regulation, the cerebellar neurodevelopmental terms provide the most coherent thematic link for this set of proteins.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045736","count":12},{"id":"GO:0050852","count":12},{"id":"GO:0008286","count":12},{"id":"GO:0060020","count":12},{"id":"GO:0048679","count":12}]},{"hash":"970705922204849171","title":"Ubiquitin-Mediated NF-\u03baB/JNK Signaling","description":"This cluster is dominated by ubiquitin-dependent protein catabolic processes and regulators of NF-\u03baB and JNK signaling (e.g., activation of I-kappaB kinase, I\u03baB phosphorylation). The presence of histone ubiquitination-related terms suggests coupling to chromatin regulation via ubiquitin, but the core theme centers on ubiquitin-mediated signaling and stress-activated kinase pathways.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0036205","count":9},{"id":"GO:0007250","count":9},{"id":"GO:1903721","count":9},{"id":"GO:2000620","count":9}]},{"hash":"1678703064389330706","title":"Axon guidance and innate immune signaling","description":"The top GO terms indicate both neural development (axon guidance and extension) and innate immune responses (detection and cellular response to lipopolysaccharide, TH1-type responses, interferon production). This suggests a cluster of proteins involved in neuroimmune signaling or crosstalk between neural development and immune pathways.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021972","count":2},{"id":"GO:0071727","count":2},{"id":"GO:0032497","count":2},{"id":"GO:0042088","count":2},{"id":"GO:0070100","count":2}]},{"hash":"363727563187117736","title":"Tissue Development and Morphogenesis","description":"These proteins are linked to a wide array of developmental and morphogenetic processes across different tissues (pancreatic development, endocrine system development, cartilage morphogenesis, heart cushion EMT, hair follicle morphogenesis, palate formation, trophoblast differentiation, vulval fate, eye morphogenesis, etc.). The common thread is broad developmental differentiation and tissue morphogenesis rather than a single, cohesive pathway. Given the varied organ contexts and lack of a single shared function, the cluster represents general developmental themes rather than a specific process.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":1},{"id":"GO:0035270","count":1},{"id":"GO:0060536","count":1},{"id":"GO:0003198","count":1},{"id":"GO:0031069","count":1}]},{"hash":"1485425478239693317","title":"Calcium-Dependent Synaptic Signaling","description":"The GO terms center on neurotransmitter secretion and synaptic vesicle cycling (endocytosis/exocytosis) and a cellular response to calcium ion, indicating calcium-driven synaptic transmission. Additional terms about VEGF receptor signaling and cardiac muscle contraction suggest calcium\u2019s broad role in signaling across neurons and muscle tissues. Some cell-cycle and apoptotic terms appear as ancillary processes but do not redefine the core theme. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007269","count":2},{"id":"GO:1900242","count":2},{"id":"GO:0030948","count":2},{"id":"GO:0060048","count":2},{"id":"GO:0000086","count":2}]},{"hash":"1257577417455591540","title":"Immune signaling and apoptotic cluster","description":"This cluster centers on GO terms related to immune signaling (T cell receptor signaling, IL-3 production regulation), nitric oxide response, platelet-related processes, and apoptosis. The combination suggests a cohesive theme of immune/hematopoietic signaling with cell death regulation, even though there are no observed edges. Therefore the label \"Immune signaling and apoptotic cluster\" captures the core shared functions.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0016188","count":2},{"id":"GO:0070527","count":2},{"id":"GO:0043366","count":2},{"id":"GO:0010641","count":2}]},{"hash":"1315168430410477639","title":"Developmental cell migration and polarity","description":"The terms center on cell movement, epithelial polarity, and developmental processes (cell migration, actin organization, and multicellular development), with supporting signals from cytoskeletal and transcriptional/translation processes. This suggests the cluster represents proteins involved in morphogenesis and polarity during development rather than a single enzymatic pathway.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016477","count":4},{"id":"GO:0000209","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1347494920897813588","title":"Cardiopulmonary stress signaling","description":"The top GO terms point to heart contraction regulation, calcium handling, hypoxia response, hormonal and toxin responses, lung development, and neurotransmitter secretion, suggesting a shared theme of stress-responsive signaling across cardiopulmonary and related tissues.","confidence":"High","size":13,"edges":12,"triangles":4,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0098735","count":13},{"id":"GO:0060487","count":13},{"id":"GO:0090281","count":13},{"id":"GO:0071456","count":13},{"id":"GO:0007269","count":13}]},{"hash":"73743102870529038","title":"Muscle and Heart Development with Angiogenesis","description":"This cluster is enriched for myoblast fusion, heart development, and angiogenesis, plus multicellular development and responses to muscle activity, indicating coordinated muscle formation with vascularization; VEGF pathway regulation and cell cycle/growth-related terms reflect development and proliferation during organ formation.","confidence":"High","size":13,"edges":9,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030948","count":10},{"id":"GO:0007520","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0001525","count":8},{"id":"GO:0000086","count":8}]},{"hash":"948980735367558918","title":"DNA replication and mitotic cell cycle control","description":"This cluster is dominated by GO terms related to DNA replication, DNA-templated transcription, centrosome cycle, kinetochore localization, mitotic checkpoint signaling, and regulation of CDKs, pointing to coordinated DNA replication and mitotic cell cycle regulation. A few terms like viral process or development-related processes appear but do not outweigh the core theme of replication and cell-cycle control.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0016032","count":3},{"id":"GO:0048701","count":3},{"id":"GO:0010571","count":3}]},{"hash":"123827812432255034","title":"RNA splicing and translation regulation","description":"The cluster is dominated by RNA processing and translation-control terms: multiple spliceosome-related processes (mRNA splicing, splice site recognition, spliceosome involvement) and regulation of translation initiation and preinitiation complex formation, plus mRNA stability under stress and ncRNA-mediated gene silencing. This suggests a cohesive role in RNA metabolism coupled to translation regulation.","confidence":"High","size":13,"edges":77,"triangles":275,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":11},{"id":"GO:0048026","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0000398","count":7},{"id":"GO:0006376","count":7}]},{"hash":"1737737249625623254","title":"Chromatin remodeling and DNA repair","description":"Proteins in this cluster are enriched for chromatin remodeling, multiple DNA repair pathways (base-excision, alkylation repair), DNA recombination, and transcriptional regulation, which together point to a role in maintaining chromatin structure and genome integrity, with some stress-responsive signals (light/folic acid/ethanol) accompanying these core functions.","confidence":"High","size":13,"edges":51,"triangles":124,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0009416","count":2},{"id":"GO:0006307","count":2}]},{"hash":"1409430024698179963","title":"Organ Development and Immune Signaling","description":"This cluster features GO terms spanning multiple organ development (retina, osteoblast, endocrine pancreas, dorsal identity) alongside tissue repair and immune signaling (IL-4 response, type II interferon production) and a basic transcription process, suggesting proteins involved in broad developmental programs with immune/stress signaling roles rather than a single pathway.","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":9},{"id":"GO:0035470","count":6},{"id":"GO:0071353","count":5},{"id":"GO:0060041","count":5},{"id":"GO:0002076","count":5}]},{"hash":"1841028755957502800","title":"Fungal-immune activation and B cell signaling","description":"The cluster shows enrichment for innate fungal recognition (cellular response to molecule of fungal origin) and complement activation, alongside adaptive B cell\u2013related processes (B cell receptor signaling and follicular B cell differentiation). Additional terms point to regulation of phagocytosis and common signaling pathways (Rho, Ras, PI3K) that coordinate immune cell activation, migration, and cytoskeletal changes in fungal responses.","confidence":"High","size":13,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":8},{"id":"GO:0050764","count":5},{"id":"GO:0050861","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0038028","count":5}]},{"hash":"1985160659152601948","title":"Auditory and mechanosensory signaling with circadian regulation","description":"The cluster is enriched for terms tied to hearing and mechanosensation (sensory perception of sound, detection of mechanical stimulus, startle response), neural signaling (GABA pathway, calcium and potassium ion transport), and behavioral regulation (locomotory behavior, circadian sleep/wake cycle). The inclusion of optic nerve morphogenesis also points to broader nervous system development. Taken together, these terms suggest a cohesive focus on nervous system sensory processing and the resulting motor/circadian responses.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051971","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0071805","count":4},{"id":"GO:0098703","count":4},{"id":"GO:0050910","count":4}]},{"hash":"1486266517401181878","title":"Neural development and axon guidance","description":"The terms point to neural patterning and connectivity, with motor neuron axon guidance, cholinergic synaptic signaling, and neuronal-glial interactions driving neural development. While some terms touch broader organ development, the dominant signal is neural development and axon pathfinding, supported by planar polarity/axon guidance associations. ","confidence":"High","size":13,"edges":53,"triangles":124,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:1905812","count":4},{"id":"GO:0048731","count":4},{"id":"GO:0060971","count":4},{"id":"GO:0007213","count":4},{"id":"GO:1904938","count":4}]},{"hash":"466200318353107925","title":"Ribosome and Translation Machinery","description":"The top GO terms center on translation and ribosome assembly (translation, ribosomal large subunit assembly, translational termination), signaling that the cluster mainly reflects protein synthesis machinery. Other terms like endocytosis or nervous system development are present but less central, likely representing multifunctional proteins rather than core cluster function.","confidence":"High","size":13,"edges":73,"triangles":236,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0000027","count":4},{"id":"GO:0046677","count":2},{"id":"GO:0006415","count":2},{"id":"GO:0071333","count":2}]},{"hash":"67156621524890646","title":"Embryonic Development Regulators","description":"This cluster centers on developmental processes and organogenesis, with GO terms covering gastrulation, axis elongation, pancreas development, and hemopoiesis, plus regulation of transcription during development and cell growth. The terms suggest a broad, development-focused theme rather than a single pathway, justifying a label like embryonic development regulators, though the spread across organ systems lowers the specificity to a single process. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":1},{"id":"GO:0060215","count":1},{"id":"GO:0060029","count":1},{"id":"GO:0031016","count":1},{"id":"GO:0060770","count":1}]},{"hash":"2090209622967823705","title":"Vacuolar amino acid transport","description":"The dominant GO terms describe transmembrane import of various amino acids (tyrosine, proline, histidine, lysine, serine, alanine, asparagine) into the vacuole, with at least one related export term for lysine. This points to a cohesive function of amino acid trafficking across the vacuolar membrane, rather than a single substrate or unrelated processes. Confidence is High.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090514","count":2},{"id":"GO:0015824","count":2},{"id":"GO:1901482","count":2},{"id":"GO:0051365","count":2},{"id":"GO:0006867","count":2}]},{"hash":"1416201469521784169","title":"Embryonic organogenesis","description":"This cluster\u2019s top GO terms point to broad developmental processes across multiple tissues, including heart patterning, skeletal muscle development, retinal axon guidance, spinal cord neuron differentiation, and kidney ureteric bud elongation, all within multicellular organism development. The presence of a gene-expression regulatory term suggests these proteins participate in developmental regulation and organogenesis rather than a single tissue-specific function.","confidence":"High","size":13,"edges":30,"triangles":6,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":11},{"id":"GO:0021759","count":10},{"id":"GO:0060971","count":7},{"id":"GO:0061055","count":7},{"id":"GO:0060580","count":7}]},{"hash":"1405662845135937","title":"Neuroinflammation and neural development","description":"The cluster includes GO terms for cellular responses to tumor necrosis factor and interleukin-1 (inflammation) alongside nervous system processes such as startle response, prepulse inhibition, peripheral nervous system axon regeneration, forebrain proliferation, and embryonic forelimb morphogenesis, suggesting a link between immune signaling and neural development/remodeling with related behavioral outcomes.","confidence":"Medium","size":13,"edges":23,"triangles":12,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0071356","count":3},{"id":"GO:0071347","count":3},{"id":"GO:0001964","count":3},{"id":"GO:0060134","count":2},{"id":"GO:0045892","count":2}]},{"hash":"688592268713725639","title":"Ciliary and flagellar movement and axoneme assembly","description":"The top GO terms center on cilium/flagellum function: positive regulation of cilium movement, sperm axoneme assembly, and flagellated sperm motility, plus epithelial cilium movement. Microtubule severing and protein polyglutamylation further support microtubule-based ciliary machinery. While a few terms touch broader processes (renal system, sebaceous gland development), the dominant signal is ciliary/flagellar structure and motility, suggesting the cluster represents cilium/flagellum assembly and movement.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042144","count":2},{"id":"GO:0003014","count":1},{"id":"GO:0018230","count":1},{"id":"GO:0048733","count":1},{"id":"GO:0051013","count":1}]},{"hash":"250205003924512080","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning neural signaling (GABA pathway, prepulse inhibition, long-term synaptic potentiation) and development (imaginal disc-derived wing morphogenesis, posterior lateral line system development) as well as unrelated processes (fungicide response, ectoine transport, and miscellaneous signaling). There is no single cohesive function or pathway linking all proteins in this cluster, so a specific, representative label cannot be assigned.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060992","count":2},{"id":"GO:0060134","count":1},{"id":"GO:0007214","count":1},{"id":"GO:0051470","count":1},{"id":"GO:0097011","count":1}]},{"hash":"2012288252254024466","title":"Muscle and heart development with angiogenesis","description":"The cluster includes GO terms centered on muscle formation and activity (myoblast fusion, response to muscle activity), cardiac development (heart development, G2/M transition in mitotic cycle), and angiogenesis, suggesting a cohesive developmental program for muscle and heart tissues with supporting vascular growth. While Schwann cell development and apoptotic regulation appear, the dominant theme points to myogenesis/heart development and associated proliferation and vascularization rather than a single specialized pathway.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007520","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0001525","count":5},{"id":"GO:0000086","count":5},{"id":"GO:0043065","count":5}]},{"hash":"904615620289186115","title":"DNA replication and RNA processing","description":"This cluster is dominated by GO terms tied to nucleic acid metabolism, including DNA replication, transcription, and RNA processing (plus nonsense-mediated decay and DNA unwinding). The presence of viral replication and processing terms, along with autophagy-related host interaction terms, suggests these proteins participate in nucleic acid metabolism with contexts involving viral infection or host responses. Overall, the core theme appears to be replication and processing of nucleic acids, with viral-host interaction facets.","confidence":"Medium","size":12,"edges":11,"triangles":4,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0000184","count":4},{"id":"GO:0006268","count":3},{"id":"GO:0009432","count":3},{"id":"GO:0039694","count":3}]},{"hash":"362097675120058414","title":"DNA replication and chromatin regulation","description":"The proteins cluster around DNA replication (primer synthesis, replication) and chromatin-related processes (nucleosome density, heterochromatin maintenance, histone modification) and RNA surveillance/gene silencing (TRAMP pathway, post-transcriptional silencing), indicating a genome-maintenance module that links replication with chromatin state and RNA processing.","confidence":"High","size":12,"edges":43,"triangles":88,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":9},{"id":"GO:0006311","count":8},{"id":"GO:0071038","count":8},{"id":"GO:0060303","count":8},{"id":"GO:0014070","count":8}]},{"hash":"631564027806654442","title":"RNA splicing and translation regulation","description":"The top GO terms cluster around RNA processing and splicing (spliceosome-mediated mRNA splicing, splice site recognition, mRNA stabilization, and polyadenylation) as well as translation control (formation of the preinitiation complex, translation reinitiation, and viral translation termination-reinitiation), with an additional note on regulatory ncRNA-mediated gene silencing. This points to a functionally coherent group centered on post-transcriptional regulation at both splicing and translation levels, hence the label. ","confidence":"Medium","size":12,"edges":46,"triangles":86,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":5},{"id":"GO:0006378","count":5},{"id":"GO:0048026","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0001731","count":4}]},{"hash":"1788793643807608336","title":"NF-kappaB\u2013mediated inflammatory regulation","description":"Proteins in this cluster show enrichment for inflammatory response, regulation of IL-1\u03b2 production, non-canonical NF-kappaB signaling, and defense against bacteria, with a few development terms that may reflect tissue context. The dominant theme is NF-kappaB\u2013driven immune/inflammatory signaling, so this label is representative of the cluster\u2019s function.","confidence":"High","size":12,"edges":4,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":3},{"id":"GO:0060658","count":2},{"id":"GO:0072224","count":2},{"id":"GO:0060427","count":2},{"id":"GO:0032651","count":2}]},{"hash":"809033858196018568","title":"RNA processing and translation regulation","description":"This cluster centers on translation initiation and its control (formation of the preinitiation complex, regulation and reinitiation, IRES-dependent initiation) and on RNA processing (spliceosome-mediated alternative splicing), pointing to a shared theme of RNA metabolism and translation control. Some terms (macrophage activation, D-serine transport) are less connected, suggesting mixed functions overall.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010923","count":3},{"id":"GO:0075525","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0075522","count":2}]},{"hash":"460451574644395157","title":"ESCRT-mediated vesicle trafficking and viral budding","description":"These proteins are enriched for ESCRT-dependent membrane trafficking: multivesicular body assembly, ubiquitin-dependent sorting via the MVB pathway, and both host ESCRT-facilitated and regulated viral budding. While there are also terms for ion transport and ATP export, the strongest cohesive signal is the ESCRT/MVB\u2013driven vesicle trafficking and budding function.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0036258","count":1},{"id":"GO:0039702","count":1},{"id":"GO:1902188","count":1}]},{"hash":"16947811639573476","title":"Retroviral integration and proviral latency","description":"This cluster is characterized by GO terms centered on the retroviral life cycle: DNA integration, RNA-templated DNA biosynthesis (reverse transcription), DNA replication/recombination, viral entry into the host nucleus, and establishment of integrated proviral latency, plus host interaction terms related to apoptosis and RNA silencing. The combination strongly suggests processes involved in retroviral infection and maintenance of proviral genomes.","confidence":"High","size":12,"edges":9,"triangles":0,"max_degree":9,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0046718","count":4},{"id":"GO:0039651","count":4},{"id":"GO:1903704","count":4}]},{"hash":"1949215937411936953","title":"Vesicle trafficking and membrane fusion","description":"These proteins cluster around membrane trafficking and vesicle dynamics, as reflected by GO terms for endocytosis, vesicle fusion (including Golgi), multivesicular body sorting, and secretory processes (neutrophil degranulation, synaptic potentiation). Regulation of Rho signaling ties in by modulating the cytoskeleton needed for vesicle transport and fusion. A couple of terms are peripheral (cell cycle exit, bacterial septum digestion), but the dominant theme is membrane trafficking and vesicle remodeling.","confidence":"Medium","size":12,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007520","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0048260","count":2},{"id":"GO:0043312","count":2}]},{"hash":"787692859394580460","title":"Neural signaling and behavior modulation","description":"Based on the most represented GO terms, the proteins appear linked to neural signaling and behavioral phenotypes: prepulse inhibition, response to amphetamine and morphine, regulation of sensory perception of pain, social behavior, and regulation of synaptic transmission (glutamatergic), plus a term for visual learning. Although there are a couple of peripheral terms (cell wall macromolecule catabolic process, ectoine transport) that likely reflect annotation noise or multi-organism data, the dominant pattern points to neuronal communication and behavioral regulation.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060134","count":5},{"id":"GO:0001975","count":4},{"id":"GO:0008542","count":4},{"id":"GO:0016998","count":4},{"id":"GO:0051930","count":4}]},{"hash":"2292685451100858154","title":"Neuroendocrine and metabolic signaling","description":"The top GO terms show a focus on nervous-system functions (temperature response, pain perception, prepulse inhibition) along with metabolic regulation (diet-induced thermogenesis, insulin secretion, acetylcholine metabolism) and signaling pathway control (PKA activity). Immune-related terms are present but seem less central, suggesting the cluster represents coordinated neuroendocrine and metabolic signaling with some immune regulation. ","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":10},{"id":"GO:0019233","count":10},{"id":"GO:0002024","count":10},{"id":"GO:0060134","count":9},{"id":"GO:2000479","count":9}]},{"hash":"589939321913189087","title":"Ion transporters and immune signaling proteins","description":"The cluster is dominated by ion transmembrane transport terms (potassium and sodium channels), indicating membrane ion transporters. It also includes immune-related signals (NF-kappaB regulation, type II interferon production, LPS response, and B cell proliferation), suggesting a group of membrane proteins that couple ion transport with immune signaling pathways. Overall, the strongest signal is ion transport, with notable immune function hints, but no single cohesive function across all proteins.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0051092","count":2},{"id":"GO:0032609","count":2},{"id":"GO:0046887","count":2}]},{"hash":"410835950065675659","title":"Wnt signaling with tissue development and ECM remodeling","description":"Top GO terms suggest a core focus on Wnt signaling intertwined with tissue development and extracellular matrix remodeling (biomineral tissue development, post-embryonic development, elastin catabolic process). Additional terms related to coagulation/fibrinolysis, inflammatory signaling, and oxidative detoxification may reflect remodeling contexts where development, ECM turnover, and immune responses intersect. Overall, the cluster appears to represent signaling-driven development and ECM remodeling processes, with some peripheral inflammatory/coagulation associations.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":3},{"id":"GO:0098869","count":2},{"id":"GO:0051919","count":2},{"id":"GO:0060309","count":2},{"id":"GO:0002542","count":2}]},{"hash":"1314308129474707462","title":"Photoreceptor Visual Perception and GPCR Internalization","description":"The Top Terms point to vision and retina-related processes (visual perception, retina development, photoreceptor cell maintenance) and GPCR trafficking/internalization, suggesting proteins involved in photoreceptor signaling and maintenance. Some unrelated terms may be annotations noise, but the core theme centers on photoreceptor function.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002031","count":2},{"id":"GO:0042742","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0060041","count":2},{"id":"GO:0045494","count":2}]},{"hash":"179823009989433823","title":"Developmental signaling and cell polarity regulation","description":"The cluster shows enrichment for developmental signaling (bone development, canonical Wnt signaling) and regulation of phosphorylation, plus terms tied to cell polarity and growth processes (budding, septation, cell shape). The presence of an innate immune response term adds some immune signaling context, suggesting these proteins participate in broader signaling networks that coordinate development and cellular organization. Overall, a coherent theme is signaling-driven control of development and polarity, with ancillary immune-related roles.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0010923","count":2},{"id":"GO:0031031","count":1}]},{"hash":"1513660560366708893","title":"Nuclear Chromatin Regulation and DNA Replication","description":"The term set centers on chromatin state and genome maintenance (heterochromatin maintenance, nucleosome density, histone acetylation regulation), plus core DNA replication steps and transcriptional/post-transcriptional silencing. TRAMP tRNA surveillance and related RNA processing terms also occur in nuclear contexts, reinforcing a theme of nuclear genome maintenance involving chromatin regulation and RNA silencing.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006311","count":11},{"id":"GO:0071038","count":11},{"id":"GO:0060303","count":11},{"id":"GO:0014070","count":11},{"id":"GO:2000616","count":11}]},{"hash":"348548185273747114","title":"Protein folding, quality control, and trafficking","description":"This cluster centers on unfolded and misfolded protein handling, chaperone activity, and associated transport/targeting processes (protein complex oligomerization, post-translational targeting to membranes, misfolded protein transport, and regulation of protein export from the nucleus). Redox homeostasis and regulation of ATP-dependent activity further support a proteostasis/quality-control theme, with some signaling modulation reflected by kinase activity effects.","confidence":"High","size":11,"edges":46,"triangles":108,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051259","count":4},{"id":"GO:0006986","count":4},{"id":"GO:0097428","count":4},{"id":"GO:0032781","count":4},{"id":"GO:0045454","count":4}]},{"hash":"1890248455591455881","title":"Neural and Cardiac Development with Cell Cycle Regulation","description":"The top GO terms cluster around development of neural-related tissues (retinal cone cells, Schwann cells, axonogenesis, excitatory synaptic activity) and cardiac tissues (heart development, hypertrophy signaling), with supporting roles for cell-cycle control and apoptosis/phosphorylation regulation, suggesting a shared developmental program spanning neural and cardiac lineages plus basic cell-cycle signaling.","confidence":"Medium","size":11,"edges":22,"triangles":16,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":9},{"id":"GO:0000086","count":9},{"id":"GO:0046549","count":9},{"id":"GO:0043065","count":9},{"id":"GO:0010800","count":9}]},{"hash":"2231253797180173074","title":"Organogenesis and neural development","description":"The top GO terms point to developmental differentiation and morphogenesis across multiple tissues (heart structures like sinoatrial node and septum, neural development including GABAergic neuron differentiation, and sensory/other organ development such as inner ear and renal tissue). This suggests a shared theme of embryonic organogenesis and neural differentiation rather than a single specific pathway, so a broad \u201cOrganogenesis and neural development\u201d label is appropriate.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0061682","count":8},{"id":"GO:0021858","count":8},{"id":"GO:0061103","count":8},{"id":"GO:0007540","count":8},{"id":"GO:0072141","count":8}]},{"hash":"457930344943638686","title":"RNA Processing and Translational Regulation","description":"Proteins in this cluster are linked to mRNA splicing and spliceosome regulation, mRNA stabilization, regulatory ncRNA-mediated gene silencing, and multiple facets of translational control (preinitiation complex formation, initiation regulation, and IRES-dependent translation), including viral contexts. The shared theme centers on post-transcriptional RNA processing and control of protein synthesis, suggesting a cohesive function in RNA maturation and translation regulation.","confidence":"High","size":11,"edges":38,"triangles":60,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006376","count":4},{"id":"GO:0048026","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0048255","count":4},{"id":"GO:0075525","count":4}]},{"hash":"190992512530763303","title":"Neural development and synaptic signaling","description":"The top GO terms point to neural development (brain and nervous system development) and signaling pathways involved in neural connectivity (Roundabout/axon guidance, Hedgehog signaling), plus regulation of synaptic vesicle exocytosis, suggesting a cohesive theme around neural development and synaptic communication. Some terms (T cell signaling, kidney development) are less directly related, but the dominant pattern centers on neural growth, guidance, and synaptic machinery, indicating a cluster focused on neuronal development and signaling. Confidence reflects a clear neural theme with a few outliers, so a Medium level of certainty is appropriate.","confidence":"Medium","size":11,"edges":53,"triangles":147,"max_degree":10,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0050852","count":5},{"id":"GO:0007420","count":5},{"id":"GO:2000300","count":5},{"id":"GO:0035385","count":5},{"id":"GO:0010796","count":5}]},{"hash":"399116326046895804","title":"Sulfation and Heparan Sulfate Proteoglycan Biosynthesis","description":"The cluster shows strong signals for sulfation-related processes (sulfate assimilation, protein sulfation) and for biosynthesis of heparan sulfate proteoglycans, including heparan sulfate proteoglycan biosynthetic pathways, pointing to a common theme of sulfated glycosaminoglycan production. Some other metabolic terms appear, but they do not override the core connection to sulfation and HS proteoglycan biosynthesis.","confidence":"High","size":11,"edges":9,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000103","count":4},{"id":"GO:0006477","count":3},{"id":"GO:0006068","count":3},{"id":"GO:0048702","count":3},{"id":"GO:0015015","count":3}]},{"hash":"162324408469738847","title":"Retroviral DNA Integration and Proviral Latency","description":"This cluster is dominated by GO terms tied to retroviral lifecycle steps: DNA integration, DNA replication, RNA-templated DNA biosynthesis, DNA recombination, viral entry into the nucleus, and establishing integrated proviral latency. These collectively point to retroviral genome integration and latency, with some additional terms reflecting virus\u2013host interaction and host defense modulation.","confidence":"High","size":11,"edges":10,"triangles":0,"max_degree":9,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":6},{"id":"GO:0006260","count":4},{"id":"GO:0046718","count":4},{"id":"GO:0039651","count":4},{"id":"GO:1903704","count":4}]},{"hash":"479205028938736045","title":"Bacterial vitamin and cofactor metabolism","description":"Top GO terms indicate vitamin and cofactor biosynthesis/metabolism (cobalamin, nicotinamide/nicotinate), plus diverse catabolic and nucleotide-related processes (uracil, creatinine, nitrogen utilization) and a bacterial secondary metabolite (phenazine). This points to a general bacterial metabolic module focusing on vitamins, cofactors, and nitrogen/nucleotide metabolism rather than a single pathway.","confidence":"Medium","size":11,"edges":51,"triangles":132,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0009236","count":2},{"id":"GO:1904524","count":2},{"id":"GO:0001302","count":2},{"id":"GO:0019358","count":2}]},{"hash":"1481342094264742613","title":"Mitochondrial central carbon metabolism","description":"The proteins show strong enrichment for core energy pathways, notably glycolysis and the tricarboxylic acid (TCA) cycle, along with related processes such as acetyl-CoA formation from pyruvate and 2-oxoglutarate metabolism, pointing to a focus on mitochondrial carbon flux and energy production. Additional terms like carnitine biosynthesis and leucine catabolism support broader mitochondrial catabolic networks, while a few obsolete terms and DNA integration are present but do not define the cluster\u2019s main theme.","confidence":"High","size":11,"edges":9,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":3},{"id":"GO:0006096","count":3},{"id":"GO:0061732","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0010510","count":2}]},{"hash":"784145594971052000","title":"Lipid and Steroid Biosynthesis","description":"This cluster is enriched for fatty acid elongation, mycolic acid biosynthesis, retinol and retinoic acid metabolism, and androgen/steroid metabolic processes, indicating a shared theme of lipid- and steroid/retinoid-based metabolism. The presence of broader biosynthetic terms like antibiotic and alkaloid biosynthesis suggests a broader lipid/terpenoid biosynthetic signature. Therefore, a concise label capturing lipid- and steroid/retinoid-related metabolism is appropriate.","confidence":"Medium","size":11,"edges":18,"triangles":1,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0030497","count":9},{"id":"GO:0002138","count":9},{"id":"GO:0006710","count":9},{"id":"GO:0042572","count":9}]},{"hash":"1547512206885427","title":"Unknown","description":"The GO terms are too heterogeneous to define a single shared function, spanning neural signaling, immune responses, exocrine secretion, and metabolic regulation.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046541","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0090116","count":1},{"id":"GO:0060134","count":1},{"id":"GO:2000479","count":1}]},{"hash":"1772815923635763727","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002938","count":1},{"id":"GO:0000453","count":1},{"id":"GO:0071049","count":1},{"id":"GO:0071038","count":1},{"id":"GO:0034475","count":1}]},{"hash":"1617179210822503001","title":"Diverse metabolite biosynthesis","description":"Based on GO terms centered on biosynthetic processes across compounds such as anthocyanins, antibiotics, mycolic acids, retinoids, steroids, and alkaloids, the proteins in this cluster appear to participate in production of various metabolites rather than a single pathway, hence a high-level label of diverse metabolite biosynthesis. Some terms touch primary lipid metabolism (fatty acid elongation), but the overarching theme is synthesis of a range of metabolites.","confidence":"High","size":11,"edges":4,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0009718","count":4},{"id":"GO:0030497","count":4},{"id":"GO:0002138","count":4},{"id":"GO:0006710","count":4}]},{"hash":"1504651780256204495","title":"Neural Ion Channel Signaling","description":"These terms converge on neural signaling driven by ion channels: heavy representation of potassium and sodium transmembrane transport, GABA signaling, and excitatory postsynaptic potential point to neuronal excitability and synaptic transmission. Additional terms like sensory perception of sound, optic nerve morphogenesis, and circadian regulation reflect broader neural development and brain-wide functions, but the core pattern is ion-channel\u2013mediated neural signaling.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":5},{"id":"GO:0035725","count":5},{"id":"GO:0050910","count":4},{"id":"GO:0007214","count":4},{"id":"GO:0060079","count":4}]},{"hash":"2150724789762618788","title":"Unknown","description":"The top terms are diverse and only weakly related, including energy metabolism (oxidative phosphorylation, ATP biosynthesis), autophagy (autophagosome maturation, oxidation-dependent protein catabolic process), transcription elongation, DNA replication, and vesicle trafficking (SNARE disassembly), plus several obsolete GO terms. With no clear unifying function and no edges connecting the proteins, there isn\u2019t a coherent biological theme to label more specifically.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903862","count":1},{"id":"GO:0097352","count":1},{"id":"GO:2001170","count":1},{"id":"GO:0032968","count":1},{"id":"GO:0006288","count":1}]},{"hash":"1725578463478870542","title":"Neural sensing and cardiac ion transport","description":"This cluster combines neural sensory terms (temperature stimulus, pain perception, locomotory behavior, startle response) with ion transport and cardiac-related terms (calcium import, potassium transport, SA node action potential) and even heart development (outflow tract morphogenesis). The common theme appears to be neural signaling coordinating motor and autonomic/cardiac function through ion-channel\u2013related processes. Given some terms touch development rather than signaling, confidence is Medium.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":6},{"id":"GO:0019233","count":6},{"id":"GO:0002024","count":6},{"id":"GO:0098703","count":5},{"id":"GO:0045188","count":5}]},{"hash":"407764926109467006","title":"Chaperone-assisted protein folding and maturation","description":"The top GO terms point strongly to proteostasis: chaperone-dependent protein refolding, ATP-dependent activity, protein maturation, and regulation of protein export, all hallmarks of chaperone-assisted folding and maturation. Although a few terms touch on DNA replication or translation frameshifting, the dominant theme centers on protein folding quality control and maturation. ","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1900035","count":10},{"id":"GO:0006260","count":10},{"id":"GO:0070389","count":10},{"id":"GO:0090084","count":10},{"id":"GO:0006452","count":10}]},{"hash":"1198042324951166192","title":"Multi-Tissue Developmental Differentiation","description":"The proteins appear linked to diverse tissue- and organ-specific differentiation programs, including neural (amacrine and GABAergic neurons), floor plate and somitogenesis, lung vasculature, renal interstitial fibroblasts, carotid body cells, seminal vesicle morphogenesis, and sex-determination processes, with transcription by RNA polymerase II reflecting a broad regulatory role in development. This suggests a cohesive theme of developmental differentiation across multiple tissues rather than a single pathway.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":10},{"id":"GO:0035881","count":9},{"id":"GO:0033504","count":9},{"id":"GO:0001756","count":9},{"id":"GO:0060426","count":9}]},{"hash":"1802862257609923598","title":"RNA splicing and translation regulation cluster","description":"The top GO terms converge on mRNA splicing (splice-site recognition, spliceosome regulation), mRNA stabilization, and control of translation initiation (including IRES-dependent and preinitiation complex formation), suggesting a cohesive role in RNA processing and translational control, potentially linking splicing regulators with factors that modulate initiation and viral translation mechanisms.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006376","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0048255","count":3},{"id":"GO:0075525","count":3}]},{"hash":"2288614908827031384","title":"Ion and small-molecule membrane transporters","description":"The top GO terms are dominated by transmembrane transport for ions (sodium, potassium, calcium, phosphate) and small molecules (fructose, L-ascorbic acid, 4-hydroxyphenylacetate), suggesting a set of membrane proteins acting as transporters or channels. There are peripheral links to circadian sleep regulation and startle behavior, which can relate to neuronal ion homeostasis. Overall, the shared theme is membrane transport capability, especially ion transport, across various substrates.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":3},{"id":"GO:0071805","count":2},{"id":"GO:0098703","count":2},{"id":"GO:0045188","count":2},{"id":"GO:0001964","count":2}]},{"hash":"1306128044246723165","title":"Lung Epithelial Differentiation and EMT with Immune Modulation","description":"The top GO terms center on lung epithelial differentiation and epithelial-to-mesenchymal transition, along with tissue remodeling and immune regulation (T cell homeostasis, inflammatory response). Lymphangiogenesis and connective tissue replacement further suggest remodeling of the lung microenvironment, coordinated with immune signals. Overall, a cohesive theme of lung epithelium development, EMT-driven remodeling, and immune/tissue homeostasis.","confidence":"High","size":10,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060487","count":8},{"id":"GO:0001946","count":8},{"id":"GO:0051343","count":8},{"id":"GO:0007114","count":8},{"id":"GO:0043029","count":8}]},{"hash":"632864203476570507","title":"Skeletal muscle development and growth signaling","description":"The cluster\u2019s top GO terms center on skeletal muscle development and differentiation (skeletal muscle tissue development; myoblast differentiation involved in skeletal muscle regeneration) and growth-related signaling (positive regulation of PDGF receptor signaling; JUN phosphorylation). These indicate a core theme of muscle growth and differentiation signaling pathways, with JUN phosphorylation linking to MAPK signaling that drives myogenesis. Some terms in the set (immune T cell signaling, hippocampus development) suggest broader signaling roles, but the strongest enrichment remains in muscle-related development and growth signals.","confidence":"Medium","size":10,"edges":28,"triangles":43,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010641","count":9},{"id":"GO:0050852","count":9},{"id":"GO:0042523","count":9},{"id":"GO:0071732","count":9},{"id":"GO:0007519","count":9}]},{"hash":"1495404169334545475","title":"Nitrosative Stress Response and Redox Metabolism","description":"Top GO terms emphasize nitrosative stress response and peptidyl-cysteine S-nitrosylation, with a concurrent signal of defense (response to lipopolysaccharide). The presence of diverse metabolic terms (ethanol catabolic process, sorbitol catabolic process, PPP-related xylulose 5-phosphate biosynthesis, retinol metabolism, lignin biosynthesis) suggests metabolic remodeling tied to redox and stress signaling rather than a single, cohesive pathway. This combination supports a label centered on nitrosative stress response and redox-related metabolism.","confidence":"Medium","size":10,"edges":32,"triangles":45,"max_degree":9,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0032496","count":6},{"id":"GO:0051409","count":5},{"id":"GO:0018119","count":5},{"id":"GO:0006116","count":5}]},{"hash":"1907266409382250806","title":"Immune Signaling and Transcription Regulation","description":"The cluster's GO terms cluster around immune-related signaling (T cell receptor signaling, JNK cascade, STAT phosphorylation) and stress responses (nitric oxide signaling), coupled with transcriptional control (DNA-templated transcription) and protein homeostasis (ribosome biogenesis/export, proteasomal degradation). This suggests a cohesive network where signaling triggers transcriptional programs and protein turnover, typical of immune and stress-response processes.","confidence":"Medium","size":10,"edges":38,"triangles":77,"max_degree":9,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0032436","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0007254","count":3},{"id":"GO:0007049","count":2}]},{"hash":"1443656953841917116","title":"Neural development and apoptosis","description":"The cluster is dominated by GO terms tied to nervous system development, including forebrain development, neural tube closure, dendrite morphogenesis, and overall neural development, plus components of apoptotic signaling (ER stress\u2013induced intrinsic pathway and general apoptotic processes). The presence of DNA replication and cell cycle regulation terms (CDK inhibition) suggests proliferative neural progenitors, linking development with controlled survival and division. This combination points to a coherent theme of neural development intertwined with apoptosis and cell-cycle regulation.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070059","count":9},{"id":"GO:0048813","count":9},{"id":"GO:0006260","count":9},{"id":"GO:0007399","count":9},{"id":"GO:0030900","count":9}]},{"hash":"1737132113196931548","title":"Mesoderm Formation and Tissue Morphogenesis","description":"The top GO terms cluster around early embryonic development with an emphasis on mesoderm formation, tissue morphogenesis (cartilage), and EMT in heart development, plus left-right patterning and organogenesis. While there are some endocrine/endoderm-related terms, the dominant theme ties to mesodermal differentiation and morphogenetic processes.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001707","count":2},{"id":"GO:0046827","count":2},{"id":"GO:0035435","count":2},{"id":"GO:0003323","count":1},{"id":"GO:0035270","count":1}]},{"hash":"186709471598203096","title":"Proteostasis and protein quality control","description":"The top GO terms cluster around protein folding, maturation, transport of misfolded proteins, and quality-control processes (unfolded protein response, ATP-dependent activity, protein export regulation, and redox/homeostatic aspects), suggesting a cohesive proteostasis network rather than a single enzymatic function.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051259","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0097428","count":2},{"id":"GO:0032781","count":2},{"id":"GO:0045454","count":2}]},{"hash":"442717379158320122","title":"Neural signaling and sensory function","description":"Top terms center on neurotransmission and synaptic plasticity (excitatory postsynaptic potential, GABA signaling, transmission of nerve impulse, long-term potentiation) along with sensory functions (sound perception) and development of the visual system (optic nerve morphogenesis) and circadian regulation (REM sleep). This combination points to a cluster of proteins involved in neural communication and sensory system function.","confidence":"High","size":10,"edges":8,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":6},{"id":"GO:0007214","count":5},{"id":"GO:0021631","count":5},{"id":"GO:0042320","count":5},{"id":"GO:0045759","count":5}]},{"hash":"1731694883565511884","title":"Carbohydrate, lipid, and isoprenoid biosynthesis","description":"This cluster centers on a variety of biosynthetic processes: carbohydrate metabolism (galactose-related glycolysis and sugar salvage), lipid/isoprenoid pathways (farnesyl diphosphate and IPP biosynthesis via mevalonate and MEP, cholesterol biosynthesis), and some amino acid metabolism (L-homoserine and L-threonine biosynthesis). The common theme is metabolic biosynthesis across sugars, lipids, and isoprenoids, with a hint of galactose-regulated transcription. ","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0061623","count":2},{"id":"GO:0010142","count":2},{"id":"GO:0006695","count":2},{"id":"GO:0046835","count":2},{"id":"GO:0019287","count":2}]},{"hash":"2146485894560845739","title":"Retroviral Integration and Latency","description":"This cluster centers on terms from the retroviral life cycle: DNA integration, reverse transcription (RNA-templated DNA biosynthesis), DNA recombination and replication, viral penetration into the host nucleus, and establishment of integrated proviral latency. The mix of entry, genome integration, and latency terms strongly points to proteins involved in retroviral infection and provirus maintenance rather than unrelated DNA processes.","confidence":"High","size":10,"edges":41,"triangles":89,"max_degree":9,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0039651","count":3},{"id":"GO:1903704","count":3}]},{"hash":"2034391998077327013","title":"Unknown","description":"The terms cover transcription regulation, multiple signaling pathways, and neuronal/structural processes with no single cohesive theme, making a precise, representative label difficult.","confidence":"","size":10,"edges":15,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006368","count":2},{"id":"GO:0090116","count":2},{"id":"GO:0048096","count":1},{"id":"GO:0060988","count":1},{"id":"GO:1902237","count":1}]},{"hash":"173172226425298256","title":"Cell Cycle Regulation and Stress Signaling","description":"The cluster centers on mitotic processes (mitotic cell cycle, sister chromatid cohesion) and cell cycle control (G0 to G1 transition), with concurrent stress-response signals (ER-stress\u2013induced apoptosis, hypoxia response) and signaling modulation (tyrosine kinase activity). Actin filament depolymerization hints at cytoskeletal dynamics accompanying division. Some terms (fertilization, arginine methylation) are peripheral but do not override the central theme of coordinating proliferation with stress responses.","confidence":"Medium","size":10,"edges":11,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070059","count":1},{"id":"GO:0007064","count":1},{"id":"GO:0071456","count":1},{"id":"GO:0000278","count":1},{"id":"GO:0031954","count":1}]},{"hash":"464199788989593622","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by GO terms tied to protein synthesis, especially translation (GO:0006412) and ribosome biogenesis/cytosolic ribosome assembly, indicating involvement in ribosome production and translation. A few secondary terms touch on transcription regulation and DNA damage response, but these are much less represented, so the primary signal is the assembly of ribosomes and the process of translation. The cluster likely groups proteins functioning in the ribosome biogenesis pathway and in promoting or regulating translation.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0046677","count":3},{"id":"GO:0006353","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0042256","count":1}]},{"hash":"638765949566842550","title":"Axon guidance and synapse development","description":"Most of the top GO terms are related to neural development, specifically axon guidance, fasciculation, and synapse assembly, including corpus callosum development and corticospinal neuron guidance. A smaller subset relates to immune signaling, which may reflect multifunctional proteins or secondary associations, but the dominant theme is neural connectivity development. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048681","count":2},{"id":"GO:0007413","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0022038","count":2},{"id":"GO:0021972","count":1}]},{"hash":"1827506258917955774","title":"Chromatin Regulation and Nuclear Transcription","description":"The cluster's top terms center on chromatin localization and histone modification, mitotic sister chromatid cohesion, nucleolar transcription control, and dosage compensation, all pointing to chromatin organization and nuclear gene expression regulation. A few items like Rho signaling and keratinocyte differentiation appear peripheral to this core theme.","confidence":"Medium","size":10,"edges":7,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071169","count":7},{"id":"GO:0033128","count":6},{"id":"GO:0061086","count":6},{"id":"GO:0034184","count":6},{"id":"GO:1904815","count":6}]},{"hash":"1711845945234847745","title":"Neural development and myelination","description":"This cluster centers on neural development processes, with terms like positive regulation of synapse assembly, axonal fasciculation, corpus callosum development, and myelination, plus neuron guidance cues such as chemorepulsion of interneurons and juxtaparanode protein localization, indicating CNS axon growth and myelin formation. An outlier term for kidney development appears, but the dominant pattern reflects neural differentiation and maturation.","confidence":"High","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":5},{"id":"GO:0048671","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0042552","count":4},{"id":"GO:0007413","count":4}]},{"hash":"1023320017964638470","title":"Cardiovascular and renal development","description":"The top GO terms point to organ morphogenesis and vascular formation, notably heart-related (aortic valve morphogenesis, cardiac muscle growth, vasoconstriction) and kidney-related (proximal tubule development, glomerular capillary formation) processes, supported by signaling pathways (Notch, Wnt, FGF) and extracellular matrix synthesis (hyaluronan). This suggests a cohesive theme of development in cardiovascular and renal tissues. ","confidence":"High","size":10,"edges":10,"triangles":1,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1900127","count":8},{"id":"GO:0090271","count":8},{"id":"GO:0072014","count":8},{"id":"GO:0045747","count":8},{"id":"GO:0016330","count":8}]},{"hash":"474073253850316143","title":"LPS sensing and TLR4 signaling","description":"The cluster prominently features GO terms for lipopolysaccharide detection, cellular response to LPS, and Toll-like receptor 4 signaling, suggesting a cohesive innate immune module focused on recognizing bacterial LPS and propagating signaling. Secondary terms related to lipid metabolism and transport may reflect membrane context but do not redefine the core function.","confidence":"High","size":10,"edges":7,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":2},{"id":"GO:0031666","count":1},{"id":"GO:0034142","count":1},{"id":"GO:0019915","count":1},{"id":"GO:0032497","count":1}]},{"hash":"1669195118259015166","title":"Synaptic Transmission and Plasticity","description":"The top GO terms center on SNARE complex assembly, synaptic vesicle fusion, short- and long-term synaptic plasticity, and memory-related processes, indicating a cohesive neuronal synapse function and plasticity theme across the proteins.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035493","count":3},{"id":"GO:0032024","count":3},{"id":"GO:0048172","count":3},{"id":"GO:0031629","count":3},{"id":"GO:1990926","count":3}]},{"hash":"555084434188036808","title":"Regulated Signaling and mRNA Decay","description":"The top GO terms point to regulation of multiple signaling pathways (Wnt, PDGF receptor, T cell receptor; GTPase activity; STAT phosphorylation) together with mRNA catabolic processes, suggesting these proteins act as regulators of signal transduction and, in parallel, post-transcriptional gene expression. The mix indicates a general theme of signaling regulation with some RNA turnover links rather than a single pathway-specific function.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045647","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0042518","count":2},{"id":"GO:0061014","count":2}]},{"hash":"411973053120540551","title":"Plant nitrogen uptake and ammonium transport","description":"The top GO terms center on nitrogen utilization and various ammonium transport processes, with supporting terms for related nutrient transport and plant-root\u2013level responses (e.g., lateral root branching). This suggests a cohesive theme of nutrient acquisition and nitrogen metabolism in plants, despite a few outliers related to growth morphologies. ","confidence":"Medium","size":9,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007124","count":1},{"id":"GO:0006808","count":1},{"id":"GO:0001403","count":1},{"id":"GO:0060586","count":1},{"id":"GO:0080181","count":1}]},{"hash":"175010415563317332","title":"RNA Splicing and mRNA Stability Regulation","description":"This cluster centers on RNA processing and post-transcriptional control, with strong representation of mRNA splicing (spliceosome-mediated splicing, splice-site recognition, regulation of splicing) and mRNA stability regulation (stabilization, stress-responsive regulation, ncRNA-mediated silencing). A translation-related term appears but the dominant theme is RNA maturation and stability mechanisms, suggesting a cohesive function in RNA processing and gene expression regulation.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006376","count":7},{"id":"GO:0010610","count":7},{"id":"GO:0006378","count":7},{"id":"GO:0045292","count":7},{"id":"GO:0048026","count":6}]},{"hash":"271134388771881385","title":"Spliceosome and RNA Processing Factors","description":"These proteins are unified by roles in RNA metabolism: strong signals for mRNA splicing via the spliceosome, spliceosomal complex assembly, rRNA maturation, transcription termination, and mRNA decapping/processing. Nuclear import and P-body assembly also point to coordinated RNA processing in both nucleus and cytoplasm. Some terms related to chromatin and cell-cycle regulation may reflect broader regulatory context, but the core theme is spliceosome-enabled RNA processing. ","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":9},{"id":"GO:1990141","count":5},{"id":"GO:0070317","count":5},{"id":"GO:0030490","count":5},{"id":"GO:0051170","count":5}]},{"hash":"1407414977211804797","title":"Ribosome Biogenesis and Cell Cycle","description":"This cluster is strongly driven by GO terms for ribosome biogenesis and ribosomal subunit biogenesis/export, suggesting a core function in ribosome assembly. The co-occurring cell cycle/division terms imply coordination with cell growth and division, while a few other terms (iron transport, septum assembly) appear as secondary connections but do not redefine the main theme. Overall, the dominant signal is ribosome biogenesis with a link to cell cycle processes.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0015684","count":2}]},{"hash":"1809644588637383782","title":"Developmental morphogenesis and cell junction remodeling","description":"The top GO terms emphasize tissue development (pituitary gland development, multicellular organism development, embryonic heart tube patterning) and structural organization (cell-cell junction organization) alongside cytoskeletal dynamics (actin filament depolymerization), suggesting a shared role in developmental morphogenesis and adhesion-related remodeling. Some metabolic or stress-related terms are present but do not define the main theme.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":7},{"id":"GO:0055114","count":5},{"id":"GO:0030042","count":5},{"id":"GO:0019417","count":5},{"id":"GO:0007275","count":5}]},{"hash":"198753064056333512","title":"Mitotic Cell Cycle and Chromosome Cohesion","description":"This cluster is enriched for mitosis-related terms: mitotic cell cycle, mitotic spindle assembly, and mitotic sister chromatid cohesion, along with ubiquitination, pointing to proteins involved in chromosome segregation and cell-cycle control. While other terms like DNA-templated transcription, RNA guanine-N7 methylation, and stress responses appear, they are less central to the core mitotic theme but may reflect general cellular housekeeping or regulatory layers.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0090307","count":4},{"id":"GO:0000209","count":4},{"id":"GO:0036265","count":4}]},{"hash":"872966471813615669","title":"Cell growth, development, and RNA biogenesis","description":"These proteins cluster around growth and developmental processes (mitotic cell cycle, positive regulation of cell proliferation, multicellular organism development) and core RNA biology (ribosome biogenesis, mRNA transport). While other terms touch on stress responses and pigmentation, the dominant signals point to cellular growth and protein synthesis machinery associated with development. Confidence: Medium","confidence":"","size":9,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071456","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0031954","count":2},{"id":"GO:0051028","count":2},{"id":"GO:0043473","count":2}]},{"hash":"113487130028966974","title":"Prostaglandin/oxylipin biosynthesis in reproduction","description":"The top GO terms center on lipid mediators, with prostaglandin and oxylipin biosynthesis directly tying to reproductive processes (uterus development, maternal events in parturition). This suggests the cluster reflects lipid signaling pathways governing reproduction. Some terms like mitochondrial translation appear ancillary, but the dominant signal is prostaglandin/oxylipin\u2013mediated reproductive biology.","confidence":"Medium","size":9,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032543","count":3},{"id":"GO:0070989","count":3},{"id":"GO:0060065","count":3},{"id":"GO:0032094","count":3},{"id":"GO:0009624","count":3}]},{"hash":"1620621790589637631","title":"Unknown","description":"The terms span diverse processes, including lipid/sterol metabolism (unsaturated fatty acid biosynthesis, ergosterol biosynthesis regulation, MIPC metabolism), mitochondrial inheritance, nitrate assimilation, nitric oxide production, myelin maintenance, sebaceous gland differentiation, and apoptotic signaling. There is no clear unifying function or pathway linking these proteins, so a single coherent label cannot be assigned beyond Unknown.","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":1},{"id":"GO:0006636","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0032443","count":1},{"id":"GO:0001949","count":1}]},{"hash":"579082592509845428","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0032755","count":2},{"id":"GO:0060907","count":2},{"id":"GO:0032760","count":2},{"id":"GO:0042203","count":1},{"id":"GO:0055114","count":1}]},{"hash":"2120567715903588098","title":"GPCR Signaling and Second Messenger Pathways","description":"Dominant GO terms describe dopamine- and adrenergic-receptor signaling that activates phospholipase C and adenylate cyclase, as well as phototransduction; plus regulation of phosphatidylinositol biosynthesis and S1P receptor signaling. Together these indicate a cluster centered on GPCR-mediated signal transduction and its second messengers (IP3/DAG, cAMP). Some terms about heart development and coagulation reflect broader physiological contexts of these pathways, but the core theme is GPCR signaling networks.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060158","count":4},{"id":"GO:0007603","count":4},{"id":"GO:0007191","count":4},{"id":"GO:0010513","count":4},{"id":"GO:0007507","count":4}]},{"hash":"1495544498827009026","title":"Neural signaling and sensory-behavioral responses","description":"The top GO terms are dominated by brain-related functions: visual perception and learning, dopaminergic synaptic transmission, and behavioral responses to cocaine, plus sensory perception of pain. ERK1/2 cascade regulation and GTPase activity suggest neuronal signaling and plasticity. While there are a few non-neural terms (heart development, macrophage chemotaxis), the strongest, most frequent signals point to neural communication, sensory processing, and behavior as the cluster\u2019s core theme.","confidence":"Medium","size":9,"edges":32,"triangles":58,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071380","count":7},{"id":"GO:0008542","count":7},{"id":"GO:0070374","count":7},{"id":"GO:0010759","count":7},{"id":"GO:0007507","count":7}]},{"hash":"1855946997539181913","title":"Neural development and signaling","description":"Dominant GO terms point to neural development and signaling, including nervous system development, hippocampus development, dopamine response, and ERK cascade regulation, suggesting proteins involved in neuronal signaling and brain development. A few terms (T cell receptor signaling, mitotic cell cycle, apical junction assembly, respiratory burst) are broader or non-neural, which lowers the precision but does not overturn the main neural theme.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0043552","count":6},{"id":"GO:0000278","count":5}]},{"hash":"576111654684498964","title":"Cardiac development and zinc homeostasis","description":"The strongest signals are cardiac-related: Notch signaling in the second heart field, right atrium morphogenesis, and venous endothelial differentiation point to heart/vascular development. Zinc transport and intracellular zinc homeostasis terms accompany these, suggesting zinc regulation may be linked to cardiac development in this cluster.","confidence":"High","size":9,"edges":8,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0003270","count":2},{"id":"GO:0060843","count":2},{"id":"GO:0033280","count":2},{"id":"GO:0003213","count":2}]},{"hash":"917559481479974575","title":"Cytoskeletal dynamics in muscle growth and division","description":"The cluster is dominated by GO terms related to actin/cytoskeleton organization (actin cortical patch localization, skeletal muscle thin filament assembly, skeletal muscle fiber adaptation) and cell division (mitotic cytokinesis), along with cell polarity and migration (establishment/maintenance of cell polarity, mesenchyme migration). This points to a shared theme of cytoskeletal control underpinning muscle development, cell movement, and division. Some organelle inheritance terms (mitochondrion/vacuole inheritance) may reflect cytoskeletal roles in organelle partitioning rather than independent pathways.","confidence":"High","size":8,"edges":26,"triangles":45,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":7},{"id":"GO:0071963","count":7},{"id":"GO:0000011","count":7},{"id":"GO:0090131","count":7},{"id":"GO:0030240","count":7}]},{"hash":"2088786139205704875","title":"Mitotic spindle assembly and microtubule dynamics","description":"The top GO terms are dominated by mitosis- and microtubule-related processes\u2014spindle assembly, centrosome separation, and plus/minus-end microtubule sliding and microtubule cytoskeleton polarity\u2014indicating a cohesive cluster of proteins regulating microtubule dynamics during cell division. A few terms touch epithelial junction maintenance and epidermal stem cell homeostasis, which may reflect broader cytoskeletal roles in tissue organization, but the core theme remains microtubule organization and mitotic spindle function.","confidence":"High","size":8,"edges":12,"triangles":8,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000073","count":4},{"id":"GO:0036334","count":4},{"id":"GO:0030951","count":4},{"id":"GO:0031534","count":4},{"id":"GO:0032886","count":4}]},{"hash":"1229430503128566388","title":"Actin Cytoskeleton Mediated Cell Morphogenesis","description":"The terms cluster around actin-related processes: cortical patch localization, cytokinesis, and muscle filament assembly/adaptation, plus cell polarity and migration; also organelle inheritance (mitochondria, vacuoles) tied to cytoskeletal machinery. This points to an actin-driven morphogenesis/partitioning module.","confidence":"High","size":8,"edges":19,"triangles":26,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":3},{"id":"GO:0071963","count":3},{"id":"GO:0000011","count":3},{"id":"GO:0090131","count":3},{"id":"GO:0030240","count":3}]},{"hash":"199824193707343225","title":"ECM remodeling and adhesion signaling","description":"These proteins cluster around extracellular matrix dynamics and cell\u2013matrix adhesion: hyaluronan metabolic process, positive regulation of metallopeptidase activity, integrin-mediated signaling, negative regulation of ECM assembly, calcium-independent cell-matrix adhesion, and heterotypic cell-cell adhesion, with overlaps in skeletal muscle development. Proteasome assembly and blood coagulation terms are less central but can relate to tissue remodeling contexts. Overall, the dominant theme is ECM remodeling and adhesion signaling.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030212","count":2},{"id":"GO:1905050","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0007519","count":2},{"id":"GO:0050853","count":2}]},{"hash":"718514311595037456","title":"Neural development and immune signaling","description":"The top terms point to neural development processes (hippocampus development, midbrain dopaminergic neuron differentiation, oligodendrocyte differentiation, dendritic spine morphogenesis, canonical Wnt signaling, GPCR signaling, epithelial adhesion) but also include immune-related pathways (T-helper 1 immune response, T cell receptor signaling), suggesting the cluster captures proteins involved in signaling interfaces between neural development and immune processes.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042088","count":8},{"id":"GO:0050852","count":8},{"id":"GO:0061001","count":8},{"id":"GO:0048714","count":8},{"id":"GO:0000278","count":8}]},{"hash":"904564949650550012","title":"Transmembrane Solute Transporters","description":"The GO terms are dominated by various transmembrane transport activities for diverse solutes (ions, sugars, vitamins, xenobiotics) and a vesicular neurotransmitter loading process, pointing to a cluster of membrane transporter proteins with broad substrate specificity.","confidence":"High","size":8,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1900754","count":5},{"id":"GO:0071805","count":5},{"id":"GO:0035435","count":5},{"id":"GO:0006004","count":5},{"id":"GO:0035461","count":5}]},{"hash":"1868179553381054051","title":"Membrane Transporters and Vesicular Transport","description":"The GO terms show multiple transport-related processes across membranes (thymine, uridine, sodium ion, vitamin, and 4-hydroxyphenylacetate transport) and a term on neurotransmitter loading into synaptic vesicles. This indicates the cluster's proteins likely function as transporters or components of vesicular transport. A few terms related to kinase activity, ribosome biogenesis, and interleukin-4 signaling appear but are less central, so the dominant theme is membrane transport.","confidence":"High","size":8,"edges":8,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0032147","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0071353","count":2},{"id":"GO:0035364","count":1},{"id":"GO:0015862","count":1}]},{"hash":"2271165737463037807","title":"Rab-regulated vesicle trafficking and autophagy","description":"The top GO terms cluster around intracellular vesicle movement and sorting: endosome to Golgi and lysosome localization, endocytosis regulation, plus-end-directed transport along microtubules, membrane tubulation, and autophagosome maturation. Taken together, these indicate a cohesive role in Rab-regulated vesicle trafficking and autophagy-related pathways.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1901098","count":1},{"id":"GO:0034499","count":1},{"id":"GO:0032486","count":1},{"id":"GO:0045806","count":1},{"id":"GO:0072383","count":1}]},{"hash":"1999300225852707427","title":"Neuronal Ion Transport and Circadian Signaling","description":"The cluster combines ion transport (calcium, potassium, manganese) with GABA signaling and circadian sleep/wake cycle regulation (REM and non-REM), plus locomotion and startle behaviors and optic nerve morphogenesis. This pattern suggests proteins that govern neuronal excitability and circadian timing, hence a label focused on neuronal ion transport and circadian signaling.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0098703","count":4},{"id":"GO:0071805","count":3},{"id":"GO:0045188","count":3},{"id":"GO:0007626","count":3},{"id":"GO:0001964","count":3}]},{"hash":"2222815971109928288","title":"mRNA splicing and translation initiation regulation","description":"The terms strongly point to mRNA processing (splicing and stabilization) and the regulation of translation initiation (including preinitiation complex formation and IRES-driven initiation). Although some viral-translation terms appear, the common thread is post-transcriptional RNA processing coupled with initiation of protein synthesis.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006376","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0048255","count":3},{"id":"GO:0075525","count":3}]},{"hash":"2136128022574997758","title":"Chromatin Organization and Nucleosome Assembly","description":"The top GO terms cluster around chromatin-related processes: heterochromatin organization, nucleosome assembly, and localization to chromatin, with a few terms touching on histone modifications and nucleus-related aspects. This suggests the proteins function together in establishing and maintaining chromatin structure, rather than cytosolic processes, making this concise label representative of the cluster.","confidence":"High","size":8,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070828","count":3},{"id":"GO:0098532","count":3},{"id":"GO:0071169","count":3},{"id":"GO:0080182","count":3},{"id":"GO:0016584","count":3}]},{"hash":"821875648705152053","title":"Cerebellar development and neural signaling","description":"The GO terms show a blend of neural development-related processes (Bergmann glial cell differentiation, cerebellar cortex formation) and broad signaling regulation (negative regulation of ERK/MAPK cascade, T cell receptor signaling, insulin receptor signaling, and cell cycle-related kinase activity). This pattern suggests proteins within the cluster coordinate signaling pathway modulation during neural development, particularly cerebellar maturation, with some general cell cycle regulation elements. ","confidence":"Medium","size":8,"edges":10,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000200","count":5},{"id":"GO:0050860","count":5},{"id":"GO:0070373","count":5},{"id":"GO:0045736","count":5},{"id":"GO:0034501","count":5}]},{"hash":"2079143246968619103","title":"Shikimate pathway and aromatic amino acid biosynthesis","description":"This cluster is dominated by GO terms tied to the shikimate pathway and the biosynthesis of aromatic amino acids (chorismate biosynthesis, shikimate metabolic process, and aromatic amino acid family biosynthetic process). The presence of 2-oxobutyrate and L-threonine biosynthesis hints at related amino acid biosynthetic routes, but the strongest, coherent signal is the aromatic amino acid production pathway via shikimate. Some unrelated or obsolete terms appear but do not define the core theme.","confidence":"High","size":8,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0046360","count":2},{"id":"GO:0046177","count":2},{"id":"GO:0009423","count":2},{"id":"GO:0009073","count":2}]},{"hash":"756390037501300208","title":"Antiviral dsRNA Response","description":"Based on the Top Terms, the strongest signal is defense response to virus and cellular response to exogenous dsRNA, pointing to antiviral RNA-sensing and signaling. The remaining terms are largely unrelated or obsolete, making the connection tentative and suggesting only a partial antiviral-dsRNA theme for this cluster.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051348","count":1},{"id":"GO:1901215","count":1},{"id":"GO:0006478","count":1},{"id":"GO:0051607","count":1},{"id":"GO:0016576","count":1}]},{"hash":"377547370312518634","title":"Mitochondrial Dynamics and Membrane Signaling","description":"The GO terms show a core emphasis on mitochondria (inheritance, inner membrane organization, stress-induced fusion) with concurrent cues for membrane localization and signaling (raft localization, PKC, TLR3). This points to a cluster of proteins coordinating mitochondrial dynamics alongside membrane-associated signaling pathways. Some terms (lipid/cholesterol regulation, cadherin adhesion) are peripheral but fit into the broader membrane context.","confidence":"Medium","size":8,"edges":15,"triangles":10,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":4},{"id":"GO:1901585","count":4},{"id":"GO:0052547","count":4},{"id":"GO:2000049","count":4},{"id":"GO:0045541","count":4}]},{"hash":"1605523384743470807","title":"Redox-Driven ER Stress and Transcription","description":"The cluster is dominated by redox-related terms (oxidation-reduction, redox homeostasis, deglutathionylation) and an ER stress response, suggesting a role in cellular stress signaling. Coupled with GO terms for DNA-templated transcription and regulation of DNA binding, the proteins likely participate in redox-regulated transcriptional control during ER stress. The presence of a viral process term may reflect host-virus interactions but does not override the core redox/ER-stress-transcription theme.","confidence":"High","size":8,"edges":13,"triangles":7,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0033158","count":7},{"id":"GO:0080058","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0045454","count":7}]},{"hash":"1308338767890960605","title":"Stress Response and Microtubule Dynamics","description":"The cluster's top GO terms center on stress signaling (stress-activated MAPK cascade), responses to heat and high light, and regulation of redox state, alongside protein stabilization and microtubule polymerization/depolymerization. This pattern suggests proteins coordinating environmental stress adaptation and cytoskeletal remodeling, with additional regulation of protein interactions and intracellular transport. The estradiol response and aging terms appear tangential.","confidence":"Medium","size":8,"edges":12,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0050821","count":3},{"id":"GO:0032463","count":2},{"id":"GO:0031109","count":2},{"id":"GO:0007568","count":2},{"id":"GO:2000378","count":2}]},{"hash":"1308222229621539499","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":22,"triangles":27,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0044209","count":3},{"id":"GO:0005978","count":2},{"id":"GO:0019252","count":2},{"id":"GO:0005985","count":2},{"id":"GO:0044205","count":2}]},{"hash":"509588574396841761","title":"Symbiotic nitrogen metabolism","description":"The top terms center on nitrogen metabolism (nitrogen fixation, ammonia assimilation, nitrogen starvation response) and host\u2013symbiont interactions (symbiont-mediated immune evasion, symbiont-surface interactions), suggesting a cluster of proteins involved in nitrogen handling within a symbiotic context. Some terms (insulin secretion, glutamatergic transmission) seem inconsistent and may reflect annotation noise.","confidence":"Medium","size":8,"edges":10,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006995","count":5},{"id":"GO:0051260","count":5},{"id":"GO:0009399","count":5},{"id":"GO:0019676","count":5},{"id":"GO:0032024","count":5}]},{"hash":"1407573730533685068","title":"ER-Golgi Trafficking and Wnt Secretion","description":"The top GO terms cluster around secretory pathway processes (ER exit, ER-to-Golgi transport, COPI vesicle budding, Golgi ribbon formation) and Wnt protein secretion, with developmental axis terms likely reflecting Wnt signaling roles in patterning. This points to a coherent function group centered on the secretory pathway feeding into Wnt signaling and developmental processes.","confidence":"High","size":8,"edges":8,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0090161","count":1},{"id":"GO:0035964","count":1},{"id":"GO:0002121","count":1},{"id":"GO:0048042","count":1},{"id":"GO:0070863","count":1}]},{"hash":"1758617654339108606","title":"Neuronal development and synaptic plasticity","description":"This cluster centers on neural development terms (neurogenesis, optic nerve morphogenesis, retinal ganglion cell axon guidance) and synaptic maturation/plasticity (dendritic spine morphogenesis, long-term synaptic plasticity), with MAPK pathway regulation linking these processes. A few immune-related terms appear but do not dominate the set, so the neural development theme is strongest.","confidence":"High","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0022008","count":5},{"id":"GO:0006915","count":5},{"id":"GO:0043408","count":4},{"id":"GO:0021631","count":4},{"id":"GO:2001108","count":4}]},{"hash":"755523589382991711","title":"Cardiac development and electrophysiology","description":"The GO terms point to heart-related processes, especially outflow tract morphogenesis and regulation of SA node cell action potential, indicating a focus on cardiac development and electrophysiology. Supporting terms include hypoxia and glucocorticoid responses, with some lung epithelial differentiation and membrane remodeling signals, but the dominant theme is cardiac morphogenesis and conduction. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060487","count":2},{"id":"GO:0090281","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0007269","count":2},{"id":"GO:0098907","count":2}]},{"hash":"1946167723665887690","title":"Ubiquitin-Dependent Quality Control and Signaling","description":"The top GO terms point to ubiquitination pathways (K63- and K11-linked), ERAD, autophagy, and NF-kappaB signaling, along with transcription, cell cycle, and development (including skin development). Together these terms suggest a theme of ubiquitin-mediated protein quality control coupled to signaling and developmental regulation, rather than a single, narrow function. Confidence: Medium","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0006914","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0000278","count":2}]},{"hash":"716811731696646023","title":"Retinal ganglion axon guidance and synaptic plasticity","description":"The cluster\u2019s top GO terms are dominated by retinal/optic nerve development (optic nerve morphogenesis, retinal ganglion cell axon guidance) and neuronal maturation (dendritic spine morphogenesis, long-term synaptic plasticity), with regulators of Rho and MAPK signaling linking cytoskeletal dynamics to growth and plasticity. Immune terms appear as minor outliers, but the neuronal development and axon guidance signals are primary.","confidence":"High","size":8,"edges":25,"triangles":40,"max_degree":7,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0043408","count":3},{"id":"GO:0021631","count":3},{"id":"GO:2001108","count":3},{"id":"GO:0050852","count":3}]},{"hash":"2455412630692700","title":"Ribosome biogenesis and translation","description":"This cluster centers on ribosome biogenesis and translation, with GO terms for rRNA maturation (SSU/LSU, 5.8S) and translation steps (initiation, termination) plus RNA surveillance/decay, pointing to ribosome assembly and quality control.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":2},{"id":"GO:0006412","count":1},{"id":"GO:0000466","count":1},{"id":"GO:0000463","count":1},{"id":"GO:0006413","count":1}]},{"hash":"359601988475083174","title":"Metabolic Biosynthesis and Redox Processes","description":"The proteins cluster around diverse biosynthetic and redox-related GO terms, including L-glutamate biosynthetic process, purine nucleobase metabolism, isoprenoid biosynthesis, and fatty acid alpha-oxidation, plus oxidation-reduction processes. While a couple of terms are obsolete or reflect structural aspects (protein homotetramerization) and one term relates to an immune response, the overall theme is metabolic biosynthesis and redox-coupled pathways, suggesting a cohesive functional grouping beyond a single pathway.","confidence":"Medium","size":8,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0019516","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0051289","count":1},{"id":"GO:0009854","count":1},{"id":"GO:0019676","count":1}]},{"hash":"153376621992418340","title":"ER-stress and immune signaling cluster","description":"The top GO terms point to ER-stress\u2013driven apoptotic signaling, NF-kappaB activation, and immune signaling pathways (T cell receptor and C-type lectin receptor signaling), with ubiquitination involved in regulating these processes. While there are some cell cycle and chromatin-related terms present, the dominant pattern highlights stress response and immune signaling connections rather than a single metabolic or structural function. This suggests a cluster of proteins tied to ER stress responses and immune pathway regulation.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070059","count":8},{"id":"GO:0007059","count":8},{"id":"GO:0050852","count":8},{"id":"GO:0002223","count":8},{"id":"GO:0000278","count":8}]},{"hash":"2264619264358021131","title":"Cell cycle and gene expression machinery","description":"The top GO terms converge on core cellular processes: transcription elongation regulation, ribosome biogenesis, centromere-associated chromatin assembly (CENP-A), and cell division, pointing to fundamental growth and mitosis mechanisms. Some terms reflect general housekeeping pathways (ER-to-Golgi transport, ubiquitin-dependent ERAD) but do not override the central theme.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032968","count":2},{"id":"GO:0060416","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0042254","count":2}]},{"hash":"264385755747990532","title":"Developmental signaling in neural and cardiac tissues","description":"The terms point to developmental and signaling processes across neural and cardiac tissues (Schwann cell and heart development, angiogenesis) with neural activity and insulin signaling also represented. While diverse, they share a theme of developmental signaling coordinating neural and cardiovascular maturation, giving a Moderate confidence.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0000086","count":3},{"id":"GO:0014044","count":3},{"id":"GO:0060079","count":3}]},{"hash":"827817505008338787","title":"Circadian Neuronal Signaling and Excitability","description":"This cluster centers on neuronal signaling with a clear circadian tilt: terms for circadian sleep/wake regulation (REM and non-REM), startle responses, and nerve impulse transmission, complemented by calcium-dependent signaling and modulation of action potentials (including both positive and negative regulation). While it also touches on optic nerve development and insecticide response, the core pattern is circadian-influenced neuronal excitability and neurotransmission.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0098703","count":7},{"id":"GO:0045188","count":7},{"id":"GO:0001964","count":7},{"id":"GO:0007214","count":6},{"id":"GO:0021631","count":6}]},{"hash":"1499912967646589968","title":"Synaptic signaling and neural development","description":"The top GO terms converge on neuronal communication and development: dopamine response, calcium-dependent exocytosis, and excitatory postsynaptic potentials indicate synaptic activity; hippocampus development and Wnt signaling reflect neural development; regulation of axonogenesis aligns with neural growth. Some terms (T cell receptor signaling, beta selection) may be peripheral or multi-functional, but the prevailing theme is synaptic signaling and neural maturation.","confidence":"Medium","size":8,"edges":5,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0021766","count":8},{"id":"GO:1903351","count":8},{"id":"GO:0043366","count":8}]},{"hash":"1717538003646261930","title":"Embryonic Tissue Development and Differentiation","description":"The GO terms point to embryonic patterning and differentiation across multiple tissues (heart tube left/right patterning, myotome and skeletal muscle development, interneuron fate and motor neuron differentiation, retinal axon guidance, ureteric bud elongation), plus regulation of gene expression signaling, indicating a cluster of proteins involved broadly in embryogenesis and tissue differentiation rather than a single pathway.","confidence":"High","size":8,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060971","count":1},{"id":"GO:0061055","count":1},{"id":"GO:0060580","count":1},{"id":"GO:0023019","count":1},{"id":"GO:0007519","count":1}]},{"hash":"1767677675545865609","title":"Antiviral defense and autophagy","description":"The proteins show a coherent theme around antiviral defense: defense response to virus, autophagy, suppression of viral release, and viral transcription regulation, with supporting links to NF-kappaB signaling and microtubule-associated transport, suggesting a coordinated host defense module leveraging autophagy and signaling to limit viral replication.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051607","count":4},{"id":"GO:0006914","count":4},{"id":"GO:1902187","count":4},{"id":"GO:0035372","count":4},{"id":"GO:0043123","count":4}]},{"hash":"919938895941510687","title":"Lung branching morphogenesis","description":"Most prominent GO terms are related to lung branching and epithelial tube branching during lung morphogenesis, suggesting a primary theme of lung development. Other terms point to broader developmental processes and proteolytic regulation, which may reflect multifunctional roles or secondary associations. Confidence: Medium","confidence":"","size":8,"edges":11,"triangles":5,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060448","count":2},{"id":"GO:0051603","count":2},{"id":"GO:0010813","count":2},{"id":"GO:0046697","count":2},{"id":"GO:0097067","count":2}]},{"hash":"1615424402067058844","title":"GABAergic Neurotransmission and Sensory Processing","description":"The top GO terms indicate neuronal signaling and sensory functions: gamma-aminobutyric acid signaling, transmission of nerve impulses, long-term synaptic potentiation, and regulation of action potentials. Sensory-related terms like auditory perception and optic nerve morphogenesis, plus circadian sleep regulation and insecticide response (often linked to neural targets), point to a neural communication/sensory processing theme. So the cluster seems best described as GABAergic neurotransmission and sensory processing.","confidence":"High","size":8,"edges":18,"triangles":14,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007214","count":7},{"id":"GO:0021631","count":7},{"id":"GO:0042320","count":7},{"id":"GO:0045759","count":7},{"id":"GO:0043200","count":7}]},{"hash":"2263006763607363465","title":"ER quality control and ERAD/ER stress response","description":"The cluster\u2019s terms largely point to endoplasmic reticulum\u2013associated protein quality control, including ubiquitin-dependent ERAD, retrograde transport of misfolded proteins to the cytosol, and ER-stress\u2013triggered apoptotic signaling, with deglycosylation also fitting this theme. Some terms (microtubule organization, GPCR internalization, interferon signaling) may be peripheral or incidental, but the core signal centers on ER homeostasis and stress responses.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:1903071","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0070059","count":1},{"id":"GO:1904021","count":1}]},{"hash":"652564750810800209","title":"Fungal lipid and sterol biosynthesis with nitrogen metabolism","description":"The top GO terms cluster around fungal lipid pathways (unsaturated fatty acid biosynthesis; regulation of ergosterol biosynthetic process; mannosyl-inositol phosphorylceramide metabolic process) and nitrogen metabolism (nitrate assimilation; nitric oxide biosynthetic process). This suggests a cohesive module tied to lipid/sterol biosynthesis and nitrogen handling in fungi, with a few non-fungal annotations likely noise. ","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":2},{"id":"GO:0006636","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0032443","count":2},{"id":"GO:0001949","count":2}]},{"hash":"1697029068609986213","title":"Cartilage and bone development","description":"The cluster\u2019s GO terms are dominated by skeletal tissue formation signals, including growth plate cartilage chondrocyte development, intramembranous ossification, and tendon development, with cell adhesion indicating extracellular matrix organization. Although a few terms pertain to immune or other developmental processes, the strongest and most consistent theme is skeletal/connective tissue development and remodeling.","confidence":"Medium","size":8,"edges":5,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007155","count":2},{"id":"GO:0033034","count":1},{"id":"GO:0035989","count":1},{"id":"GO:1903225","count":1},{"id":"GO:0010743","count":1}]},{"hash":"2084678690888341416","title":"Unknown","description":"The top GO terms span several distinct domains (mitosis and chromatid cohesion, GPCR signaling, ER-stress\u2013induced apoptosis, hypoxia response, actin dynamics, methylation, fertilization, and autophosphorylation) with no single cohesive function. The cluster has no edges or clear connectivity, suggesting no unified biological role based on the present terms. ","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007200","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0070059","count":2},{"id":"GO:0007064","count":2},{"id":"GO:0071456","count":2}]},{"hash":"1804041809695025050","title":"Chloride Transport and Cell Polarity","description":"The top GO terms point to membrane-associated chloride transport (transepithelial and transmembrane) along with cell organization features such as regulation of bipolar cell polarity and epithelial differentiation, suggesting a theme around ion transport linked to cell polarity and tissue organization. Some terms (visual perception, septation signaling) appear distantly related or incidental, indicating the cluster may be a loose collection of membrane-related functions rather than a single coherent module. With no edges connecting proteins, the association is tentative, so the label reflects a best-effort theme rather than a strong, unified function.","confidence":"Low","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":2},{"id":"GO:0050908","count":1},{"id":"GO:0030321","count":1},{"id":"GO:1902476","count":1},{"id":"GO:0031031","count":1}]},{"hash":"2146342273810652179","title":"DNA Replication and Chromatin Maintenance","description":"This cluster centers on DNA replication (DNA replication and primer synthesis) and chromatin-related processes (nucleosome density regulation, histone acetylation, heterochromatin maintenance), with additional connectivity to RNA processing and gene silencing (post-transcriptional gene silencing, meiotic gene conversion). The common theme appears to be genome maintenance during replication through coordinated chromatin regulation and RNA surveillance. ","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006311","count":7},{"id":"GO:0071038","count":7},{"id":"GO:0060303","count":7},{"id":"GO:2000616","count":7},{"id":"GO:0016441","count":7}]},{"hash":"603655817768786203","title":"Mitotic division and ER-Golgi trafficking","description":"The terms converge on mitotic functions (mitotic cell cycle, mitotic spindle assembly, cell division, proliferation) and secretory pathway processes (COPII vesicle budding, ER-Golgi transport), with actin remodeling (Arp2/3 regulation) supporting these events. Brain development and multicellular growth align with developmental roles that rely on these core processes.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0034316","count":2}]},{"hash":"1626434841782242469","title":"Chromatin-mediated transcription repression","description":"This cluster shows enrichment for chromatin-related terms (histone H3 deacetylation, pericentric heterochromatin formation, nucleosome density regulation) and negative regulation of transcription, including DNA-templated transcription as a background activity, indicating proteins that modulate chromatin state to repress or fine-tune transcription.","confidence":"High","size":7,"edges":8,"triangles":3,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0071922","count":3},{"id":"GO:0051038","count":3},{"id":"GO:0070932","count":3},{"id":"GO:0060303","count":3}]},{"hash":"354324980009313083","title":"Mitochondrial respiration and lignan biosynthesis","description":"Two prominent GO terms point to mitochondrial electron transport and ATP synthesis, signaling energy metabolism. Several other terms relate to biosynthesis of plant secondary metabolites (lariciresinol, secoisolariciresinol, anthocyanin-containing compounds), suggesting a cluster that spans core energy production and plant secondary metabolism. The combination indicates a metabolism-focused group rather than a single narrow function, warranting a label that reflects both themes. Confidence: Medium","confidence":"","size":7,"edges":7,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006122","count":2},{"id":"GO:0042776","count":1},{"id":"GO:1902129","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0006541","count":1}]},{"hash":"1498154431582319670","title":"Neural development and immune signaling","description":"The top GO terms mix immune signaling (T-helper 1 response, T cell receptor signaling) with neural development processes (hippocampus development, midbrain dopaminergic neuron differentiation, dendritic spine morphogenesis, oligodendrocyte differentiation) and broad signaling pathways (Wnt, GPCR). This suggests proteins involved in general signaling networks that coordinate neural development and immune-related signaling, rather than a single tissue-specific function.","confidence":"Medium","size":7,"edges":8,"triangles":3,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042088","count":7},{"id":"GO:0050852","count":7},{"id":"GO:0061001","count":7},{"id":"GO:0048714","count":7},{"id":"GO:0000278","count":7}]},{"hash":"1087457825352916245","title":"ER protein folding and redox quality control","description":"The cluster is dominated by ER-centered terms for protein folding (GO:0034975) and response to unfolded protein (GO:0006986), plus redox homeostasis (GO:0045454) and oxidative folding, indicating ER quality-control processes that handle nascent or misfolded proteins. Additional terms hint at maturation/transport aspects (e.g., misfolded protein transport, regulation of protein export, post-translational targeting), aligning with coordinated folding, maturation, and trafficking in the secretory pathway. A few terms (like iron-sulfur cluster maturation) extend to broader maturation contexts but do not override the core ER-folding/quality-control theme.","confidence":"High","size":7,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":3},{"id":"GO:0034975","count":3},{"id":"GO:0051259","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0097428","count":2}]},{"hash":"665114203360628948","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0010587","count":2},{"id":"GO:0039651","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0010610","count":2}]},{"hash":"1365891191569564720","title":"Skeletal muscle contraction and ion homeostasis","description":"The cluster\u2019s GO terms strongly point to skeletal muscle physiology and electrical/ion regulation, with multiple terms about fast-twitch fiber contraction, fiber-type transitions, membrane potential stabilization, and sodium/calcium ion homeostasis. While a couple terms denote unrelated metabolic processes (e.g., cobalamin biosynthesis), the dominant theme centers on muscle contraction and cellular excitability. This makes a concise, representative label \"Skeletal muscle contraction and ion homeostasis.\"","confidence":"Medium","size":7,"edges":8,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0009236","count":2},{"id":"GO:0031448","count":2},{"id":"GO:0097755","count":2},{"id":"GO:0030322","count":2}]},{"hash":"1472034329387606819","title":"RNA Splicing and Translation Regulation","description":"This cluster is dominated by mRNA processing terms (cis splicing via spliceosome, splice site recognition, splicing regulation) and by elements of translation initiation and control (preinitiation complex formation, regulation of translational initiation, translational termination-reinitiation), plus mRNA stabilization and regulatory ncRNA-mediated gene silencing. Together, these GO terms point to a cohesive theme of RNA maturation and post-transcriptional control of gene expression at the translation level.","confidence":"High","size":7,"edges":15,"triangles":20,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":6},{"id":"GO:0045292","count":6},{"id":"GO:0006376","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0031047","count":5}]},{"hash":"189979964057136691","title":"Phenylpropanoid pigment and sugar-nucleotide biosynthesis","description":"The GO terms point to anthocyanin/phenylpropanoid biosynthesis (pigment production) and several nucleotide-sugar biosynthesis pathways (UDP-/GDP-/dTDP-sugars) used for glycosylation and polysaccharide assembly, suggesting a cluster involved in pigment production together with provision of sugar donors for glycosylation. Some terms are obsolete, but the main theme ties pigment biosynthesis to sugar-nucleotide metabolism.","confidence":"Medium","size":7,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0009718","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0019878","count":3},{"id":"GO:0010253","count":3},{"id":"GO:0009699","count":3}]},{"hash":"915547536759630831","title":"Lung epithelial differentiation and EMT","description":"The top GO terms point to epithelial biology in the lung and epithelial-to-mesenchymal transition (lung epithelial cell differentiation and EMT), complemented by tissue remodeling and inflammatory regulation terms (connective tissue replacement, negative regulation of inflammatory response). This combination suggests a cohesive theme around epithelial state changes and related remodeling processes rather than a single enzymatic pathway. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060487","count":1},{"id":"GO:0001946","count":1},{"id":"GO:0051343","count":1},{"id":"GO:0007114","count":1},{"id":"GO:0043029","count":1}]},{"hash":"1277039839224247423","title":"Proteoglycan and plant cell wall biosynthesis","description":"Based on GO terms including dermatan/chondroitin/heparan sulfate proteoglycan biosynthesis and plant cell wall-related processes (glucuronoxylan biosynthesis, plant-type secondary cell wall biogenesis, cell wall organization, pollen exine formation), the cluster likely reflects coordinated synthesis of glycosaminoglycan\u2013like proteoglycans and plant cell wall polysaccharides, i.e., extracellular matrix and cell wall assembly in plants.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050651","count":1},{"id":"GO:0071555","count":1},{"id":"GO:0010417","count":1},{"id":"GO:0009834","count":1},{"id":"GO:0010584","count":1}]},{"hash":"1983691255171001961","title":"Translation initiation and ribosome biogenesis","description":"The top GO terms are dominated by translation initiation, reinitiation, preinitiation complex formation, and ribosome biogenesis, pointing to a cohesive function in protein synthesis machinery; additional terms touch on cell proliferation and germline development but do not override the translation-focused signal.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075522","count":2},{"id":"GO:0048142","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0000747","count":2}]},{"hash":"1342142426127646002","title":"Mitochondrial Cofactor and Nucleotide Transport","description":"The top GO terms point to transport of cofactors and nucleotides across mitochondrial membranes (pyridoxal phosphate, thiamine pyrophosphate, pyrimidine nucleotides, NAD) and to mitochondrial membrane potential regulation and apoptotic changes, indicating a cohesive theme of mitochondrial transport and metabolic regulation. A couple of terms (insulin response, pregnancy) reflect broader cellular signaling but do not outweigh the core mitochondrial transport motif.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0031921","count":1},{"id":"GO:0051881","count":1},{"id":"GO:1990519","count":1},{"id":"GO:0035352","count":1},{"id":"GO:0036233","count":1}]},{"hash":"258180139292817529","title":"Neural Development and Axon Guidance","description":"The GO terms cluster around neural development and the wiring of neural circuits: optic nerve morphogenesis, retinal ganglion cell axon guidance, peripheral nervous system axon regeneration, dendritic spine morphogenesis, and long-term synaptic plasticity. Signaling pathways like MAPK regulation and Rho GEF activity underpin growth and synaptic formation, while some immune signaling terms may reflect cross-talk but are not central. Overall, this cluster highlights neural development, axon guidance, and synaptic remodeling.","confidence":"Medium","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043408","count":4},{"id":"GO:0021631","count":4},{"id":"GO:2001108","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0031290","count":4}]},{"hash":"331390640508625636","title":"Anthocyanin and sugar-nucleotide biosynthesis","description":"The terms center on anthocyanin-containing compound biosynthesis and phenylpropanoid biosynthesis, plus several sugar-nucleotide biosynthesis pathways (UDP-rhamnose, UDP-xylose, GDP-mannose, dTDP-rhamnose). This points to a cluster of enzymes involved in producing phenylpropanoid pigments and supplying activated sugars for glycosylation of anthocyanins and related metabolites, with some related glycosylation or O-antigen-related processes likely reflecting shared nucleotide-sugar metabolism. Overall, a cohesive theme is pigment biosynthesis linked to glycosylation via nucleotide sugars.","confidence":"High","size":7,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009718","count":6},{"id":"GO:0055114","count":4},{"id":"GO:0010253","count":4},{"id":"GO:0009699","count":4},{"id":"GO:0019305","count":4}]},{"hash":"942636306312363748","title":"Ribosome Biogenesis and Translation","description":"Dominant GO terms center on ribosome biology and protein synthesis (translation, ribosomal subunit biogenesis, ribosome biogenesis, nucleolus organization), suggesting the proteins mainly participate in ribosome assembly and function. Immune-related terms are present but at low frequency and unlikely to define the cluster.","confidence":"High","size":7,"edges":10,"triangles":6,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0042273","count":2},{"id":"GO:0006407","count":2},{"id":"GO:0000055","count":1},{"id":"GO:0060266","count":1}]},{"hash":"505683264527063176","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":12,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006616","count":1},{"id":"GO:0006614","count":1},{"id":"GO:0035073","count":1},{"id":"GO:0000463","count":1}]},{"hash":"2041843217362032875","title":"Unknown","description":"With no edges and no GO terms in the Top Terms list, there is no apparent shared function or process among the proteins. Although 20 other proteins were re-added by ReCIPE, this does not establish a functional connection for this small cluster, so a meaningful label cannot be assigned.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1930545957890629538","title":"Embryonic Organ Morphogenesis","description":"The cluster centers on developmental and morphogenetic processes across multiple organs (eye, brain, heart, lung, pituitary, spinal cord, myotome) with related tissue patterning, suggesting a cohesive theme of embryonic organogenesis and morphogenesis, tempered by transcriptional regulation terms.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":3},{"id":"GO:0043010","count":3},{"id":"GO:0048048","count":3},{"id":"GO:0060441","count":3},{"id":"GO:0000122","count":3}]},{"hash":"2125756100278113473","title":"Nuclear transport and RNA processing","description":"The terms cluster around nucleocytoplasmic transport (nuclear pore assembly, protein import/export, ribosomal subunit export) and RNA processing (tRNA processing and re-export), indicating a group of proteins involved in nuclear trafficking and RNA maturation, with some minor terms likely reflecting broader nuclear functions.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042176","count":4},{"id":"GO:0051754","count":3},{"id":"GO:0046825","count":3},{"id":"GO:0008033","count":3},{"id":"GO:0051292","count":3}]},{"hash":"2147375645443160641","title":"Organelle trafficking and distribution","description":"This cluster centers on intracellular transport and organelle organization, with terms like mitochondrial distribution/inheritance, Golgi organization, endosome-to-Golgi transport, and endocytic recycling, suggesting a shared function in vesicular trafficking and organelle maintenance. Some terms (e.g., GABAergic synaptic transmission, ribosomal export) are peripheral but do not override the dominant trafficking theme.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0048312","count":3},{"id":"GO:0034498","count":3},{"id":"GO:0000001","count":3},{"id":"GO:0000055","count":3},{"id":"GO:0051932","count":3}]},{"hash":"2137858508196473029","title":"Redox-regulated steroidogenesis","description":"The cluster appears driven by redox-related processes (oxidation\u2013reduction, redox homeostasis, deglutathionylation) and detoxification, alongside hormone biosynthesis terms (testosterone biosynthetic process, androgen metabolic process) and female gonad development. This combination suggests a module where redox state influences steroidogenesis and gonadal function, with development-related terms as a broader context. Confidence: Medium","confidence":"","size":7,"edges":8,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0008585","count":2},{"id":"GO:0008209","count":2},{"id":"GO:0061370","count":2}]},{"hash":"1331043761957867750","title":"GABAergic Synaptic Transmission and Plasticity","description":"Based on the dominant GO terms, this cluster centers on neural signaling and synaptic function: GABAergic signaling, regulation of nerve impulse transmission, and long-term synaptic potentiation, supported by potassium ion transport. The presence of optic nerve morphogenesis and sensory perception of sound also points to neural development and sensory processing, making a coherent theme around neuronal signaling and synaptic plasticity.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007214","count":1},{"id":"GO:0021631","count":1},{"id":"GO:0042320","count":1},{"id":"GO:0045759","count":1},{"id":"GO:0043200","count":1}]},{"hash":"2201406239074703464","title":"Antiviral Defense and Autophagy","description":"Proteins in this cluster are linked to antiviral defense and immune signaling (defense response to virus; suppression of viral release; NF-\u03baB regulation) and intersect with degradation/trafficking pathways (autophagy; ubiquitination; microtubule localization). This coherence supports a label centered on antiviral host responses and autophagy.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:1903762","count":6},{"id":"GO:1901253","count":6},{"id":"GO:0051865","count":6},{"id":"GO:0051607","count":5},{"id":"GO:0006914","count":5}]},{"hash":"523178223567594462","title":"Membrane Transporters","description":"The GO terms are largely about transmembrane transport of ions and small molecules (Na+, K+, phosphate, nitrite, nitrate, xenobiotics, vitamins) and a vesicular neurotransmitter loading process, pointing to a cluster of membrane transporter proteins with diverse substrates and possibly vesicle-associated transport roles.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":1},{"id":"GO:0006004","count":1},{"id":"GO:1900754","count":1},{"id":"GO:0035725","count":1},{"id":"GO:0035461","count":1}]},{"hash":"1828915479785149119","title":"ECM Remodeling and Redox-Immune Signaling","description":"The cluster is dominated by extracellular matrix organization, with several overlapping redox and immune-related terms (cell redox homeostasis, response to hydrogen peroxide, NF-\u03baB signaling via I-kappaB phosphorylation, NK cell cytotoxicity). This suggests a cohesive theme around matrix remodeling that is intertwined with oxidative stress responses and immune signaling, even though a few terms are obsolete or peripheral. Confidence: Medium","confidence":"","size":6,"edges":11,"triangles":10,"max_degree":5,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0030198","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0007252","count":4},{"id":"GO:0019471","count":4},{"id":"GO:2000255","count":4}]},{"hash":"1454408944984756965","title":"Small-molecule biosynthesis and catabolism","description":"The top GO terms are dominated by biosynthetic processes (carnitine, clavulanic acid, antibiotic biosynthesis) and catabolic processes (xanthine, 2,4-dichlorophenoxyacetic acid), pointing to a metabolism-focused cluster dealing with synthesis and breakdown of small molecules. Some terms (DNA replication, protein targeting) are less representative, but the prevailing signal is metabolic, hence a metabolism-oriented label. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0045329","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0070389","count":2}]},{"hash":"15198240428939268","title":"Quinone/vitamin biosynthesis and fatty acid oxidation","description":"The top GO terms cluster around biosynthesis of quinones (menaquinone and phylloquinone) and fatty acid beta-oxidation, with associated catabolic pathways (phenylacetate and valine). This points to a core of energy metabolism and cofactor/vitamin biosynthesis in microbes, with some peripheral metabolic terms. Confidence: Medium","confidence":"","size":6,"edges":11,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0010124","count":3},{"id":"GO:0009234","count":3},{"id":"GO:0042372","count":3},{"id":"GO:0006635","count":3},{"id":"GO:0017000","count":3}]},{"hash":"698688636373699828","title":"Splicing regulation and chromatin remodeling","description":"This cluster centers on RNA processing and spliceosome-related regulation (positive regulation of mRNA splicing, spliceosome conformational changes) plus RNA surveillance and chromatin-related processes (transcription regulation, chromatin remodeling). The combination suggests a nuclear module coordinating RNA processing with chromatin state and transcription. ","confidence":"High","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0048026","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0006311","count":1},{"id":"GO:0000388","count":1},{"id":"GO:0071038","count":1}]},{"hash":"1759769565554737705","title":"Membrane transporters for ions and metabolites","description":"Top GO terms cluster around transmembrane transport of diverse substrates (ions like Na+, K+, phosphate; nitrite/nitrate; vitamins; xenobiotics) and a neuron-specific process (neurotransmitter loading into synaptic vesicles). This pattern strongly suggests a group of membrane transporter proteins specialized for moving ions and small molecules across membranes.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":2},{"id":"GO:0006004","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0035461","count":2}]},{"hash":"622282293949197644","title":"Neural development and signaling modulation","description":"This cluster is enriched for neural-related terms (retina development, locomotory behavior, prepulse inhibition) along with signaling regulation (GTPase activity, cAMP-dependent protein kinase activity). Immune-related terms are present but less consistently represented, suggesting a primary theme around neural development and signaling rather than a single cohesive immune or metabolic process.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007626","count":4},{"id":"GO:0008283","count":4},{"id":"GO:0008284","count":4},{"id":"GO:0060041","count":4},{"id":"GO:0043547","count":4}]},{"hash":"1207596246446698966","title":"Neuronal signaling and neuroimmune regulation","description":"The cluster shows a mix of neural-related processes (prepulse inhibition, acetylcholine regulation, GABAergic interneuron migration, brain renin-angiotensin system) with immune and metabolic links (defense against bacteria, inflammatory regulation, insulin secretion, electron transport), suggesting a functional theme centered on neural signaling with cross-talk to immune and metabolic pathways.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060134","count":2},{"id":"GO:2000479","count":2},{"id":"GO:0042742","count":2},{"id":"GO:0050728","count":2},{"id":"GO:1904156","count":2}]},{"hash":"1167280069386658220","title":"RNA processing and ribosome biogenesis","description":"The terms cluster around RNA maturation and ribosome production: preribosome assembly, spliceosome assembly, ITS1 cleavage, mRNA polyadenylation, antisense RNA metabolism, and general RNA processing activities. Together these point to factors involved in RNA processing and ribosome biogenesis, rather than signaling pathways. A couple of terms related to mitosis or DNA damage response seem peripheral to the core theme. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000132","count":2},{"id":"GO:0034463","count":1},{"id":"GO:0006378","count":1},{"id":"GO:0098789","count":1},{"id":"GO:1903220","count":1}]},{"hash":"696259842875571758","title":"Post-transcriptional RNA processing and translation control","description":"The cluster shows enrichment for splicing-related terms (mRNA splice site recognition; regulation of mRNA splicing via spliceosome) alongside mRNA stabilization and multiple translation-related terms (formation of translation preinitiation complex; regulation of translational initiation; IRES-dependent viral translation). This combination points to a cohesive theme of post-transcriptional gene expression regulation spanning RNA processing and translation, with regulatory ncRNA involvement as an additional layer.","confidence":"High","size":6,"edges":5,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006376","count":2},{"id":"GO:0048026","count":1},{"id":"GO:0031047","count":1},{"id":"GO:0048255","count":1},{"id":"GO:0075525","count":1}]},{"hash":"123085772911419597","title":"Mitochondria-Mediated Apoptosis in Development","description":"TopGO terms such as intrinsic apoptotic signaling in response to DNA damage and release of cytochrome c from mitochondria point to mitochondria-driven apoptosis; coupled with developmental terms (cerebral cortex and keratinocyte development) and growth/insulin signaling, the cluster seems to reflect cell fate decisions during tissue development that integrate stress, growth, and metabolic cues. Golgi reassembly and protein heterooligomerization may indicate broader cellular remodeling accompanying these processes. Confidence: High","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030307","count":6},{"id":"GO:0008630","count":6},{"id":"GO:0021987","count":6},{"id":"GO:0010482","count":6},{"id":"GO:0032869","count":6}]},{"hash":"1298089446356266245","title":"Mitochondrial Cofactor and Metabolite Transport","description":"The cluster\u2019s top GO terms revolve around transport of cofactors and metabolites into or within mitochondria (pyridoxal phosphate, thiamine pyrophosphate, NAD, glycine, pyrimidine nucleotides), alongside mitochondrial membrane potential regulation and apoptotic mitochondrial changes, pointing to a cohesive module of mitochondrial metabolite transport and function. Some terms like insulin response or pregnancy may reflect broader metabolic context but do not override the mitochondrial focus.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0031921","count":3},{"id":"GO:0051881","count":3},{"id":"GO:1990519","count":3},{"id":"GO:0035352","count":3},{"id":"GO:0036233","count":3}]},{"hash":"408114216034564242","title":"Mitochondrial Proteostasis and Energy Metabolism","description":"The term set centers on mitochondrial quality control (ERAD and macroautophagy) and energy generation (oxidative phosphorylation and ATP biosynthesis), plus inner-membrane protein insertion, pointing to a mitochondria-focused proteostasis/metabolism theme. A few unrelated terms exist, but the dominant signal is mitochondrial function.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0016236","count":2},{"id":"GO:1903862","count":1},{"id":"GO:0000733","count":1},{"id":"GO:0031412","count":1}]},{"hash":"1229473760584373268","title":"Embryonic organogenesis and tissue development","description":"The GO terms cluster around development across multiple tissues and organs (cardiac muscle development, midgut, neural tube, neural crest, nose), pointing to a shared role in embryonic morphogenesis and organogenesis. Some metabolic terms appear, but the dominant signal is developmental biology across tissues. ","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0055129","count":6},{"id":"GO:0048738","count":6},{"id":"GO:0007494","count":6},{"id":"GO:0043584","count":6},{"id":"GO:0006068","count":6}]},{"hash":"510443257691194493","title":"Unknown","description":"The terms mix mitochondrial processes (cell cycle, mitochondrial calcium, complex IV assembly, calcium import) with diverse RNA and DNA methylation activities, showing no single cohesive function or theme for this small cluster; thus a clear label is not supported.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0051561","count":1},{"id":"GO:0033617","count":1},{"id":"GO:0036444","count":1},{"id":"GO:0009452","count":1}]},{"hash":"2150185335250316667","title":"APC/C-Dependent Mitotic Progression","description":"Top GO terms are dominated by mitotic processes: mitotic cell cycle, cell division, and mitotic sister chromatid cohesion, along with \"anaphase-promoting complex-dependent catabolic process\" and \"K11-linked ubiquitination\"\u2014all hallmarks of APC/C-driven progression through mitosis. The cluster's proteins are thus best described as components of the APC/C-regulated mitotic machinery. A few terms (cadmium ion response and seed coat development) appear unrelated to mitosis and likely reflect annotation noise or broad background associations rather than core function of this cluster.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:2001162","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0071276","count":2}]},{"hash":"1795632683602818948","title":"Muscle signaling and calcium channel regulation","description":"The top GO terms emphasize signaling in excitable tissues: regulation of cardiac muscle membrane potential, voltage-gated calcium channel activity, and synaptic vesicle recycling, along with sensory perception of sound. These point to a cluster of proteins involved in calcium-dependent signaling and membrane excitability in muscle and sensory neurons. A few terms (mitochondrial inheritance, lipid tube assembly) are less directly connected but may be peripheral features of the same functional context. Overall, the set suggests coordination of muscle/nerve signaling and calcium dynamics.","confidence":"Medium","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0000001","count":3},{"id":"GO:0048662","count":3},{"id":"GO:1903423","count":3},{"id":"GO:0014873","count":3},{"id":"GO:0051262","count":3}]},{"hash":"61457708236475022","title":"Unknown","description":"Top Terms are not provided, and there is no apparent shared GO term enrichment among the six proteins; the small network (5 edges, 0 triangles) offers no clear functional theme to name.","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[]},{"hash":"1055925978507318408","title":"Unknown","description":"Top terms cover blood coagulation, immune signaling, ion transport, insulin secretion, cytoskeletal dynamics, and pain/temperature sensing, with no single cohesive function tying them together. The disconnected topology (no edges) supports treating this as an assortment rather than a distinct module, so a specific label is not reliably assignable.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902939","count":1},{"id":"GO:0050965","count":1},{"id":"GO:0032060","count":1},{"id":"GO:0002543","count":1},{"id":"GO:0035590","count":1}]},{"hash":"1130315203106433882","title":"Unknown","description":"The terms span redox processes, amino acid biosynthesis, retina development, kinase activation, mitotic regulation, gluconeogenesis, fatty acid biosynthesis, protein tetramerization, and nuclear import, with no single unifying function. This heterogeneity makes it unclear to assign a concise function label, so the cluster remains Unknown.","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0006565","count":2},{"id":"GO:0060041","count":2},{"id":"GO:0032147","count":2},{"id":"GO:0030071","count":2}]},{"hash":"1461546219189311153","title":"Unknown","description":"The top GO terms describe a highly diverse set of functions (muscle regeneration, cardiac electrical activity, cell communication, immune signaling, cold response, telomere maintenance, prostate development, cell migration, hormone secretion, and NOD2 signaling), with no single coherent theme linking all six proteins. This makes it difficult to assign a meaningful, specific label beyond Unknown.","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0043403","count":5},{"id":"GO:0098907","count":5},{"id":"GO:0010650","count":5},{"id":"GO:0007253","count":5},{"id":"GO:0009409","count":5}]},{"hash":"1764651933288813113","title":"Embryonic development and transcriptional regulation","description":"The cluster shows a broad suite of developmental GO terms spanning brain, midbrain, spinal cord, skeletal muscle, heart, and gonad development, plus notes on transcriptional regulation and signal transduction linked to gene expression. This pattern suggests proteins involved in coordinating embryonic tissue differentiation and the regulation of gene expression during development, rather than a single specific pathway. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0007338","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0008584","count":3},{"id":"GO:0030901","count":3}]},{"hash":"880965844693065116","title":"Ubiquitin-Proteasome Regulation of Oocyte Meiosis","description":"These terms converge on ubiquitin-dependent proteolysis and their role in oocyte maturation and meiosis I spindle assembly, suggesting the cluster comprises regulators of proteasome-mediated protein turnover during meiosis and spindle dynamics. The inclusion of microtubule polymerization supports involvement in spindle function, while oocyte maturation and meiosis I terms anchor this to germ cell division rather than general proteolysis.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0001556","count":2},{"id":"GO:0021678","count":2},{"id":"GO:0006516","count":2},{"id":"GO:0031146","count":2}]},{"hash":"133319610740186189","title":"Neural development and axon guidance","description":"The top GO terms are dominated by neural development and axon guidance processes (neural crest autonomic development, Purkinje cell layer development, facial nerve organization, sympathetic neuron guidance, axon extension and presynaptic membrane organization), with a few outliers that are less related (endosome localization, fertilization, cholesterol absorption). This suggests the proteins cluster around neural development and axon pathfinding functions.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902946","count":1},{"id":"GO:1901166","count":1},{"id":"GO:0021680","count":1},{"id":"GO:0021612","count":1},{"id":"GO:0007338","count":1}]},{"hash":"953427041501437703","title":"Cardiac Ion Transport and Electrophysiology","description":"These proteins cluster around ion transport across membranes (Na+, K+, Ca2+) and heart rhythm regulation, with GO terms for SA node action potential, atrial repolarization, and calcium channel\u2013mediated transport, indicating a shared role in cardiac electrophysiology and ion homeostasis. Some broader terms (development, pain) are present but not defining.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098719","count":3},{"id":"GO:0030007","count":3},{"id":"GO:0097623","count":3},{"id":"GO:0019233","count":3},{"id":"GO:0007275","count":3}]},{"hash":"1547703068524358857","title":"Amino acid and related solute transporters","description":"This cluster is driven by GO terms for transmembrane import/transport of amino acids (lysine, arginine, methionine, leucine), as well as related solutes like GABA, D-serine, carnitine, and ammonium. The recurring theme is membrane transporter activity enabling uptake and transepithelial movement of these substrates, suggesting a group of related transport proteins; the nitric oxide term is less connected but may reflect inflammatory context rather than transporter function. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097639","count":2},{"id":"GO:1902269","count":2},{"id":"GO:0097638","count":2},{"id":"GO:0015812","count":2},{"id":"GO:0042942","count":2}]},{"hash":"113661915041348964","title":"Synaptic signaling and dendrite development","description":"The top GO terms cluster around neuronal communication and development: glutamate secretion, chemical synaptic transmission, synaptic vesicle targeting, and dendrite development strongly point to synaptic function and neuronal wiring. Other terms touch on adhesion/polarity, which can relate to synapse formation and neuronal connectivity, and there is also neuromodulatory signaling. Overall, this cluster represents neuronal synaptic signaling and dendritic development with some related adhesion-related terms.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014047","count":2},{"id":"GO:0007268","count":2},{"id":"GO:0045186","count":2},{"id":"GO:0016080","count":2},{"id":"GO:0016358","count":2}]},{"hash":"1441208134542885090","title":"Skeletal muscle development and actin organization","description":"This cluster is dominated by GO terms for skeletal muscle fiber development and thin filament assembly, with supporting signals of actin cytoskeleton organization and cell shape polarity, pointing to a theme of muscle formation guided by actin dynamics. While some terms touch on broader developmental processes (e.g., mesenchyme migration) and organelle inheritance, the core signal is muscle development linked to actin-based cytoskeletal organization.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0021762","count":5},{"id":"GO:0048741","count":5},{"id":"GO:0000001","count":4},{"id":"GO:0071963","count":4},{"id":"GO:0000011","count":4}]},{"hash":"2227054839434930087","title":"Nuclear RNA processing and chromatin regulation","description":"Proteins in this cluster largely point to nuclear RNA metabolism (maturation of rRNA, mRNA decay/decapping, transcription termination) and chromatin maintenance (pericentric heterochromatin formation), with supporting roles in nuclear import and P-body\u2013related processes, suggesting a nucleus-centered RNA processing and chromatin regulation function.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032436","count":2},{"id":"GO:0045727","count":2},{"id":"GO:1990141","count":2},{"id":"GO:0070317","count":2},{"id":"GO:0030490","count":2}]},{"hash":"742985060246058015","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0042254","count":2},{"id":"GO:0000462","count":2},{"id":"GO:2000623","count":1},{"id":"GO:0000185","count":1}]},{"hash":"2105452190761400475","title":"Mitotic spindle assembly and microtubule polarity","description":"Top GO terms center on microtubule organization and mitotic processes: centrosome/spindle assembly, polarity establishment, and plus/minus-end directed microtubule activities, with regulation of microtubule-based processes. A few terms touch cell junctions and epidermal stem cell homeostasis, which can relate to polarity and tissue organization, but the core signal points to microtubule cytoskeleton organization during mitosis. Confidence in this label is High.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000073","count":5},{"id":"GO:0036334","count":5},{"id":"GO:0030951","count":5},{"id":"GO:0031534","count":5},{"id":"GO:0032886","count":5}]},{"hash":"969292416613521022","title":"Mitochondrial ATP Production and Inner Membrane Insertion","description":"The cluster\u2019s strongest signals are in mitochondrial energy metabolism: positive regulation of oxidative phosphorylation and ATP biosynthesis, together with protein insertion into the mitochondrial inner membrane, suggesting a mitochondria-centric role; other vesicle transport terms appear less central or incidental.","confidence":"High","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1903862","count":3},{"id":"GO:0000733","count":3},{"id":"GO:0031412","count":3},{"id":"GO:0032979","count":3},{"id":"GO:0034214","count":3}]},{"hash":"1974249923311229219","title":"GPCR-cAMP Signaling and Metabolic Regulation","description":"The top GO terms point to GPCR-mediated activation of adenylate cyclase and regulation of cAMP-dependent PKA, with related processes like acetylcholine metabolism, insulin secretion, and blood pressure regulation, suggesting a cohesive theme of neuromodulatory and endocrine signaling that controls metabolism and physiology. Some immune-related terms and an electron transport chain annotation appear as secondary or indirect connections, making the core theme broader than a single pathway.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":5},{"id":"GO:0010579","count":5},{"id":"GO:0045777","count":5},{"id":"GO:0060134","count":4},{"id":"GO:2000479","count":4}]},{"hash":"1434547911279358446","title":"Diverse Solute Transporters","description":"The top GO terms largely describe membrane transport of diverse solutes (phosphate, potassium, D-xylose, trehalose, fructose, urate), with a few metabolic or regulatory terms; this suggests a shared theme of membrane transport across proteins in the cluster, despite substrate diversity and lack of direct interaction evidence.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006817","count":1},{"id":"GO:0019852","count":1},{"id":"GO:1900754","count":1},{"id":"GO:1990539","count":1},{"id":"GO:1904728","count":1}]},{"hash":"1568649382778178504","title":"Unknown","description":"The GO terms span diverse processes\u2014proteolysis, chromatin organization, transcription regulation, mRNA splicing, protein stabilization, collagen catabolism, kidney filtration, and hypoxia response\u2014and several terms are obsolete, offering little cohesive signal. Because there is no clear common function linking these terms for this protein set, I cannot assign a precise, representative label.","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1901407","count":2},{"id":"GO:0006508","count":1},{"id":"GO:0034396","count":1},{"id":"GO:0050821","count":1},{"id":"GO:0035551","count":1}]},{"hash":"1448580723949051127","title":"Brain signaling and energy metabolism","description":"The GO terms cluster around brain-related signaling and neural function (prepulse inhibition, acetylcholine regulation, GABAergic interneuron migration, brain renin\u2013angiotensin system) along with metabolic processes (cAMP-dependent kinase activity regulation, electron transport chain, insulin secretion) and some immune/inflammatory context. This suggests a core theme of neural signaling linked to energy metabolism, with ancillary immune regulation terms.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060134","count":3},{"id":"GO:2000479","count":3},{"id":"GO:0042742","count":3},{"id":"GO:0050728","count":3},{"id":"GO:1904156","count":3}]},{"hash":"1159076420640126558","title":"Embryonic and Neural Development","description":"The cluster\u2019s top GO terms cluster around developmental processes\u2014forebrain development, neural tube closure, multicellular organism development, skeletal system development\u2014and include mitotic cell cycle and DNA-templated transcription, suggesting involvement in early development and neural patterning. A few terms (defense response to Gram-positive bacterium, cellular response to cadmium ion) are outliers, making the overall signal somewhat loose. Given there\u2019s no interaction data (Edges: 0), this label is a cautious, development-focused interpretation rather than a tightly defined pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0001403","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0006351","count":3}]},{"hash":"536433687431849474","title":"Negative regulation of T cell signaling","description":"This cluster is dominated by GO terms describing negative regulation of T cell receptor signaling and the ERK/MAPK cascade, plus related phosphatase activity (tyrosine dephosphorylation) and suppression of cytokine signaling. The common theme is downregulation of immune signaling pathways in T cells, with supportive links to broader kinase signaling inhibition.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000200","count":5},{"id":"GO:0050860","count":5},{"id":"GO:0070373","count":5},{"id":"GO:1902237","count":4},{"id":"GO:1902233","count":4}]},{"hash":"2073063696900353998","title":"Lung Epithelial Differentiation and EMT with Lymphangiogenesis","description":"The cluster\u2019s strongest signals are lung epithelial differentiation, lymphangiogenesis, and epithelial-to-mesenchymal transition, pointing to a coordinated program of lung development and tissue remodeling that involves epithelial differentiation, EMT-driven plasticity, and formation of the lymphatic network. Additional terms like cell budding, connective tissue remodeling, and immune regulation (T cell homeostasis, negative inflammatory regulation) likely reflect broader tissue dynamics and immune interactions in the lung environment, with DNA replication indicating cell proliferation within these processes. Overall, the cluster represents a cohesive theme of lung development and epithelial\u2013mesenchymal remodeling coupled with lymphatic and immune aspects.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060487","count":5},{"id":"GO:0001946","count":5},{"id":"GO:0051343","count":5},{"id":"GO:0007114","count":5},{"id":"GO:0043029","count":5}]},{"hash":"1304849110208354724","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034476","count":3},{"id":"GO:0071039","count":3},{"id":"GO:0071035","count":3},{"id":"GO:0071033","count":2},{"id":"GO:0000973","count":2}]},{"hash":"1646455535052441485","title":"Proteoglycan Biosynthesis in Tissue Morphogenesis","description":"The GO terms emphasize tissue morphogenesis (including kidney morphogenesis) and biosynthesis of proteoglycans (heparin and chondroitin sulfate), plus cell adhesion processes. Together these point to extracellular matrix assembly and cell\u2013cell adhesion roles during organ development, rather than a single metabolic pathway, justifying a label around proteoglycan biosynthesis in tissue morphogenesis.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048729","count":1},{"id":"GO:0050892","count":1},{"id":"GO:0006486","count":1},{"id":"GO:0002121","count":1},{"id":"GO:0030206","count":1}]},{"hash":"2048939889758034794","title":"Arabinogalactan protein\u2013root hair development","description":"This cluster centers on plant cell surface glycoproteins, with GO terms for arabinogalactan protein metabolism, AGP-associated glycosylation, and root hair cell development, plus seed coat mucilage biosynthesis, suggesting a theme of AGP/glycoprotein modification guiding epidermal development. A few terms (nerve impulse, insect visual primordium) seem unrelated and may reflect annotation cross-talk, but the core signal points to AGP-related root hair morphogenesis. ","confidence":"Medium","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051971","count":2},{"id":"GO:0075015","count":1},{"id":"GO:0042248","count":1},{"id":"GO:0048354","count":1},{"id":"GO:0080147","count":1}]},{"hash":"1383655260020333816","title":"Nuclear transcription and RNA methylation","description":"The top GO terms point to DNA-templated transcription and several methylation processes, including rRNA methylation and peptidyl-lysine/peptidyl-glycine methylation, with a note on rDNA heterochromatin formation. Together these suggest a nuclear regulatory cluster focused on transcription and RNA/protein methylation. Some development terms appear incidental and do not define the core function. Overall, the cluster seems to reflect transcriptional control coupled with methylation activities.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000183","count":2},{"id":"GO:0018013","count":2},{"id":"GO:0018023","count":2},{"id":"GO:0031167","count":2}]},{"hash":"375422887982596435","title":"Embryonic Tissue Development","description":"The cluster is enriched for developmental GO terms across multiple tissues (cardiac muscle, midgut, nose, neural tube, neural crest), suggesting a shared role in embryonic organogenesis and patterning; metabolic terms appear less central, likely secondary.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055129","count":5},{"id":"GO:0048738","count":5},{"id":"GO:0007494","count":5},{"id":"GO:0043584","count":5},{"id":"GO:0006068","count":5}]},{"hash":"1436046620070393133","title":"Neural development and signaling with immune cues","description":"This cluster features neural development terms (optic nerve morphogenesis, retinal ganglion cell axon guidance, dendritic spine morphogenesis, peripheral nervous system axon regeneration) alongside signaling pathways (MAPK cascade regulation) and some immune-related terms (T cell receptor signaling, IL-27 signaling, neutrophil clearance). The dominant pattern is neural development and signaling, with ancillary immune signaling. ","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043408","count":4},{"id":"GO:0021631","count":4},{"id":"GO:2001108","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0031290","count":4}]},{"hash":"2028081637742108814","title":"ER Stress\u2013Linked Immune Signaling","description":"This cluster centers on GO terms related to ER-stress\u2013induced apoptosis, NF-kappaB signaling, and receptor-mediated immune pathways (T cell receptor and C-type lectin signaling), with supporting roles for ubiquitination and ER-to-cytosol transport. While mitotic processes appear, the dominant theme is a stress-response immune signaling module tied to ER quality control and protein degradation.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070059","count":5},{"id":"GO:0007059","count":5},{"id":"GO:0050852","count":5},{"id":"GO:0002223","count":5},{"id":"GO:0000278","count":5}]},{"hash":"1920454313233494661","title":"GABAergic signaling and synaptic plasticity","description":"The top GO terms point to neural signaling and plasticity, including GABA signaling, prepulse inhibition, long-term potentiation, and rhythmic excitation, suggesting the cluster centers on neuronal communication and synaptic modulation. A few terms (ectoine transport, GM-CSF response, wing morphogenesis) seem peripheral or potential annotation noise, but the core theme remains neural signaling and plasticity.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060134","count":1},{"id":"GO:0007214","count":1},{"id":"GO:0051470","count":1},{"id":"GO:0097011","count":1},{"id":"GO:0048915","count":1}]},{"hash":"1331653542249487717","title":"Antiviral stress response and protein homeostasis","description":"This cluster centers on antiviral signaling (defense response to virus, cellular response to exogenous dsRNA) and links to protein quality control and turnover (unfolded protein response, K11-linked ubiquitination, APC-dependent catabolic process, mitotic cell cycle). While some terms are obsolete, the recurring theme is a coordinated stress/immune response with ubiquitin-mediated proteolysis and protein handling during cell cycle regulation. Confidence: Medium","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051348","count":3},{"id":"GO:0006478","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0071360","count":3},{"id":"GO:0031145","count":3}]},{"hash":"1972496001819423161","title":"TLR-mediated innate immune signaling","description":"This cluster centers on Toll-like receptor signaling pathways (TLR2 and TLR4), including MyD88- and TRAM-dependent routes, and the downstream activation of NF-kappaB with subsequent production of pro-inflammatory cytokines and chemokines (e.g., IL-12, IL-15, CXCL1, CCL5). The presence of antifungal peptide production also aligns with innate antimicrobial defenses. Together, these terms point to a coherent theme of TLR-driven innate immune sensing and inflammatory signaling.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002781","count":2},{"id":"GO:0034137","count":2},{"id":"GO:0070671","count":2},{"id":"GO:0035665","count":2},{"id":"GO:0043123","count":2}]},{"hash":"699648581073172707","title":"GPCR signaling and epithelial polarity/trafficking","description":"This cluster is dominated by G protein-coupled receptor signaling terms (sphingosine-1-phosphate and acetylcholine receptor pathways) alongside vesicular trafficking and polarity-related terms (Golgi localization, endosome-to-lysosome transport, and epithelial cell apical/basal polarity, cadherin adhesion). These together suggest a theme of GPCR signaling linked to trafficking and maintenance of epithelial cell polarity. Some terms like mitochondrial fission and trehalose response are less central but may reflect broader cellular stress or remodeling contexts. ","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0001789","count":5},{"id":"GO:0000042","count":5},{"id":"GO:0010353","count":5},{"id":"GO:0035208","count":5},{"id":"GO:0007213","count":5}]},{"hash":"1106848781852256637","title":"Immune signaling and ubiquitin regulation","description":"The top GO terms cluster around immune processes: antigen processing and presentation via MHC I, T cell receptor signaling, and stimulatory C-type lectin receptor signaling, indicating immune activation pathways. The presence of protein deubiquitination points to ubiquitin-mediated regulation of signaling and protein turnover, which commonly modulates immune signaling. Additional terms referencing APC-dependent catabolic processes and regulatory roles in signaling (Wnt) suggest broader cellular regulation but do not overshadow the dominant immune-related theme. Overall, this cluster seems to represent proteins involved in immune signaling with ubiquitin-regulation mechanisms.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":4},{"id":"GO:0046686","count":3},{"id":"GO:0002479","count":3},{"id":"GO:0031145","count":3},{"id":"GO:0050852","count":3}]},{"hash":"1986319558777915386","title":"Membrane Ion Transport and pH Regulation","description":"This cluster is dominated by GO terms for transmembrane transport (bicarbonate, chloride, oxalate, fructose, etc.) and regulation of membrane potential and intracellular pH; sperm capacitation and gastric acid secretion relate to ion flux and pH changes, supporting a unifying theme of membrane transport and pH homeostasis.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051454","count":2},{"id":"GO:0048240","count":2},{"id":"GO:0042391","count":2},{"id":"GO:0089712","count":2},{"id":"GO:0007605","count":2}]},{"hash":"1105683289482371677","title":"Histone ubiquitination and NF-\u03baB regulation","description":"This cluster emphasizes chromatin dynamics and histone turnover through ubiquitination and related catabolic processes, alongside signaling events that activate NF-\u03baB (NIK activation and I\u03baB phosphorylation). The co-occurrence of histone modification/ubiquitination terms with NF-\u03baB signaling terms suggests a module integrating chromatin regulation with inflammatory signaling.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036205","count":4},{"id":"GO:0007250","count":4},{"id":"GO:1903721","count":4},{"id":"GO:2000620","count":4},{"id":"GO:0070535","count":4}]},{"hash":"326853463630883930","title":"Nucleotide-sugar Biosynthesis and Glycosylation","description":"The top GO terms point to biosynthesis of nucleotide-sugar donors (UDP-xylose, UDP-rhamnose, dTDP-rhamnose, GDP-mannose) and related O antigen biosynthesis, indicating a cluster of proteins involved in producing sugar nucleotide precursors for glycosylation and polysaccharide assembly. Some plant-specific terms (anthocyanin/phenylpropanoid) appear as background signals but do not override the central theme of sugar nucleotide biosynthesis. ","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":1},{"id":"GO:0009718","count":1},{"id":"GO:0009699","count":1},{"id":"GO:0010253","count":1},{"id":"GO:0019305","count":1}]},{"hash":"5612879062217241","title":"Unknown","description":"The GO terms are diverse, covering plant development (leaf morphogenesis, flower development, intestinal epithelial development), glycan/glycoside metabolism, and nitric oxide regulation, with no clear shared pathway or function linking the five proteins. Because no cohesive theme emerges, a meaningful, specific label isn't justifiable.","confidence":"","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009965","count":1},{"id":"GO:0045019","count":1},{"id":"GO:0005975","count":1},{"id":"GO:0051001","count":1},{"id":"GO:0016139","count":1}]},{"hash":"1583048709722293312","title":"Neural signaling and myelin assembly","description":"The GO terms cluster around neural processes (prepulse inhibition, nerve growth factor signaling, potassium transport relevant to neurons) and myelin assembly, with additional growth signaling regulation (Rap, TOR, PKA). This suggests a module tied to neuronal communication and myelin maintenance rather than a single, cohesive metabolic task.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060134","count":1},{"id":"GO:0034638","count":1},{"id":"GO:0038031","count":1},{"id":"GO:2000480","count":1},{"id":"GO:0032007","count":1}]},{"hash":"1267328328581699489","title":"ER-Golgi trafficking and mitotic cell division","description":"The top GO terms point to two linked themes: ER-Golgi vesicle transport (COPII budding, Golgi-ER and ER-Golgi trafficking) and cell division/mitotic processes (mitotic cycle, spindle assembly, proliferation). This suggests proteins involved in membrane trafficking that supports mitosis and growth, justifying a label that combines vesicle transport with cell division.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0006890","count":3}]},{"hash":"1134651584619948020","title":"Unknown","description":"The top GO terms cover telomere maintenance/telomerase regulation and a mix of stress and immune responses (cadmium, ischemia, cocaine, TNF, T cell signaling), with no clear shared function tying all four proteins together. Because of this lack of a cohesive theme, there isn't a specific, representative label to assign beyond Unknown.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1904874","count":4},{"id":"GO:0032212","count":4},{"id":"GO:0051973","count":4},{"id":"GO:0046686","count":4},{"id":"GO:0007339","count":4}]},{"hash":"1268874990229090012","title":"RNA Processing and mRNA Decay","description":"This cluster shows enrichment for RNA maturation (SSU-rRNA maturation, transcription termination), spliceosome assembly, and mRNA decay pathways (deadenylation-dependent decapping, P-body assembly) as well as nuclear import, pointing to a core theme of RNA processing and post-transcriptional regulation, with some links to chromatin-related processes. ","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1990141","count":4},{"id":"GO:0070317","count":4},{"id":"GO:0030490","count":4},{"id":"GO:0051170","count":4},{"id":"GO:0033962","count":4}]},{"hash":"1953358683893026924","title":"Proteostasis and protein maturation","description":"The terms point to protein quality control and maturation processes: response to unfolded/misfolded proteins, misfolded protein transport, protein complex formation, post-translational targeting to membranes, and iron-sulfur cluster maturation with redox considerations. Together they suggest a cohesive theme of maintaining proteome integrity through folding, assembly, and trafficking rather than a specific signaling pathway. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051259","count":1},{"id":"GO:0006986","count":1},{"id":"GO:0097428","count":1},{"id":"GO:0032781","count":1},{"id":"GO:0045454","count":1}]},{"hash":"259792783827479036","title":"Neural development and synaptic signaling","description":"The GO terms cluster around neuronal development and synaptic activity, including hippocampus development, oligodendrocyte differentiation, dendritic spine morphogenesis, dopamine uptake regulation, ERK signaling, and phosphatidylinositol biosynthesis, suggesting a theme of neural development and synaptic regulation. A couple immune-related terms imply possible neuro-immune interactions, but the dominant pattern points to neural development and synaptic function.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051586","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0010513","count":2},{"id":"GO:0042088","count":1}]},{"hash":"101078208303531869","title":"Neural Development and Signaling","description":"The top GO terms are dominated by neural development and signaling processes\u2014hippocampus development, midbrain dopaminergic neuron differentiation, regulation of dendritic spine morphogenesis, and canonical Wnt signaling\u2014with supporting roles from GPCR signaling and cell adhesion. A few terms pertain to immune responses, which may reflect annotation noise or shared signaling components, but the core theme centers on neural differentiation and neuronal communication.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042088","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0061001","count":4},{"id":"GO:0048714","count":4},{"id":"GO:0000278","count":4}]},{"hash":"1624753848112086341","title":"Neuroimmune signaling and CNS development","description":"The top GO terms include both immune-related processes (T-helper 1 response, T cell receptor signaling) and neural development/synaptic processes (hippocampus development, midbrain dopaminergic neuron differentiation, dendritic spine morphogenesis, oligodendrocyte differentiation), with signaling pathways like Wnt and GPCR signaling that are relevant to both systems. This suggests a cluster of proteins involved in neuroimmune communication and central nervous system development rather than a single narrow function.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042088","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0061001","count":4},{"id":"GO:0048714","count":4},{"id":"GO:0000278","count":4}]},{"hash":"523370970458975652","title":"NF-\u03baB signaling and histone modification","description":"This cluster centers on NF-\u03baB pathway activation (NIK/MAP3K14) and regulation of I\u03baB phosphorylation, together with ubiquitin-related processes (K63-linked ubiquitination and ubiquitin-dependent protein catabolism). The presence of histone-related terms (histone catabolic process and H4-K16 acetylation) suggests a chromatin-context dimension, implying coordinated signaling and chromatin remodeling. The inclusion of JNK cascade regulation also supports a broader stress- or inflammatory-signaling module.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0036205","count":4},{"id":"GO:0007250","count":4},{"id":"GO:1903721","count":4},{"id":"GO:2000620","count":4},{"id":"GO:0070535","count":4}]},{"hash":"2110780408360782278","title":"Unknown","description":"The terms are too heterogeneous to define a single function: a couple point to RNA Pol II transcription initiation/elongation, while others relate to stress responses and pigment-related differentiation, with no cohesive theme across all proteins.","confidence":"","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071291","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0048773","count":1},{"id":"GO:0001302","count":1},{"id":"GO:0003069","count":1}]},{"hash":"956949939498759764","title":"Neural signaling and immune regulation","description":"This cluster features GO terms centered on neural processes (prepulse inhibition, regulation of acetylcholine metabolism, brain renin-angiotensin system) and immune/inflammatory regulation (defense response to bacterium, negative regulation of inflammatory response), with related regulatory signaling and metabolic processes (cAMP-dependent protein kinase activity, insulin secretion, electron transport). The common theme appears to be regulation of signaling pathways linking neural function and immune/metabolic responses, despite diversity in specific terms.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098849","count":2},{"id":"GO:0060134","count":2},{"id":"GO:2000479","count":2},{"id":"GO:0042742","count":2},{"id":"GO:0050728","count":2}]},{"hash":"1821514273882709931","title":"Neural signaling and sensory perception","description":"This cluster centers on neural communication and sensory processing: dopaminergic synaptic transmission, visual learning and visual perception, sensory perception of pain, behavioral response to cocaine, and prepulse inhibition, with ERK1/ERK2 cascade regulation. These terms point to a cohesive theme of neural signaling and sensory/reward-related pathways. Some terms (macrophage chemotaxis, heart development) seem peripheral and may reflect broader annotations, but do not outweigh the dominant neural/sensory theme.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001963","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0010759","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1302664355760895759","title":"Negative regulation of T and B cell receptor signaling","description":"This cluster is enriched for GO terms that inhibit T cell receptor signaling and B cell receptor signaling, and includes negative regulation of the ERK1/2 cascade, indicating suppression of adaptive immune signaling. The inclusion of ER stress-related responses (IRE1-mediated unfolded protein response and ER stress\u2013induced apoptotic signaling) suggests a coordinated link between dampened receptor signaling and cellular stress pathways, supporting a module focused on immune signaling inhibition with ER stress connections.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000200","count":2},{"id":"GO:0036498","count":2},{"id":"GO:0050859","count":2},{"id":"GO:0050860","count":2},{"id":"GO:0070373","count":2}]},{"hash":"332579515944854517","title":"Signaling regulation and cell migration","description":"The GO terms show enrichment for regulation of multiple signaling pathways (Wnt, PDGFR, TCR, STAT), together with processes tied to cell movement and neural morphology (cell migration, dendrite morphogenesis, potassium transport). This points to a module coordinating signaling with cellular movement and morphology, across neural and immune-related contexts.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0090090","count":3},{"id":"GO:0048813","count":3}]},{"hash":"1242197657401556970","title":"NF-kappaB\u2013centric immune signaling","description":"The top GO terms cluster around NF-kappaB pathway activation and regulation (NIK activity, non-canonical NF-kappaB signaling, I-kappaB phosphorylation) and immune functions (defense against virus, chemokine production, T-helper cell differentiation), with supporting links to autophagy and gene regulation. This combination strongly suggests proteins involved in NF-kappaB\u2013mediated immune signaling and its regulation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0036205","count":1},{"id":"GO:0007250","count":1},{"id":"GO:0051607","count":1},{"id":"GO:0045623","count":1}]},{"hash":"1974451007582173079","title":"Motile cilia assembly and movement","description":"The cluster is dominated by GO terms for axoneme assembly, cilium movement, and motile cilium assembly, indicating a shared function in the biogenesis and motility of motile cilia. A few neurotransmitter-related terms appear but are likely secondary annotations or broader functional connections.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035082","count":1},{"id":"GO:0060294","count":1},{"id":"GO:0044458","count":1},{"id":"GO:0051610","count":1},{"id":"GO:0015820","count":1}]},{"hash":"1937164070555012381","title":"Neural development and GABAergic signaling","description":"The top GO terms are dominated by nervous system development, brain development, and GABAergic synaptic transmission, pointing to a neural development and inhibitory signaling theme. Other terms like ossification, keratinization, and endosomal transport appear less central. So the cluster most likely represents proteins involved in neural development and synaptic inhibition.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":3},{"id":"GO:0007399","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0051932","count":2},{"id":"GO:0098911","count":2}]},{"hash":"89921953037620853","title":"Unknown","description":"The Top Terms span DNA replication, various developmental processes (Purkinje cell layer development, chondrocyte development, pattern formation), and diverse metabolic/glycan biosynthesis pathways (UDP-glucuronate, lactose, glycosphingolipid biosynthesis, proteoglycan chain elongation), plus unrelated terms like sperm binding and mammary gland involution. There isn\u2019t a single cohesive function tying all four proteins together, making a concise, representative label difficult. Therefore, Unknown with None confidence is appropriate.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0007339","count":1},{"id":"GO:0021680","count":1},{"id":"GO:0046398","count":1},{"id":"GO:0005989","count":1}]},{"hash":"1138945525431834855","title":"Plant Cell Wall Biosynthesis and Pollen Exine Formation","description":"The GO terms cluster around plant cell wall biosynthesis and organization (glucuronoxylan, plant-type secondary cell wall biogenesis, cell wall organization) and pollen exine formation, indicating a set of proteins focused on wall assembly and pollen coat development; a few proteoglycan biosynthesis terms may reflect cross-annotation or conserved enzymes rather than a core unifying plant function.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0050651","count":1},{"id":"GO:0071555","count":1},{"id":"GO:0010417","count":1},{"id":"GO:0009834","count":1},{"id":"GO:0010584","count":1}]},{"hash":"46406315284652799","title":"TGF-\u03b2/SMAD Transcription Regulation","description":"This cluster is driven by GO terms for DNA-templated transcription and TGF-\u03b2 receptor signaling with SMAD complex involvement, pointing to a shared role in transcriptional regulation downstream of TGF-\u03b2 signaling. The presence of SMAD-related activity and transcriptional processes suggests a coherent function centered on TGF-\u03b2\u2013mediated transcriptional control, despite a few unrelated or obsolete terms in the mix.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0007183","count":2},{"id":"GO:0007179","count":2},{"id":"GO:0010569","count":1},{"id":"GO:1902237","count":1}]},{"hash":"1448232824756438099","title":"Mitochondrial lipid remodeling and energy metabolism","description":"The top GO terms point to mitochondrial lipid biosynthesis and remodeling (cardiolipin acyl-chain remodeling, ether lipid biosynthesis, triglyceride biosynthesis, regulation of phosphatidylcholine biosynthesis) and to energy production (mitochondrial ATP synthesis coupled electron transport). This suggests a cohesive theme around mitochondria-associated lipid metabolism and cellular energy generation. Some terms like cutin biosynthetic process and cerebellum morphogenesis are less directly linked and may reflect broader or cross-species annotations, but the dominant signal centers on mitochondrial lipid remodeling and energy metabolism.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035965","count":4},{"id":"GO:0008611","count":4},{"id":"GO:0042775","count":4},{"id":"GO:0010143","count":4},{"id":"GO:0021587","count":4}]},{"hash":"1358039430731722404","title":"Neurodevelopment and Innate Immune Signaling","description":"These proteins show GO terms for neural development (axonogenesis, corpus callosum development) and neural signaling (dopamine response, pain), alongside innate immune pathways (innate immune response, LPS signaling). The mixed signals imply a cluster not tied to a single pathway but spanning brain development and inflammatory responses; a label capturing both aspects is therefore the best fit, with moderate confidence.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0014068","count":3},{"id":"GO:1903351","count":3},{"id":"GO:0046826","count":3},{"id":"GO:0061368","count":3},{"id":"GO:0022038","count":3}]},{"hash":"1673890815200307267","title":"Ubiquitin-dependent turnover and NF-kappaB signaling","description":"GO terms cluster around ubiquitin-mediated protein catabolic processes (ubiquitin-dependent proteolysis, ERAD, polyubiquitination) and regulatory steps of NF-kappaB signaling (IKK activation, I\u03baB phosphorylation). Additional terms on Wnt receptor turnover and negative regulation of apoptosis/organ growth fit with ubiquitin-driven degradation and pro-survival signaling context. Taken together, this suggests a protein set focused on ubiquitin-mediated protein turnover with links to NF-kappaB signaling and receptor regulation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0007250","count":2},{"id":"GO:1903721","count":2},{"id":"GO:0070936","count":2}]},{"hash":"1948557232649473043","title":"Neural-Immune-Endocrine Signaling","description":"The top GO terms span neural processes (prepulse inhibition, acetylcholine regulation, GABAergic interneuron migration, brain renin-angiotensin system), endocrine regulation (insulin secretion), and immune responses (defense against bacterium, negative regulation of inflammatory response), suggesting an integrated signaling theme across neural, immune, and endocrine systems rather than a single isolated function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060134","count":3},{"id":"GO:2000479","count":3},{"id":"GO:0042742","count":3},{"id":"GO:0050728","count":3},{"id":"GO:1904156","count":3}]},{"hash":"631509595478556309","title":"Skeletal muscle differentiation and regeneration","description":"This cluster is best characterized by strong enrichment for skeletal muscle development and myoblast differentiation involved in skeletal muscle regeneration (GO:0007519, GO:0014835), suggesting a core theme of muscle formation and repair. Additional signaling-related terms such as JUN phosphorylation (GO:0007258) and positive regulation of tyrosine phosphorylation of STAT (GO:0042523) point to signaling cascades that drive myoblast differentiation and activation, potentially via PDGF receptor signaling (GO:0010641). Some terms reflect broader cellular processes or other tissues, but the dominant pattern centers on muscle progenitor differentiation and regeneration, with supporting signaling context. Confidence: Medium","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010641","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0042523","count":4},{"id":"GO:0071732","count":4},{"id":"GO:0007519","count":4}]},{"hash":"2182999310458104984","title":"Unknown","description":"The GO terms are spread across neural signaling and development, immune response, and metabolism with no clear single function tying the proteins together, suggesting the cluster lacks a cohesive biological theme rather than a specific, shared process.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060134","count":4},{"id":"GO:2000479","count":4},{"id":"GO:0042742","count":4},{"id":"GO:0050728","count":4},{"id":"GO:1904156","count":4}]},{"hash":"1707770431548384060","title":"DNA dynamics and transcription regulation","description":"The terms cluster around DNA-level activities (integration, retrotransposition) and transcription-related processes (DNA-templated transcription, Pol II CTD phosphorylation) plus cell-cycle control (G1/S transition, CDK activity). While a few terms touch on epithelial differentiation, the dominant signals point to DNA dynamics and transcription regulation rather than a single specialized pathway.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":1},{"id":"GO:0032197","count":1},{"id":"GO:2000775","count":1},{"id":"GO:0033598","count":1},{"id":"GO:0000082","count":1}]},{"hash":"696763563988587519","title":"Deubiquitinases regulate immune signaling","description":"The top GO terms show negative regulation of multiple immune signaling pathways (IL-8, IL-2, NOD1/2, CD40, death receptor signaling) and specific deubiquitination activities across several lysine linkages (K48, K29, K11, K6), pointing to a cluster of deubiquitinases modulating immune signaling. Despite only four proteins, the GO profile strongly supports a theme of immune-signal dampening by DUB activity.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032717","count":1},{"id":"GO:1902042","count":1},{"id":"GO:0070433","count":1},{"id":"GO:0070429","count":1},{"id":"GO:2000349","count":1}]},{"hash":"2188488527930596976","title":"Ubiquitin-Dependent NF-\u03baB Signaling","description":"The proteins are linked by ubiquitin-mediated regulation of immune signaling, including ubiquitin-dependent protein degradation, NF-\u03baB activation and I\u03baB phosphorylation, TNF signaling, and related JNK pathway modulation, indicating a cohesive role in ubiquitin-driven inflammatory signaling.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0007250","count":3},{"id":"GO:1903721","count":3},{"id":"GO:0033151","count":3},{"id":"GO:0090073","count":3}]},{"hash":"822523944453536738","title":"NF-\u03baB signaling and immune regulation","description":"The top GO terms show strong enrichment for NF-\u03baB\u2013related signaling (activation of NIK, non-canonical NF-\u03baB, I\u03baB phosphorylation) and immune responses (defense against virus, chemokine production, T-helper cell differentiation), along with ubiquitin-dependent protein turnover and autophagy. Together these indicate a cluster of proteins involved in regulating immune signaling through NF-\u03baB pathways and proteolytic/turnover processes.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0036205","count":2},{"id":"GO:0007250","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0045623","count":2}]},{"hash":"2291897295448490047","title":"NF-kappaB signaling and autophagy regulators","description":"The proteins are linked to NF-kappaB activation/regulation (IKK activity, I-kappaB phosphorylation, canonical NF-kappaB signaling) and autophagy, with related ubiquitination and immune homeostasis hints.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007250","count":1},{"id":"GO:0006311","count":1},{"id":"GO:2000653","count":1},{"id":"GO:1903721","count":1},{"id":"GO:0006914","count":1}]},{"hash":"311439695558268000","title":"Unknown","description":"The GO terms for this cluster are highly diverse (cell growth regulation, kinase activity, amino acid stimulus response, meiotic/chromatin processes, nuclear pore assembly, endothelial proliferation) and there are no connections among the proteins (no edges). Because no dominant shared function emerges, there isn\u2019t a coherent label beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030307","count":1},{"id":"GO:0030308","count":1},{"id":"GO:0033674","count":1},{"id":"GO:0071230","count":1},{"id":"GO:1903538","count":1}]},{"hash":"1125754032735338912","title":"Developmental Epigenetic Regulation","description":"The cluster centers on developmental processes such as imaginal disc and eye-antennal disc development, and includes GO terms tied to nucleolus organization and chromatin modifications (histone methylation marks and DNA methylation). This pattern points to epigenetic regulation of gene expression during development, rather than a single signaling or structural pathway.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045572","count":1},{"id":"GO:0007000","count":1},{"id":"GO:0035214","count":1},{"id":"GO:1904772","count":1},{"id":"GO:0098532","count":1}]},{"hash":"1247344262879861147","title":"Muscle Translation and Cardiac Function","description":"The cluster\u2019s GO terms are dominated by translation-related processes (translation, initiation, termination, frameshifting, hypusine biosynthesis), indicating involvement in translational control. There are also muscle-associated terms (skeletal muscle fiber development, positive regulation of heart contraction) suggesting a muscle/cardiac functional context. A few terms (lung epithelial differentiation, defense-related programmed cell death) appear as less central annotations, but do not outweigh the translation\u2013muscle signal. Overall, the proteins likely connect translational regulation with muscle/heart function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":2},{"id":"GO:1903272","count":1},{"id":"GO:0006452","count":1},{"id":"GO:0034050","count":1},{"id":"GO:0006412","count":1}]},{"hash":"566430734787115193","title":"Neural development and axonogenesis regulation","description":"Strong signals center on neuron development, optic nerve morphogenesis, and regulation of axonogenesis (including negative regulation), suggesting a neural development role. PDGF receptor signaling and STAT phosphorylation connect to neural signaling, while T cell receptor signaling and cell cycle terms may reflect broader annotations. Overall, neural development/axon guidance is the most representative theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042219","count":1},{"id":"GO:0021631","count":1},{"id":"GO:0043366","count":1},{"id":"GO:0007064","count":1},{"id":"GO:0010641","count":1}]},{"hash":"1558599527569843586","title":"Cell Stress and Cell Cycle Regulation","description":"The GO terms cluster around cellular stress responses (ER stress\u2013induced apoptosis, hypoxia response) and cell-cycle control (mitotic processes, G0 to G1 regulation), with additional notes on cytoskeletal dynamics and signaling modulation. This suggests a unifying theme of stress signaling influencing cell-cycle progression, rather than a single, narrow pathway.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070059","count":1},{"id":"GO:0007064","count":1},{"id":"GO:0071456","count":1},{"id":"GO:0000278","count":1},{"id":"GO:0031954","count":1}]},{"hash":"1895576958400811983","title":"Mitotic cell cycle and MVB sorting","description":"Top terms cluster around mitosis and vesicle trafficking (MVB/ESCRT), implying a link between cell division processes and endosomal sorting.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0051301","count":2},{"id":"GO:1902188","count":1},{"id":"GO:0010458","count":1},{"id":"GO:0090611","count":1}]},{"hash":"1116188414549250615","title":"Neural sensory signaling and calcium dynamics","description":"The terms point to neuronal signal transduction in response to sensory stimuli (phototransduction, temperature and pain perception, prepulse inhibition) with central roles for calcium release and calcium-regulated signaling (PKA activity). Immune-related terms are present but secondary to the dominant sensory/calcium signaling theme, suggesting this cluster centers on neural sensory processing and calcium dynamics.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007603","count":4},{"id":"GO:0071502","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0002024","count":4},{"id":"GO:0051209","count":4}]},{"hash":"1389460710869435884","title":"Neural signaling and sensory processing","description":"This cluster centers on neuronal communication and sensory function, with GO terms spanning GABA signaling, action potential regulation, transmission of nerve impulses, and long-term potentiation, plus sensory perception of sound. Extras like optic nerve morphogenesis and circadian sleep/wake regulation suggest neural development and rhythmic control, indicating these proteins participate in neural signaling networks tied to sensory and circadian functions.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007214","count":1},{"id":"GO:0021631","count":1},{"id":"GO:0042320","count":1},{"id":"GO:0045759","count":1},{"id":"GO:0043200","count":1}]},{"hash":"855557005571845822","title":"Telomere maintenance via telomerase","description":"The top GO terms are centered on telomere biology\u2014positive regulation of telomere maintenance via telomerase and positive regulation of telomerase RNA localization to Cajal bodies\u2014suggesting a telomerase/telomere regulatory theme for the cluster. The other terms (cadmium response, ischemia, ATP/cocaine responses, TNF and T cell\u2013related immune signaling) appear more as background or secondary associations rather than defining the primary function, so a telomere-telomerase focus is the best single label, though with some noise. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904874","count":3},{"id":"GO:0032212","count":3},{"id":"GO:0051973","count":3},{"id":"GO:0046686","count":3},{"id":"GO:0007339","count":3}]},{"hash":"1407401536096026006","title":"Unknown","description":"GO terms span DNA replication, iron-sulfur cluster assembly, protein folding and stress responses, membrane targeting, fungal cell wall biosynthesis, and regulatory pathways, with no clear unifying function for the three proteins. Therefore no coherent cluster label can be assigned beyond Unknown.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":1},{"id":"GO:1902037","count":1},{"id":"GO:0031204","count":1},{"id":"GO:0016226","count":1},{"id":"GO:1900035","count":1}]},{"hash":"1192928997297363102","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006370","count":1},{"id":"GO:0006363","count":1},{"id":"GO:0015995","count":1},{"id":"GO:0006362","count":1},{"id":"GO:0043248","count":1}]},{"hash":"139208476123633004","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000463","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0042273","count":2}]},{"hash":"1482629005704454463","title":"Metabolic and Stress Response Regulation","description":"The cluster\u2019s GO terms center on regulation of metabolism and cellular stress pathways, including positive regulation of adipose tissue development, fatty acid oxidation, ROS metabolism, ER stress-induced apoptotic signaling, inflammasome activity, and kinase regulation. This suggests a cohesive theme of modulating metabolic and stress-related processes rather than a single specific pathway.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904179","count":2},{"id":"GO:0010569","count":1},{"id":"GO:1902237","count":1},{"id":"GO:1900113","count":1},{"id":"GO:1990383","count":1}]},{"hash":"1548205862258121413","title":"RNA processing and translational regulation","description":"The terms cluster around mRNA processing (splicing, spliceosome activity, mRNA stabilization) and control of translation initiation (preinitiation complex formation, regulation of translational initiation, IRES-dependent initiation), including viral translation contexts. This suggests proteins involved in post-transcriptional RNA processing and downstream regulation of translation, hence the label. ","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006376","count":1},{"id":"GO:0048026","count":1},{"id":"GO:0031047","count":1},{"id":"GO:0048255","count":1},{"id":"GO:0075525","count":1}]},{"hash":"516426841999171316","title":"GABAergic Synaptic Transmission & Sensory Processing","description":"The top GO terms cluster around neuronal signaling, especially GABA signaling and synaptic transmission, along with plasticity and sensory modalities (sound and optic nerve development). Key terms include gamma-aminobutyric acid signaling (GO:0007214), positive regulation of transmission of nerve impulse (GO:0051971), and long-term synaptic potentiation (GO:1900273), indicating inhibitory neurotransmission and synaptic plasticity. Additional terms on sensory perception of sound (GO:0007605) and optic nerve morphogenesis (GO:0021631) point to sensory neural pathways, with potassium transport supporting neuronal excitability. Overall, this suggests a theme of GABAergic neuronal signaling with sensory processing facets.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007214","count":1},{"id":"GO:0021631","count":1},{"id":"GO:0042320","count":1},{"id":"GO:0045759","count":1},{"id":"GO:0043200","count":1}]},{"hash":"483481634813165554","title":"Membrane Transporters","description":"The top GO terms are dominated by transmembrane transport activities for various ions and molecules (sodium, potassium, phosphate, nitrite, nitrate, xenobiotic, vitamin, etc.), with an additional vesicular transport term (neurotransmitter loading). Although some metabolism-related terms appear, the unifying theme is transport across membranes, indicating a cluster of membrane transport proteins.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":1},{"id":"GO:0006004","count":1},{"id":"GO:1900754","count":1},{"id":"GO:0035725","count":1},{"id":"GO:0035461","count":1}]},{"hash":"2006712624455480493","title":"Membrane Ion and Nutrient Transporters","description":"Top GO terms reveal transmembrane transport across ions (sodium, potassium, phosphate, nitrite/nitrate) and various nutrients (vitamins, other substrates), plus xenobiotic transport; a related term on neurotransmitter loading into synaptic vesicles hints at vesicular transport. Overall, the cluster appears to comprise membrane transport proteins that move diverse substrates across membranes, justifying a transporter-focused label.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":2},{"id":"GO:0006004","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0035461","count":2}]},{"hash":"675018949756285206","title":"Neural signaling and brain energy metabolism","description":"The top GO terms are dominated by neural-related processes: prepulse inhibition, regulation of acetylcholine metabolism, GABAergic interneuron migration, and brain renin-angiotensin system, together with regulation of cAMP-dependent protein kinase activity. The inclusion of electron transport chain suggests linked energy metabolism in neural contexts. A few immune-related terms appear but are less central to the cluster\u2019s core theme. Therefore, this label best captures the main function represented by the proteins.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060134","count":2},{"id":"GO:2000479","count":2},{"id":"GO:0042742","count":2},{"id":"GO:0050728","count":2},{"id":"GO:1904156","count":2}]},{"hash":"1803452500085862425","title":"RNA Splicing and Translation Regulation","description":"The top GO terms cluster around mRNA splicing and spliceosome activity (splicing site recognition, spliceosome-mediated splicing), plus mRNA stabilization and formation of the translation preinitiation complex, indicating a theme of RNA processing and regulation of translation. Additional terms on ncRNA-mediated gene silencing and miRNA turnover support a broader post-transcriptional regulatory role, with a few outliers that may reflect incidental associations. Overall, the cluster appears centered on RNA processing and translation control.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006376","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0048255","count":2},{"id":"GO:0010587","count":2}]},{"hash":"2196162066566126094","title":"Phosphatase-regulated signaling","description":"The cluster\u2019s GO terms converge on signaling modulation via dephosphorylation and protein turnover (peptidyl-tyrosine dephosphorylation, phosphatidylinositol dephosphorylation, negative regulation of kinase activity, TGF-beta signaling, and proteasomal regulation), suggesting these proteins act to tune signaling pathways rather than execute a single catalytic function. Some terms like neuron development or kinetochore localization may be ancillary annotations, but the core pattern is phosphatase- and turnover-based signaling regulation.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048666","count":2},{"id":"GO:0032435","count":2},{"id":"GO:0035335","count":2},{"id":"GO:0045736","count":2},{"id":"GO:0034501","count":2}]},{"hash":"484890890361966712","title":"Optic/retinal neuron development and axon guidance","description":"The terms cluster around neural development, especially optic nerve morphogenesis and retinal ganglion cell axon guidance, with related processes in dendritic spine morphogenesis and long-term synaptic plasticity, all suggesting roles in neural connectivity and MAPK-mediated signaling. Immune-related terms appear less central to the core theme.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043408","count":3},{"id":"GO:0021631","count":3},{"id":"GO:2001108","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0031290","count":3}]},{"hash":"2133856021550357085","title":"RNA processing and translational regulation","description":"The cluster centers on RNA metabolism, with terms for splicing (splice site recognition, spliceosome-mediated regulation), RNA stabilization, and control of translation (oskar mRNA translation, viral translation termination/reinitiation) as well as RNA silencing. Some stress-related terms (hypoxia, ischemia) suggest context where RNA processing and translation are modulated. Together, these indicate a cohesive theme of post-transcriptional regulation of gene expression via RNA processing and translation, under stress contexts.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006376","count":1},{"id":"GO:0071456","count":1},{"id":"GO:0048026","count":1},{"id":"GO:0071230","count":1},{"id":"GO:0032869","count":1}]},{"hash":"2002494726764476085","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":1},{"id":"GO:0044830","count":1},{"id":"GO:2000627","count":1},{"id":"GO:0097222","count":1},{"id":"GO:0070935","count":1}]},{"hash":"1875642799949151943","title":"Unknown","description":"There are no enriched GO terms or connections among these proteins, so no coherent functional theme can be inferred; this cluster cannot be labeled reliably.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2186357083511202249","title":"Unknown","description":"The GO terms span muscle and neural development, immune signaling, and general phosphorylation/signaling processes with no single cohesive function linking the proteins. Terms include skeletal muscle development, myoblast differentiation, hippocampus development, T cell signaling, PDGF signaling, STAT and JUN phosphorylation. Therefore no clear, specific label applies.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010641","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0042523","count":3},{"id":"GO:0071732","count":3},{"id":"GO:0007519","count":3}]},{"hash":"1416644943562667724","title":"Lung Epithelial Remodeling and Immune Regulation","description":"This cluster shows enrichment for lung epithelial differentiation and epithelial-to-mesenchymal transition, with signals for lymphangiogenesis and immune/inflammatory regulation, suggesting a theme of epithelial remodeling in the lung coordinated with lymphatic/immune processes.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060487","count":2},{"id":"GO:0001946","count":2},{"id":"GO:0051343","count":2},{"id":"GO:0007114","count":2},{"id":"GO:0043029","count":2}]},{"hash":"2068233911667384005","title":"Embryonic development and organ morphogenesis","description":"This cluster is dominated by GO terms related to embryo development and tissue morphogenesis across several organs (in utero embryonic development, heart and cardiac muscle morphogenesis, eye morphogenesis, ovarian follicle growth, and prostate gland differentiation). A small set of translation-related terms appears but does not define the cluster\u2019s main function. Overall, the proteins appear linked to developmental processes and organ formation rather than a single pathway or tissue.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001547","count":2},{"id":"GO:0055010","count":2},{"id":"GO:0048048","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0060528","count":2}]},{"hash":"1513295547821230179","title":"Toxic Stress Response and Protein Quality Control","description":"This cluster includes terms tied to cellular defense against toxins (cadmium, insecticide, toxic substances) and to protein homeostasis processes (translation, proteasomal degradation, post-chaperonin tubulin folding). The combined pattern suggests a theme around how cells detect and manage toxic stress while maintaining protein quality, rather than a single specialized pathway.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045759","count":3},{"id":"GO:0010216","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0045648","count":3},{"id":"GO:0017085","count":3}]},{"hash":"1389708998076476124","title":"Unknown","description":"The GO terms span RNA capping, various methylation and hydroxylation events, and a mix of stress and metabolic responses with no clear, cohesive function linking the proteins, so a precise label cannot be confidently assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006370","count":1},{"id":"GO:0018023","count":1},{"id":"GO:0006972","count":1},{"id":"GO:0030961","count":1},{"id":"GO:0043985","count":1}]},{"hash":"407801374316198435","title":"Neuronal Synapse Formation and Vesicle Fusion","description":"This cluster is driven by terms for neurotransmitter secretion, synapse assembly, vesicle fusion, and short-term potentiation, pointing to neuronal communication and synaptic plasticity.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007269","count":2},{"id":"GO:0007520","count":2},{"id":"GO:2000203","count":2},{"id":"GO:1901002","count":2},{"id":"GO:0060313","count":2}]},{"hash":"97647762641728007","title":"Developmental signaling and differentiation","description":"Top terms cluster around signaling pathways (growth hormone receptor signaling, integrin-mediated signaling, NF-kappaB), cell adhesion (cell-matrix and cell-cell junctions), and tissue differentiation (forebrain, Purkinje cells, atrial cardiomyocytes), with one plant-specific process appearing as an outlier. This suggests a cohesive theme of developmental signaling and differentiation across tissues.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060396","count":1},{"id":"GO:2001046","count":1},{"id":"GO:0045216","count":1},{"id":"GO:0035195","count":1},{"id":"GO:0021871","count":1}]},{"hash":"81491924341732194","title":"Myogenesis and cell cycle regulation","description":"The cluster includes clear signals of skeletal muscle development and myoblast differentiation (GO:0007519, GO:0014835), suggesting a muscle-lineage role. It also features strong links to cell cycle control and chromosome segregation (mitotic cell cycle; negative regulation of CDK activity; kinetochore/spindle-related terms), indicating coordination between muscle differentiation and cell-cycle exit or progression. While other signaling terms appear, the muscle development and cell-cycle themes are the most cohesive, making this a coherent muscle-differentiation with cell-cycle regulation cluster.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045736","count":3},{"id":"GO:0034501","count":3},{"id":"GO:0010641","count":2},{"id":"GO:0050852","count":2},{"id":"GO:0042523","count":2}]},{"hash":"1219422987811822276","title":"Skeletal muscle differentiation and regeneration signaling","description":"The strongest GO terms are about skeletal muscle development and myoblast differentiation (e.g., skeletal muscle tissue development and myoblast differentiation involved in skeletal muscle regeneration), suggesting a muscle lineage/regeneration theme. While some terms relate to immune signaling or other processes, the muscle-related terms provide the clearest unifying function for the cluster, possibly linked through growth factor and MAPK/JNK signaling pathways involved in muscle differentiation.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010641","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0042523","count":3},{"id":"GO:0071732","count":3},{"id":"GO:0007519","count":3}]},{"hash":"1378738558109410759","title":"Unknown","description":"The terms span ER stress\u2013mediated apoptosis, chromosome segregation/mitosis, immune signaling (TCR and C-type lectin receptors, NF-kB), ubiquitination, and transport regulation. This scattered set with only 3 proteins lacks a single coherent function, so a specific label cannot be assigned.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070059","count":3},{"id":"GO:0007059","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0002223","count":3},{"id":"GO:0000278","count":3}]},{"hash":"600440926676040766","title":"Unknown","description":"The top GO terms cover a wide range of unrelated processes (ion and water transport, amino acid metabolism, redox, development, signaling, and cell cycle regulation) with no shared function or interaction pattern (Edges 0, Triangles 0). This lack of a coherent theme means a confident, meaningful label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0006565","count":1},{"id":"GO:0006813","count":1},{"id":"GO:1903959","count":1},{"id":"GO:0015706","count":1}]},{"hash":"2166970562074148475","title":"Sodium and Potassium Ion Transport and Homeostasis","description":"The cluster is dominated by GO terms for sodium and potassium transport across membranes, intracellular K+ homeostasis, and cell volume regulation, with supporting terms on salt stress and cardiac conduction, pointing to ion balance in excitable cells. A single outlier term on BDNF receptor signaling is less central.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031547","count":2},{"id":"GO:0098719","count":2},{"id":"GO:0009651","count":2},{"id":"GO:0051595","count":2},{"id":"GO:1903281","count":2}]},{"hash":"822106160338094890","title":"Neuronal excitability and signaling","description":"This cluster is dominated by GO terms related to neuronal membrane transport (sodium/potassium channels), membrane depolarization, and action potential propagation, plus excitatory and inhibitory (GABA) synaptic signaling. The core theme is neuronal membrane excitability and synaptic transmission, with a few retina/circadian-related terms that align with neural function. ","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0051899","count":2},{"id":"GO:0019227","count":2}]},{"hash":"1484230031285160288","title":"Heterotrimeric G Protein Signaling","description":"This cluster is driven by GO terms pointing to GPCR signaling and heterotrimeric G proteins, including protein heterotrimerization, various GPCR pathways (acetylcholine and sphingosine-1-phosphate signaling), and regulation of GTPase activity. While a few terms touch on broader processes like skeletal development or hemocyte proliferation, the core pattern centers on GPCR-mediated signal transduction and GTPase regulation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":3},{"id":"GO:0010255","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0001789","count":2}]},{"hash":"1028842594392533866","title":"Unknown","description":"The top GO terms cover a mix of chromatin modification, protein quality control, cell cycle and transcription regulation, neuronal structure, and ion channel regulation, with no clear single pathway or function tying the cluster together. The presence of obsolete terms and the diversity of processes suggest no coherent theme for a precise label. Therefore, Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070535","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0044810","count":1},{"id":"GO:0009190","count":1},{"id":"GO:0090419","count":1}]},{"hash":"222252654807826193","title":"Antiviral NF-\u03baB signaling and autophagy","description":"The top terms emphasize antiviral defense and NF-\u03baB signaling (activation of NF-kappaB-inducing kinase, I-kappaB phosphorylation) and autophagy, which together point to a coordinated antiviral response with autophagic involvement. Additional ubiquitination and chromatin-related terms likely reflect transcriptional regulation during infection. Overall, the cluster seems focused on antiviral signaling and autophagic processes rather than a single other function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0036205","count":3},{"id":"GO:0007250","count":3},{"id":"GO:0051607","count":3},{"id":"GO:1903721","count":3},{"id":"GO:0006914","count":3}]},{"hash":"900638244145152033","title":"Unknown","description":"The Top Terms show a wide mix of cellular stress responses (cadmium ion response, chaperone-related folding), post-translational modification (sumoylation), various metabolic and biosynthetic regulations, and even brain development terms, with no single cohesive function tying the proteins together. The network is extremely sparse (one edge, no triangles), suggesting the annotations may not reflect a unified pathway or process for this cluster.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":2},{"id":"GO:0016925","count":2},{"id":"GO:1903646","count":1},{"id":"GO:0008653","count":1},{"id":"GO:0000278","count":1}]},{"hash":"585341925625034263","title":"Host antiviral defense and autophagy","description":"Proteins here are tied to defense response to virus and autophagy, with additional indications of host suppression of viral processes (release, transcription) and involvement of NF-kappaB signaling and microtubule-related localization. This combination suggests a cohesive antiviral response that couples autophagic pathways to immune signaling and intracellular trafficking to hinder viral replication and spread.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":2},{"id":"GO:0006914","count":2},{"id":"GO:1902187","count":2},{"id":"GO:0035372","count":2},{"id":"GO:0043123","count":2}]},{"hash":"345086009196162242","title":"GABAergic neurotransmission and neural signaling","description":"The GO terms converge on GABA signaling, transmission of nerve impulses, synaptic potentiation, and modulation of neuronal excitability, with links to sensory pathways (hearing/optic nerve) and circadian regulation. This points to a neural signaling module centered on GABAergic neurotransmission and synaptic plasticity.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007214","count":2},{"id":"GO:0021631","count":2},{"id":"GO:0042320","count":2},{"id":"GO:0045759","count":2},{"id":"GO:0043200","count":2}]},{"hash":"240715321738526860","title":"Unknown","description":"There is only a single GO term (negative regulation of proteasomal ubiquitin-dependent protein catabolic process) represented, with no edge connections among the proteins, so there isn\u2019t a clear shared function to define a cohesive cluster label. ","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032435","count":1}]},{"hash":"1026675931313707460","title":"Neurotransmitter Transport and Secretion","description":"These proteins are enriched for serotonin, dopamine, and glycine uptake/transport, as well as secretion and transporter import processes, pointing to roles in neurotransmitter handling and synaptic signaling. The other terms related to brain development and glial growth appear secondary to the main neurotransmission theme.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051610","count":2},{"id":"GO:0015820","count":2},{"id":"GO:0021794","count":2},{"id":"GO:0042420","count":2},{"id":"GO:0014064","count":2}]},{"hash":"519223375844230160","title":"Translation Initiation and Proteasome Regulation","description":"The GO terms converge on components and processes of translation initiation (formation of translation preinitiation complex, cytoplasmic translation initiation complex, eIF3 complex assembly) and related translation regulation, alongside proteasome assembly and ubiquitin-dependent protein catabolic processes, with an additional note on mRNA surveillance. This suggests atheme centered on coordinated protein synthesis initiation and protein quality control/degradation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070321","count":1},{"id":"GO:0007127","count":1},{"id":"GO:0043248","count":1},{"id":"GO:0001732","count":1},{"id":"GO:0070196","count":1}]}]