[{"hash":"659202864328283330","title":"Neurodevelopmental transcription and stress responses","description":"The cluster combines strong enrichment for neural development terms (forebrain development, neural tube closure, multicellular organism development) with DNA-templated transcription, plus several stress-related signals (ER stress\u2013linked apoptotic signaling, cadmium response) and a defense term, suggesting a function in transcription-regulated neurodevelopment with stress signaling.","confidence":"Medium","size":29,"edges":22,"triangles":5,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":13},{"id":"GO:0050830","count":13},{"id":"GO:0000278","count":13},{"id":"GO:0070059","count":12},{"id":"GO:0001843","count":12}]},{"hash":"2058111731578762918","title":"Vertebrate Genome Regulation and Organogenesis","description":"The term set combines DNA integration/transposition and DNA-templated transcription with several vertebrate organ development terms (habenula, pancreas, pituitary, retina, cranial skeleton), suggesting a cluster centered on how genome regulation interfaces with vertebrate organogenesis.","confidence":"Medium","size":29,"edges":241,"triangles":1020,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0015074","count":11},{"id":"GO:0006313","count":9},{"id":"GO:0006351","count":8},{"id":"GO:2000288","count":8},{"id":"GO:0021986","count":8}]},{"hash":"1716883994230088078","title":"Developmental Transcription Regulators","description":"A short set of core transcription-related terms (RNA polymerase II\u2013mediated transcription and DNA-templated transcription) is prominent, alongside multiple development and differentiation processes (placental development, osteoblast and skeletal muscle differentiation, macrophage differentiation, MHC II biosynthesis, ring gland development, dorsal identity). This pattern suggests proteins that regulate gene expression to drive diverse developmental programs, so a label focusing on developmental transcriptional regulation fits well.","confidence":"High","size":29,"edges":350,"triangles":2745,"max_degree":27,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0006351","count":12},{"id":"GO:0001892","count":9},{"id":"GO:0045669","count":8},{"id":"GO:0035470","count":8}]},{"hash":"1631588278368538133","title":"Chromatin Remodeling and Transcription Regulation","description":"The top GO terms show strong enrichment for transcription regulation by RNA polymerase II (both positive and negative) and for chromatin-level processes (chromatin remodeling, nucleosome disassembly, histone H3K36 dimethylation). This points to a nuclear module that modulates gene expression via chromatin state. The few developmental terms present are sporadic and less representative, so the central theme remains transcription control through chromatin dynamics.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0070562","count":4},{"id":"GO:0045944","count":4},{"id":"GO:1903699","count":3},{"id":"GO:0022037","count":3}]},{"hash":"1447772792639475792","title":"Developmental post-transcriptional regulation","description":"The Top Terms cluster around translation initiation and its regulation (IRES-dependent initiation, preinitiation complex formation, translation reinitiation) and RNA processing/splicing, with several development-related terms (brain/forebrain, cochlea morphogenesis, gonad development). This suggests a theme of post-transcriptional control of gene expression during development, despite the presence of a few viral translation terms. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0075525","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0001731","count":3}]},{"hash":"1173905528457039640","title":"Ciliary Assembly and Motility","description":"The top GO terms center on cilium/axoneme assembly and movement (motile cilium assembly, axoneme assembly, cilium movement), which most strongly ties the cluster together. Other terms (light signaling, circadian regulation, transcription) are less central and may reflect ancillary roles or annotation noise. Overall, the dominant signal is ciliogenesis and motility.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":8},{"id":"GO:0090180","count":8},{"id":"GO:2001172","count":8},{"id":"GO:0044458","count":1},{"id":"GO:0035082","count":1}]},{"hash":"1696321542027124714","title":"Developmental signaling and cytoskeletal dynamics","description":"The top terms combine development-related processes (brain development, neural tube closure, multicellular organism development) with signal transduction (T cell receptor signaling, ERK cascade) and cytoskeletal assembly (filopodium, stress fibers, spindle). This suggests a theme where signaling pathways guide cytoskeletal remodeling during development, making this label a concise, representative summary of the cluster\u2019s functional themes. Cvt pathway autophagy term is less connected but does not override the dominant developmental-signaling-cytoskeletal pattern.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":4},{"id":"GO:0090307","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0007275","count":3}]},{"hash":"1470809057946747326","title":"Neural Sensory Perception and Signaling","description":"The cluster is dominated by GO terms for sensory perception (pain, vision) and responses to stimuli (temperature, cocaine) along with signaling processes (ERK cascade). This points to neural sensory processing and behavioral signaling as the central theme, with some peripheral terms like saliva secretion and heart development likely reflecting broader regulatory connections rather than a core function. ","confidence":"High","size":29,"edges":16,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":24},{"id":"GO:0002024","count":23},{"id":"GO:0071502","count":23},{"id":"GO:0046541","count":22},{"id":"GO:0010759","count":21}]},{"hash":"57141235805212374","title":"Retroviral entry, reverse transcription, and integration","description":"This cluster is enriched for GO terms tied to retroviral life cycle steps: entry into host cell and nucleus, reverse transcription (RNA-templated DNA biosynthetic process), DNA integration, and proviral latency, along with host apoptotic modulation and RNAi regulation, indicating a cohesive group of proteins involved in viral replication and host interaction.","confidence":"High","size":29,"edges":150,"triangles":310,"max_degree":19,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":13},{"id":"GO:0006260","count":12},{"id":"GO:0046718","count":8},{"id":"GO:0075713","count":8},{"id":"GO:0039651","count":8}]},{"hash":"824031738663843730","title":"Proviral integration and latency","description":"The terms point to a retroviral life cycle\u2014host entry and nuclear penetration, proviral DNA integration with latency, and associated DNA replication/recombination and RNAi evasion.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0015074","count":5},{"id":"GO:0046718","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0039651","count":4}]},{"hash":"266776645601529238","title":"ER-Golgi Vesicle Trafficking and Exocytosis","description":"The GO terms emphasize vesicle transport between the ER and Golgi, ER-Golgi retrograde transport, Golgi ribbon formation, and exocyst-mediated exocytosis, indicating a cohesive role in intracellular membrane trafficking. Some immune signaling terms appear, but they likely reflect shared components rather than a separate pathway; the dominant theme is vesicle trafficking and secretion.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":3},{"id":"GO:0015031","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0090161","count":2},{"id":"GO:0001843","count":2}]},{"hash":"761593149561741211","title":"Cardiac mechanotransduction and pacemaker signaling","description":"The top GO terms converge on mechanical stimulus response, muscle stretch, and SA node communication and action potential regulation, pointing to mechanotransduction in cardiac tissue and pacemaker signaling as the central theme. Supporting terms related to ubiquitination and apoptosis suggest broader stress responses but are secondary to the cardiac mechanotransduction core.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":6},{"id":"GO:0045083","count":5},{"id":"GO:0086070","count":5},{"id":"GO:0098907","count":5},{"id":"GO:0097284","count":5}]},{"hash":"692516041239057718","title":"Ubiquitin-Dependent Mitosis Regulation","description":"The dominant GO terms point to ubiquitin-dependent protein catabolic processes, including K11-linked ubiquitination and APC-dependent proteolysis, which drive mitosis and cell division (anaphase/metaphase transitions). While there are also terms for innate immune response and circadian rhythm regulation, these likely reflect broader ubiquitin signaling roles in stress responses and clock control; overall the cluster appears to reflect a cohesive module of ubiquitin-mediated degradation coordinating cell cycle progression.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0071276","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0042752","count":5},{"id":"GO:0051607","count":4}]},{"hash":"962771819155671523","title":"Light-Driven Circadian Transcription and DNA Mobility","description":"This cluster centers on light-responsive signaling and circadian regulation (far-red phototransduction, circadian rhythm upregulation) together with regulation of DNA-templated transcription, suggesting a theme of light-controlled transcription. The presence of DNA integration, transposition, and even host-virus/symbiont interaction terms indicates DNA mobility and potential mobile elements or viral integration processes accompanying the transcriptional regulation signals. Thus the label emphasizes both the photic/circadian regulation and the DNA mobility aspects of the cluster.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":7},{"id":"GO:0009585","count":7},{"id":"GO:0042753","count":6},{"id":"GO:0010018","count":6},{"id":"GO:0046718","count":5}]},{"hash":"916395721684460811","title":"Unknown","description":"The terms are highly heterogeneous, spanning DNA integration, mitochondrial fusion, mitotic spindle orientation, cytokinesis membrane addition, gamete binding, immune cell homeostasis, male gonad development, symbiont entry, and proviral latency. There is no single clear functional theme tying these proteins together, and the cluster lacks cohesive shared processes, so a concise, meaningful label cannot be assigned.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:0008053","count":2},{"id":"GO:0000132","count":2},{"id":"GO:0007107","count":2},{"id":"GO:0007339","count":2}]},{"hash":"215674158645333324","title":"Developmental signaling and organogenesis","description":"The top GO terms cluster around developmental processes and signaling pathways that orchestrate organ formation. Notch and Wnt signaling feature prominently, with links to heart field development, cardiac atrium morphogenesis, and venous endothelial differentiation, plus neural differentiation and broader multicellular development. Some terms (molting/cuticle) reflect species-specific contexts but don't override the core theme of developmental signaling guiding organogenesis.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0021707","count":4},{"id":"GO:0003270","count":4},{"id":"GO:0016055","count":4},{"id":"GO:0060843","count":4}]},{"hash":"937179411913341205","title":"Unknown","description":"The top GO terms cover signaling regulation, DNA repair, angiogenesis, synaptic vesicle priming, ion transport, DNA replication, protein tetramerization, embryo implantation, and stress responses, with no single shared function linking all proteins. This diversity suggests the cluster groups proteins of disparate roles rather than a cohesive pathway.","confidence":"","size":28,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0032425","count":3},{"id":"GO:0060313","count":3},{"id":"GO:0016082","count":3},{"id":"GO:0035725","count":3}]},{"hash":"206410226908844508","title":"Glutamatergic Synaptic Signaling and Ion Transport","description":"This cluster is dominated by terms related to excitatory synaptic activity (excitatory postsynaptic potential, ionotropic glutamate receptor signaling, glutamatergic synaptic transmission) and essential ion transport (sodium/potassium transmembrane transport), with supporting associations to neuronal signaling and behavior (locomotion, conditioned taste aversion). The combination suggests a cohesive theme of neuronal communication at glutamatergic synapses with ion channel involvement.","confidence":"High","size":28,"edges":25,"triangles":7,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":15},{"id":"GO:0071805","count":15},{"id":"GO:0035725","count":14},{"id":"GO:0010226","count":13},{"id":"GO:0035235","count":13}]},{"hash":"1130848392879177630","title":"Vertebrate Organogenesis Signaling","description":"This cluster is enriched for nervous system development, heart and kidney development, peripheral nervous system development, and angiogenesis, with signaling pathways such as smoothened (Hedgehog), Roundabout (ROBO), and T cell receptor signaling, plus adhesion and synapse assembly. The common thread is vertebrate organogenesis and neural development coordinated by multiple signaling networks, suggesting a role in developmental patterning and intercellular signaling.","confidence":"Medium","size":28,"edges":359,"triangles":2822,"max_degree":27,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":12},{"id":"GO:0050852","count":11},{"id":"GO:0001822","count":10},{"id":"GO:0007224","count":10},{"id":"GO:0035385","count":10}]},{"hash":"1446358470344151928","title":"Neural development and synaptic vesicle regulation","description":"This cluster is enriched for neural development terms (brain, hippocampus, nervous system development) and synaptic vesicle exocytosis regulation, suggesting proteins involved in neural development and neurotransmission. Some unrelated terms (T cell receptor signaling, kidney development) may reflect annotation breadth or cross-talk, but the dominant theme is neural development and synaptic signaling.","confidence":"Medium","size":28,"edges":325,"triangles":2110,"max_degree":27,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":8},{"id":"GO:0021766","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0010796","count":6},{"id":"GO:0031384","count":6}]},{"hash":"1605831551660819777","title":"RNA Splicing and Translation Regulation","description":"The cluster is dominated by spliceosome-associated mRNA processing terms (positive/negative regulation of splicing, cis-splicing, formation of the translation preinitiation complex) and several translation control terms (regulation of translational initiation, IRES-dependent viral initiation, viral termination-reinitiation), plus ncRNA-mediated gene silencing and stress-related mRNA stability. This points to a cohesive module centered on RNA processing and translational control, with potential links to stress responses and viral interactions.","confidence":"High","size":28,"edges":277,"triangles":1890,"max_degree":27,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":21},{"id":"GO:0031047","count":21},{"id":"GO:0010610","count":16},{"id":"GO:0075522","count":15},{"id":"GO:0006446","count":15}]},{"hash":"796245753232209272","title":"RNA Pol II Transcription Regulation in Development","description":"This cluster is dominated by GO terms for DNA-templated transcription and transcription by RNA polymerase II, including negative regulation and regulation of transcription, indicating a core role in Pol II\u2013driven transcriptional control. The accompanying development-related terms (pituitary gland development, endocrine pancreas development, pancreatic cell differentiation, cerebral cortex development, skeletal muscle differentiation) suggest these proteins participate in developmental transcription programs across multiple tissues. Taken together, the cluster appears to group factors involved in transcriptional regulation during development.","confidence":"High","size":28,"edges":95,"triangles":125,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0006366","count":8},{"id":"GO:0000122","count":7},{"id":"GO:0021983","count":6},{"id":"GO:0035914","count":5}]},{"hash":"2084472501601587419","title":"Neuroimmune development and NF-kB signaling","description":"The cluster features neural development terms (brain, inner ear, PNS neuron development) alongside immune-related differentiation (granulocytes, spleen) and responses including lipopolysaccharide, plus NF-kB signaling regulation and transcriptional control, suggesting proteins that coordinate neuroimmune-vascular development with inflammatory signaling.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0048839","count":3},{"id":"GO:0048536","count":3},{"id":"GO:0007626","count":3}]},{"hash":"1953302025405923395","title":"Antiviral innate immune response","description":"The top GO terms are dominated by innate immune response and defense response to virus, along with cellular response to exogenous dsRNA, which together indicate antiviral innate immunity as the core theme of this cluster. The presence of some cell-cycle and degradation-related terms appears as secondary signals, likely reflecting broader cellular processes or virus\u2013host interactions rather than a single cohesive module. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0045087","count":6},{"id":"GO:0051607","count":5},{"id":"GO:0051225","count":4},{"id":"GO:0045842","count":4},{"id":"GO:0042787","count":4}]},{"hash":"402220662103526403","title":"Mitosis and Vesicle Trafficking","description":"The terms dominantly point to mitotic cell cycle processes (mitotic spindle orientation/assembly, cell division) and various vesicle trafficking routes (exocytosis docking, Golgi-ER retrograde transport, endosome-to-lysosome transport), suggesting these proteins coordinate cell division with intracellular transport. Some terms about DNA repair and neural tube closure appear but do not outweigh the core mitosis/trafficking theme.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0000132","count":3},{"id":"GO:0006904","count":3},{"id":"GO:0008333","count":3},{"id":"GO:0090307","count":3}]},{"hash":"1520432657525083781","title":"Reproductive Development and Lactation","description":"The terms cluster around reproductive biology: sperm-egg interaction (binding to zona pellucida, acrosome reaction regulation), mammary gland development and lactose biosynthesis, and glycosylation pathways supporting these processes. Some terms appear as outliers (e.g., Purkinje cell layer development), but the dominant theme is reproductive development and lactation.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007339","count":5},{"id":"GO:0060046","count":4},{"id":"GO:0021680","count":4},{"id":"GO:0006688","count":4},{"id":"GO:0045136","count":4}]},{"hash":"1902172751616217345","title":"Cell cycle and junction dynamics","description":"This cluster is dominated by cell cycle and division terms (cell division, mitotic cell cycle, cell cycle) with supporting roles for ubiquitination and protein complex formation, suggesting regulation by post-translational modifications. Additional terms point to mechanotransduction and cell\u2013cell junction processes (mechanical stimulus response, endothelial barrier establishment, tight junction assembly), indicating coordination of proliferation with adhesion and barrier dynamics. The inclusion of neuronal migration contexts hints at developmental settings where these processes intersect. Overall, the proteins likely function in cell-cycle control coupled to junctional and mechanical regulation.","confidence":"Medium","size":28,"edges":18,"triangles":1,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0016567","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0051291","count":3},{"id":"GO:0007049","count":3}]},{"hash":"2068886478733854305","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000380","count":4},{"id":"GO:0035124","count":2},{"id":"GO:0007313","count":2},{"id":"GO:0060468","count":2},{"id":"GO:0048632","count":2}]},{"hash":"1161711284644667610","title":"Ribosome Biogenesis and Translation","description":"This cluster is strongly enriched for translation and ribosome biogenesis terms (translation; ribosome biogenesis; ribosomal small subunit biogenesis), with accompanying signals for cell cycle and division, suggesting a cohesive module dedicated to ribosome production and protein synthesis during cell growth. A few terms related to transcription elongation regulation and iron homeostasis appear less central but do not overturn the primary ribosome/translation theme.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0032968","count":3},{"id":"GO:1903833","count":2},{"id":"GO:0055072","count":2},{"id":"GO:0051301","count":2}]},{"hash":"1424689123196410352","title":"Ubiquitin-Dependent Proteolysis and NF-kappaB Signaling","description":"The top GO terms point to ubiquitin-mediated protein degradation (including ERAD and histone ubiquitination) and signaling pathways that activate NF-kappaB (I\u03baB phosphorylation, NF-kappaB-inducing kinase activity), alongside innate immune processes and V(D)J recombination. This suggests a cohesive theme of ubiquitin-regulated protein turnover linked to immune signaling and chromatin regulation. Even with some historical/obsolete terms, the central function appears to be ubiquitin-dependent regulation of degradation and immune signaling. ","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":18},{"id":"GO:0030433","count":13},{"id":"GO:0036205","count":11},{"id":"GO:0045087","count":11},{"id":"GO:0007250","count":10}]},{"hash":"558176063279714104","title":"Vesicle trafficking and exocytosis","description":"These terms cluster around membrane trafficking and secretion: SNARE complex assembly, vesicle fusion with ER-Golgi compartments and Golgi, exocytic insertion of receptors, NK cell degranulation, and overall protein transport and Golgi organization. The presence of insulin-related transport also aligns with vesicle dynamics in secretory pathways.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:1990668","count":2},{"id":"GO:0098967","count":2},{"id":"GO:0016240","count":2},{"id":"GO:0035493","count":2}]},{"hash":"1818484395464689619","title":"Neural development and synaptic assembly","description":"The top terms cluster around brain development and neuronal connectivity: corpus callosum development, axonal fasciculation, myelination, and synapse assembly, plus cellular response to dopamine. Although there are a couple of outliers (obsolete localization term and metabolic regulation terms), the dominant theme points to neural development and synaptic maturation.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":4},{"id":"GO:0090180","count":4},{"id":"GO:2001172","count":4},{"id":"GO:0006915","count":3},{"id":"GO:0022038","count":3}]},{"hash":"303835061637206241","title":"Developmental and Immune Signaling","description":"This cluster centers on signaling pathways that govern development and immune system processes (hematopoietic progenitor differentiation, megakaryocyte and cardiac muscle development, Fc-epsilon receptor signaling, calcineurin-NFAT regulation), with additional hints of nervous system plasticity (long-term potentiation, morphine response). The common thread is broad, signaling-driven development and cell-type specification across multiple tissues, rather than a single specific function. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002244","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0043278","count":2},{"id":"GO:0035855","count":2},{"id":"GO:0007205","count":2}]},{"hash":"1594180131349679703","title":"Drosophila Developmental Morphogenesis","description":"This cluster centers on developmental morphogenesis in insects, with terms like eye-antennal disc morphogenesis, ventral midline development, and female gonad morphogenesis indicating patterning and tissue formation, plus supporting processes such as the mitotic cell cycle and RNA splicing. The collective signal suggests a developmental/regulatory protein set in Drosophila, though some terms are broad or non-specific.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070562","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0034247","count":2},{"id":"GO:0007418","count":1},{"id":"GO:0008628","count":1}]},{"hash":"228630163342606582","title":"Vesicle trafficking and cytokinesis","description":"The top GO terms point to endosomal trafficking and intralumenal vesicle formation (endosome to lysosome, early to late endosome, MVB formation) together with mitotic cytokinesis and cell division. The inclusion of positive regulation of GTPase activity aligns with GTPase roles in vesicle transport and cytokinesis. Although a forebrain development term appears, the dominant theme spans vesicle formation/trafficking and cell division, suggesting this cluster groups components of the vesicle machinery involved in cytokinesis.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070676","count":3},{"id":"GO:0008333","count":2},{"id":"GO:0045022","count":2},{"id":"GO:0000281","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1814659290197152319","title":"Cell-Cell Adhesion and Contact Signaling","description":"The cluster is enriched for GO terms centered on cell-cell adhesion (homophilic/heterophilic and integrin-mediated), receptor clustering, and adhesion-related processes such as leukocyte tethering/rolling and cell migration in angiogenesis, with additional references to neural synaptic contact (glutamatergic transmission). These collectively point to proteins that function as intercellular adhesion and signaling mediators across tissues.","confidence":"Medium","size":27,"edges":11,"triangles":5,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":6},{"id":"GO:0007338","count":4},{"id":"GO:0002042","count":4},{"id":"GO:0001867","count":4},{"id":"GO:0034351","count":4}]},{"hash":"1140195027279058759","title":"Neural Sensory Signaling and Perception","description":"Based on the prevalent GO terms, the cluster is enriched for neural signaling and sensory processing: pain and visual perception, visual learning, drug/amphetamine response, membrane potential regulation, and signaling pathway modulation (ERK cascade, GTPase activity, calcium release). While a few terms (heart development, diet-induced thermogenesis) are less aligned, the dominant theme centers on neural signaling and sensory perception.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0019233","count":6},{"id":"GO:0001975","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0051281","count":5}]},{"hash":"1346734060546513738","title":"DNA Transposition and Transcription Regulation in Development","description":"The cluster shows strong representation of DNA integration/transposition and RNA polymerase II\u2013driven transcription, with additional developmental morphogenesis terms (pancreas and digestive tract development, skeletal muscle differentiation, neural crest migration, ureteric bud branching). This points to a group of proteins involved in transcriptional control, potentially including DNA-binding or transposase-like components, that also participate in developmental programs.","confidence":"Medium","size":27,"edges":312,"triangles":2127,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0015074","count":9},{"id":"GO:0006313","count":9},{"id":"GO:0006351","count":8},{"id":"GO:0006366","count":8},{"id":"GO:0090190","count":7}]},{"hash":"808439612621182242","title":"RNA Pol II Transcription Regulation","description":"Most of the top GO terms are directly about transcription regulation by RNA polymerase II (both negative and positive regulation, plus DNA-templated transcription), indicating the cluster centers on transcriptional control. The other terms (e.g., megakaryocyte differentiation, radial glial scaffold formation, coagulation, LPS response) may reflect related developmental or immune roles of the proteins, but the core shared function appears to be regulation of RNA Pol II transcription.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0045654","count":5},{"id":"GO:0043046","count":5},{"id":"GO:0021943","count":5}]},{"hash":"2039954945854175710","title":"Embryonic Eye and Craniofacial Morphogenesis","description":"The top GO terms cluster around developmental processes, especially eye development (camera-type eye development, eye morphogenesis) and craniofacial morphogenesis (embryonic cranial skeleton morphogenesis), with supporting embryonic development and transcriptional regulation terms. This suggests a cohesive theme of embryonic ocular and craniofacial morphogenesis driven by transcriptional control.","confidence":"Medium","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":8},{"id":"GO:0000122","count":6},{"id":"GO:0043010","count":6},{"id":"GO:0048048","count":6},{"id":"GO:0060441","count":6}]},{"hash":"1308132429508840030","title":"DNA replication and repair factors","description":"The cluster is enriched for GO terms related to DNA unwinding, replication fork reversal and progression, nucleotide-excision repair, and mitochondrial DNA repair/maintenance, pointing to proteins involved in DNA replication and repair pathways including fork dynamics and mitochondrial genome maintenance; the estradiol response term may reflect regulatory links rather than core function, but overall the core theme is DNA replication/repair machinery.","confidence":"High","size":27,"edges":61,"triangles":84,"max_degree":8,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0032508","count":7},{"id":"GO:0044806","count":6},{"id":"GO:0006310","count":6},{"id":"GO:0006289","count":5},{"id":"GO:0032355","count":5}]},{"hash":"275538250750934613","title":"Skin development with immune signaling and angiogenesis control","description":"This cluster centers on epidermal development (skin) and broader multicellular development, alongside transcriptional regulation and immune pathways (TLR3 and T cell receptor signaling). The presence of terms affecting vascular signaling and permeability (VEGF pathway and related negative regulation) links development to immune modulation and angiogenesis. Together, these suggest a coherent theme of epidermal development intertwined with immune signaling and angiogenesis control.","confidence":"Medium","size":27,"edges":53,"triangles":36,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0030948","count":7},{"id":"GO:0007275","count":6},{"id":"GO:0043588","count":5},{"id":"GO:0051028","count":5}]},{"hash":"904211948177818722","title":"Coagulation, Fibrinolysis, and ECM Remodeling","description":"Dominant GO terms center on plasminogen activation, fibrinolysis, blood coagulation, tissue remodeling, and extracellular matrix disassembly, pointing to a core function in clot formation and matrix turnover. Additional terms reflect a defense response to Gram-positive bacteria, with a few items mentioning placental differentiation and apoptosis regulation, but these are less central. Overall, the cluster represents a coagulation/fibrinolysis and extracellular matrix remodeling module.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031639","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0048771","count":3},{"id":"GO:0022617","count":3}]},{"hash":"309222945442717656","title":"Neural development and cell cycle regulation","description":"This cluster centers on cell division and the mitotic cell cycle, with brain development as a prominent theme, suggesting involvement in neural progenitor proliferation. Co-occurring terms for translation initiation, Golgi localization, and GTPase activity point to coordinated protein synthesis and trafficking in developing neural tissue, while other terms reflect broader gene-expression regulation.","confidence":"Medium","size":27,"edges":56,"triangles":18,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0007420","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0001731","count":2}]},{"hash":"2186215346492428107","title":"Developmental Morphogenesis","description":"The GO terms cluster around developmental and organogenesis processes across tissues (brain development, neural tube closure, lung development, myoblast fusion, and multicellular development), suggesting a core theme of morphogenesis; peripheral terms like pigmentation and immune differentiation are present but do not dominate.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016525","count":4},{"id":"GO:0007275","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0030324","count":3}]},{"hash":"1640136807199415469","title":"Mitotic Regulation and Kinase Signaling","description":"Cluster appears dominated by terms related to cell cycle progression and signaling: mitotic cell cycle and cell division, and regulations of GTPase and serine/threonine kinase activity with autophosphorylation. These indicate proteins coordinating cell-cycle control through phosphorylation networks. Additional terms like mRNA transport and cellular response to hypoxia are present but appear secondary to the core cell-cycle regulatory theme.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":13},{"id":"GO:0071902","count":11},{"id":"GO:0031954","count":11},{"id":"GO:0051028","count":11},{"id":"GO:0000278","count":11}]},{"hash":"1753716344089340743","title":"MAPK/GTPase Developmental Signaling","description":"Top GO terms indicate regulation of GTPase activity, ERK/MAPK signaling, and developmental processes (heart and retina), plus visual perception and cell proliferation. The common thread is signaling networks\u2014especially MAPK and GTPase pathways\u2014governing organ development and tissue differentiation (eye and heart) with broader roles in proliferation and response pathways. Confidence: Medium","confidence":"Medium","size":27,"edges":13,"triangles":0,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":8},{"id":"GO:0007596","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0007601","count":6},{"id":"GO:0070374","count":6}]},{"hash":"2266846332847684699","title":"Phosphorylation-Regulated Signaling","description":"This cluster centers on regulation of signaling pathways via phosphorylation, including GTPase activity regulation, ERK/MAPK cascades, kinase and phosphatase activities, and related GPCR signaling. While there are neuronal and vascular development terms present (e.g., substantia nigra development, vessel morphogenesis, visual perception), the common theme tying these proteins together appears to be signaling dynamics governed by phosphorylation and dephosphorylation.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0070374","count":3},{"id":"GO:0038095","count":2},{"id":"GO:0071902","count":2},{"id":"GO:0006470","count":2}]},{"hash":"1496398052112807162","title":"Developmental Signaling and Stress Response","description":"The proteins cluster around developmental processes (heart and skeletal system development, male gonad development) and stress-related signaling (hypoxia response, ER-stress\u2013induced apoptosis) with kinase signaling activity (protein serine/threonine kinases, autophosphorylation) and adhesion, suggesting a role in coordinating development with stress-responsive signaling. A single rRNA processing term is present but peripheral to the main themes.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071456","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0090307","count":2},{"id":"GO:0000447","count":2}]},{"hash":"1202085798906107043","title":"Immune signaling and membrane trafficking","description":"The terms point to immune-related signaling (T cell homeostasis; TNF-mediated signaling) and membrane/trafficking processes (plasma membrane to endosome transport; negative regulation of protein localization to cell surface). Although several terms are flagged as obsolete, the recurring theme centers on immune signaling coupled with regulation of protein localization and trafficking to the plasma membrane, suggesting a coherent but not tightly connected functional cluster. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043029","count":2},{"id":"GO:0032516","count":2},{"id":"GO:1902306","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0048227","count":2}]},{"hash":"135683590353022418","title":"Arabinogalactan Protein Glycosylation and Plant Cell Wall Biosynthesis","description":"Top GO terms indicate arabinogalactan protein (AGP) metabolism and hydroxyproline-rich glycoprotein glycosylation, together with placenta-like root hair development and seed coat mucilage biosynthesis, all pointing to AGP/HRGP involvement in plant cell wall formation and remodeling. The cluster likely contains AGP glycosylation enzymes and associated HRGPs driving cell wall\u2013related processes in root hairs and seeds. Some terms appear cross-species or deprecated, but the AGP/HRGP signal remains strong.","confidence":"High","size":27,"edges":21,"triangles":5,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0010493","count":5},{"id":"GO:0018258","count":3},{"id":"GO:0030311","count":3},{"id":"GO:0010405","count":3},{"id":"GO:0080147","count":3}]},{"hash":"1236023426233138966","title":"Ubiquitin-dependent proteolysis and NF-kappaB signaling","description":"This cluster is dominated by ubiquitin-related processes: ubiquitin-dependent protein catabolic process, autoubiquitination, and several linkage-specific ubiquitinations (K6, K48, K63), plus related histone ubiquitination and ERAD terms. The presence of NF-kappaB-inducing kinase activation and TNF signaling terms links these ubiquitination events to inflammatory signaling. A peroxisomal import term (PEX5 ubiquitination) further supports a ubiquitin-centric functional theme. Together, they point to ubiquitin-dependent proteolysis and signaling as the cluster's representative function.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":18},{"id":"GO:0051865","count":13},{"id":"GO:0030433","count":11},{"id":"GO:0085020","count":11},{"id":"GO:0070936","count":10}]},{"hash":"808943444004516695","title":"Unknown","description":"The Top Terms span a wildly diverse set of processes (spindle assembly, chloroplast thylakoid import, immune regulation, vasopressin secretion, ADP-ribosylation, multicellular development, cardiac and vascular signaling, pinocytosis, telomere maintenance) with no single coherent function linking the cluster. This suggests the proteins do not share a common, identifiable biological role, or the annotations reflect disparate, species-specific signals rather than a unified pathway.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051225","count":6},{"id":"GO:0045038","count":6},{"id":"GO:0045083","count":5},{"id":"GO:0030103","count":5},{"id":"GO:0070213","count":5}]},{"hash":"899245361938004451","title":"Neural development and synaptic vesicle priming","description":"This cluster centers on neural-related processes, highlighted by brain development, sensory perception of sound, and synaptic vesicle priming, suggesting a shared role in neuronal differentiation and presynaptic function. Regulatory signals (Rho/Ras) and apoptosis terms support broader developmental and cell-fate processes, though a few terms reflect non-neural roles that may arise from shared vesicle trafficking or signaling pathways.","confidence":"Medium","size":26,"edges":113,"triangles":90,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":6},{"id":"GO:0035023","count":3},{"id":"GO:0043314","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0007340","count":3}]},{"hash":"108226335230931515","title":"Lipid and aromatic compound catabolism and detoxification","description":"This cluster shows strong signals for triglyceride and phospholipid remodeling/degradation, aromatic compound degradation (beta-ketoadipate pathway, stilbene catabolic process), and detox-related processes (response to toxic substance, cellular oxidant detoxification, P450 epoxygenase pathway), indicating a coherent group of proteins involved in lipid/aromatic metabolism and detoxification pathways.","confidence":"Medium","size":26,"edges":30,"triangles":2,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":8},{"id":"GO:0009636","count":8},{"id":"GO:0046272","count":7},{"id":"GO:0046839","count":7},{"id":"GO:0019373","count":7}]},{"hash":"1170092739128553072","title":"Chromatin organization and transcription regulation","description":"Based on the GO terms, the cluster is enriched for chromatin-related processes: heterochromatin formation, protein localization to chromatin, nucleosome assembly, and regulation of RNA polymerase II transcription (both positive and negative). These indicate a shared function in regulating chromatin state and transcription, with developmental terms likely reflecting broader roles of chromatin regulators. Overall, the common theme is chromatin organization and transcription control.","confidence":"High","size":26,"edges":10,"triangles":1,"max_degree":3,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0030466","count":5},{"id":"GO:0071169","count":5},{"id":"GO:0006357","count":4},{"id":"GO:0007338","count":4},{"id":"GO:0007420","count":4}]},{"hash":"1467333761749628250","title":"Arabinogalactan Protein Glycosylation","description":"The cluster is strongly enriched for GO terms related to O-linked glycosylation, especially protein O-linked glycosylation via mannose and arabinogalactan protein (AGP) metabolic processes, plus mucilage and seed coat polysaccharide biosynthesis and plant-related developmental processes like root hair development and polarity maintenance. This pattern points to a functional group of proteins involved in AGP glycosylation and cell-wall polysaccharide biosynthesis, with broad effects on plant surface structures and development.","confidence":"Medium","size":26,"edges":55,"triangles":20,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0035269","count":3},{"id":"GO:0018258","count":3},{"id":"GO:0030311","count":3},{"id":"GO:0010405","count":3},{"id":"GO:0010493","count":3}]},{"hash":"236798373474351272","title":"Viral DNA Integration and Latency","description":"The GO terms are dominated by viral lifecycle processes\u2014DNA integration, proviral latency, and entry/penetration into host cells\u2014along with DNA replication and host interactions. This points to a cohesive theme of viral genome integration and latent infection pathways driving the cluster.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:2001172","count":2},{"id":"GO:0046718","count":2}]},{"hash":"1654496263347002617","title":"ER Stress Response and Proteostasis","description":"This cluster is dominated by GO terms tied to endoplasmic reticulum (ER) stress and the unfolded protein response, including response to unfolded protein and translation initiation regulation in response to ER stress, plus cellular response to ER stress. These points together to a coherent theme of managing proteostasis under stress. Some unrelated or obsolete terms (e.g., cytokinin signaling, morphine response) may introduce noise, but do not negate the ER-stress focus.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0009736","count":4},{"id":"GO:0036494","count":4},{"id":"GO:0006986","count":4},{"id":"GO:0016576","count":3},{"id":"GO:0043278","count":3}]},{"hash":"1923592131151344365","title":"Dopaminergic and Adrenergic GPCR Signaling","description":"Cluster enriched for GPCR signaling terms tied to dopamine and adrenergic receptors (adenylate cyclase activation, MAPK signaling, calcium channel regulation, phosphorylation). Pain and morphine response terms tie to neuromodulation, with temperature and xenobiotic responses suggesting stress signaling. Overall, the theme is GPCR-driven neuromodulatory signaling related to pain and sensory processing.","confidence":"High","size":26,"edges":4,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042493","count":10},{"id":"GO:0002024","count":10},{"id":"GO:0071502","count":10},{"id":"GO:0019233","count":10},{"id":"GO:0071883","count":9}]},{"hash":"1449130381031918545","title":"Cell stress and inflammatory signaling","description":"The terms cluster around apoptosis and necroptosis signaling (TRAIL pathway, cysteine-type protease activation), immune responses (LPS response), and inflammation-related processes (endothelial barrier regulation, hyaluronan biosynthesis), with additional diverse stress-related activities such as viral mRNA export and DNA repair pathways. This suggests a broad theme of cellular stress responses and inflammatory signaling rather than a single precise function.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":3},{"id":"GO:0000724","count":3},{"id":"GO:0046784","count":3},{"id":"GO:0036462","count":3},{"id":"GO:0097296","count":3}]},{"hash":"1255258739413803485","title":"Calcium signaling and developmental pathways","description":"The cluster is enriched for calcium-related signaling (CAMKK-AMPK cascade, calcium ion import) alongside pathways governing development and tissue remodeling (Wnt signaling, angiogenesis, cell morphogenesis, hippocampus development, mast cell differentiation). This mix points to a unified role in calcium-dependent signal transduction that regulates development and structural changes across tissues, justifying the label.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0009636","count":12},{"id":"GO:0042220","count":11},{"id":"GO:0061762","count":9},{"id":"GO:0060374","count":9},{"id":"GO:0045766","count":9}]},{"hash":"714328930369077207","title":"Immune activation and Fc receptor signaling","description":"The cluster's top GO terms cluster around immune/inflammatory signaling: cellular response to fungal origin, platelet activation, arachidonic acid secretion, Fc-gamma receptor signaling, basophil activation, and NK cell regulation. This points to proteins involved in immune cell activation and cross-talk, especially Fc receptor\u2013mediated pathways and platelet\u2013immune interactions. Some terms (e.g., kidney development) are outliers or misannotations, but the dominant theme is immune activation and signaling.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071226","count":20},{"id":"GO:0010572","count":18},{"id":"GO:0090238","count":17},{"id":"GO:0051873","count":17},{"id":"GO:2000502","count":17}]},{"hash":"1673739011697495578","title":"Unknown","description":"The top GO terms span development (multicellular organism development, bone maturation), endocrine signaling (vasopressin secretion), immune regulation (T cell homeostasis), and nervous/physiological responses (temperature stimulus, pain perception, behavioral response to pain, CO2 detection) plus protein assembly (homooligomerization); there is no single, cohesive function linking these terms, making a specific representative label inappropriate.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":11},{"id":"GO:0002024","count":11},{"id":"GO:0071502","count":11},{"id":"GO:0019233","count":11},{"id":"GO:0043931","count":10}]},{"hash":"1548898755714662632","title":"Metal Ion Transport and Detoxification","description":"The cluster is enriched for multiple metal ion transport terms (cadmium ion transmembrane transport, copper ion export, regulation of iron ion transmembrane transport, mercury ion transport) and related responses, indicating a common theme of metal ion homeostasis and detoxification. While there are also metabolic regulation terms (thiamine biosynthesis, glycolytic fermentation) and an obsolete term, the dominant signal centers on transporting and managing metal ions across membranes, justifying a metal-homeostasis label.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":3},{"id":"GO:0090180","count":3},{"id":"GO:2001172","count":3},{"id":"GO:0070574","count":2},{"id":"GO:0042552","count":2}]},{"hash":"1269791289482923967","title":"Nuclear RNA processing and decay","description":"This cluster is driven by GO terms related to nuclear RNA metabolism and RNA turnover, including RNA repair, polyuridylation- and polyadenylation-dependent decapping, nuclear mRNA surveillance, and histone mRNA catabolism, indicating a cohesive function in RNA processing and degradation within the nucleus. Some terms are obsolete or outliers, but the dominant signal supports RNA processing/decay.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090502","count":2},{"id":"GO:0001935","count":2},{"id":"GO:0006313","count":2},{"id":"GO:0042245","count":2},{"id":"GO:0043630","count":2}]},{"hash":"2266575114053122828","title":"Unknown","description":"The terms cover disparate processes (protein ubiquitination; cardiac/SA node signaling; immune regulation; pain responsiveness; vascular endothelial changes; hepatocyte apoptosis). No clear, shared function ties all 26 proteins together, so a single intuitive label could not be confidently assigned.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":6},{"id":"GO:0098907","count":6},{"id":"GO:0045083","count":5},{"id":"GO:0030103","count":5},{"id":"GO:0086070","count":5}]},{"hash":"1214736754354892082","title":"Axon guidance and nerve projection","description":"The top GO terms cluster around axon guidance and neuron projection processes (including sympathetic and branchiomotor neuron guidance, trigeminal nerve organization), as well as paranodal/juxtaparanodal localization in axons and neural crest\u2013related migration. This points to a module focused on neural wiring and nerve structural organization driven by guidance cues and cytoskeletal dynamics (Rho signaling). ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0097490","count":2},{"id":"GO:0097491","count":2},{"id":"GO:0030913","count":2},{"id":"GO:0021637","count":2}]},{"hash":"2208104239284173913","title":"Organ development and angiogenesis with immune interactions","description":"Top terms show strong representation for multicellular development, differentiation, and angiogenesis (including liver regeneration and positive regulation of angiogenesis), pointing to tissue development and vascular remodeling. Additional terms relate to membrane proteolysis, transport, and leukotriene biosynthesis, and immune-related processes such as antigen processing via MHC I and symbiont entry into host cells, suggesting concurrent host interaction signals. Overall, the cluster appears to reflect a cohesive theme around organ development and angiogenesis with accompanying immune/host-interaction and membrane remodeling activities.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0097421","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0035435","count":4},{"id":"GO:0019885","count":3}]},{"hash":"657841695933200673","title":"Unknown","description":"The top GO terms span diverse processes (development in heart/spinal cord, immune regulation, apoptosis, microtubule movement, sensory perception, metabolism), with no clear single function tying them together and no edges connecting proteins, so there isn\u2019t a coherent cluster theme to label accurately.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0010763","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0007018","count":3},{"id":"GO:0097194","count":3},{"id":"GO:0021510","count":3}]},{"hash":"1085029517497235988","title":"Stress Response Signaling and Transcription Regulation","description":"The proteins cluster around regulatory processes including transcriptional control (negative regulation of RNA Pol II, ER-stress\u2013related transcriptional repression), apoptosis, and signaling pathways (Fc-epsilon receptor, insulin receptor signaling, CDK activity). This points to a unifying theme of stress-responsive signaling and transcriptional regulation, rather than a single pathway; a couple of terms (phloem/xylem histogenesis, proline transport) appear peripheral or species-specific. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001199","count":2},{"id":"GO:0038095","count":2},{"id":"GO:0045737","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0046626","count":2}]},{"hash":"1977531896997626128","title":"Neural development and synaptic signaling","description":"The top GO terms are dominated by nervous system development, brain development, and regulation of synaptic vesicle exocytosis, suggesting this cluster centers on neuronal development and synaptic transmission. While immune-related terms (Th1 response, JNK cascade) appear, they are likely secondary or pleiotropic within these proteins. Overall, the theme points to neural differentiation and communication pathways.","confidence":"High","size":25,"edges":30,"triangles":1,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046330","count":6},{"id":"GO:0042088","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0032707","count":6},{"id":"GO:0007420","count":6}]},{"hash":"307371816674518941","title":"RNA splicing and translation initiation regulation","description":"The cluster concentrates on mRNA processing (splicing, polyadenylation, stability) and translation initiation control (preinitiation complex formation, reinitiation), with some ncRNA-mediated gene silencing signals, indicating a cohesive RNA maturation and expression-regulation module.","confidence":"High","size":25,"edges":226,"triangles":1303,"max_degree":22,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":17},{"id":"GO:0048026","count":17},{"id":"GO:0000398","count":12},{"id":"GO:0006378","count":11},{"id":"GO:1901407","count":11}]},{"hash":"533884006726518094","title":"Nuclear Gene Expression and Cell Cycle Regulation","description":"Most prominent terms point to nuclear regulation: mitotic spindle assembly and DNA/chromatin processes (DNA unwinding, nucleosome mobilization, DNA recombination) alongside transcriptional control of RNA polymerase II and protein turnover (ubiquitination) and NF-kappaB signaling. While there are a few development-related terms (substantia nigra and skeletal muscle), the core theme is regulation of gene expression and the cell cycle within the nucleus. ","confidence":"Medium","size":25,"edges":65,"triangles":44,"max_degree":15,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0090307","count":7},{"id":"GO:0045944","count":6},{"id":"GO:0032508","count":6},{"id":"GO:0006310","count":6},{"id":"GO:0016567","count":6}]},{"hash":"960575251866807507","title":"Wnt-ERK signaling in bone remodeling and angiogenesis","description":"The top GO terms cluster around Wnt signaling, ERK/MAPK activation, and osteoclast development, with supporting signals for sprouting angiogenesis, ephrin signaling, small GTPase pathways, and mechanotransduction. This suggests a coherent network coordinating bone remodeling and vascularization in response to mechanical cues, with ubiquitination and cytoskeletal dynamics as modulators. Some terms may be incidental, but the overall theme fits a Wnt/ERK-driven bone-angiogenesis signaling module.","confidence":"Medium","size":25,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":2},{"id":"GO:0043366","count":2},{"id":"GO:0036035","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0002040","count":2}]},{"hash":"95449163910317572","title":"Steroid Hormone and Pigment Biosynthesis","description":"The top GO terms are biosynthetic processes for several hormone-related steroids (androgen, estrogen, glucocorticoid), vitamin A (retinol), melanin, and cofactors (tetrahydrobiopterin). This suggests a cohesive theme of biosynthesis of diverse signaling molecules and pigments, with regulatory roles in transcription. Thus the set is best described as a cluster of enzymes and regulators involved in steroid, retinoid, and pigment biosynthesis pathways.","confidence":"Medium","size":25,"edges":236,"triangles":1320,"max_degree":23,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006729","count":24},{"id":"GO:0006355","count":24},{"id":"GO:0006710","count":24},{"id":"GO:0006704","count":24},{"id":"GO:0042619","count":24}]},{"hash":"1918202622397806399","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":299,"triangles":2277,"max_degree":24,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":20},{"id":"GO:0031047","count":20},{"id":"GO:0000398","count":14},{"id":"GO:0010610","count":13},{"id":"GO:0071031","count":11}]},{"hash":"343953269116982361","title":"AGP Glycosylation and Cell Wall Biosynthesis","description":"The cluster's terms center on arabinogalactan protein metabolic process, O-linked glycosylation via hydroxyproline, and seed coat mucilage biosynthesis, which point to glycoprotein modification and extracellular matrix formation in plants. Additional terms about root hair development and epithelial polarity reinforce a theme of developmentally regulated cell surface components and ECM interactions. Together these terms suggest a cohesive function in AGP-related glycosylation and cell wall biosynthesis across species.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032092","count":5},{"id":"GO:0010405","count":4},{"id":"GO:0080147","count":4},{"id":"GO:0007299","count":4},{"id":"GO:0042248","count":4}]},{"hash":"1863788380953882098","title":"Glycolysis and TCA Metabolism","description":"This cluster is dominated by core energy pathways: glycolysis (GO:0006096) and the tricarboxylic acid cycle (GO:0006099), including pyruvate decarboxylation to acetyl-CoA (GO:0006086) and oxaloacetate turnover (GO:0006107). Additional terms for xenobiotic and hydrogen peroxide responses suggest the proteins may function in metabolism with stress-response coordination. Overall, the common theme is central carbon metabolism driving energy production, with some oxidative/stress-related links.","confidence":"High","size":25,"edges":217,"triangles":1035,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006099","count":7},{"id":"GO:0055114","count":6},{"id":"GO:0006096","count":4},{"id":"GO:0006107","count":4},{"id":"GO:0042493","count":4}]},{"hash":"1644233413662341503","title":"Retroviral integration and latency","description":"These proteins cluster around the retroviral life cycle: DNA recombination/replication, RNA-templated DNA biosynthesis (reverse transcription), DNA integration, and especially the establishment of integrated proviral latency, along with entry/penetration into host nucleus and host apoptosis activation. The combination of integration, latency, and nuclear entry points to a retroviral/proviral function rather than a generic cellular process, supporting this label.","confidence":"High","size":25,"edges":290,"triangles":2099,"max_degree":24,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":22},{"id":"GO:0046718","count":17},{"id":"GO:0075713","count":17},{"id":"GO:0006260","count":17},{"id":"GO:0039651","count":17}]},{"hash":"2220965290128022076","title":"RNA processing and translation machinery","description":"The top GO terms center on mRNA export and spliceosome-mediated splicing, plus translation initiation/reinitiation and ribosome biogenesis, indicating proteins involved in RNA metabolism and assembly of the translation apparatus. Some DNA replication and cell division terms are present but do not undermine the RNA-focused theme.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006406","count":5},{"id":"GO:0048026","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0002188","count":4}]},{"hash":"1866730153126236750","title":"Proteostasis and Stress Response","description":"The top GO terms cluster around cellular stress responses, redox balance, ER protein folding, and protein repair, suggesting these proteins function together to maintain protein homeostasis under stress. Some terms (dormancy entry, viral process, heterochromatin formation) appear less coherent with this theme and may reflect annotation noise or broader roles, but the dominant signal is proteostasis under stress.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006950","count":4},{"id":"GO:0085014","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0006486","count":3},{"id":"GO:0045454","count":2}]},{"hash":"982141081174039761","title":"Ribosome Biogenesis and Translation Initiation","description":"The top GO terms cluster around ribosome assembly and protein synthesis initiation, including translation (GO:0006412), ribosomal subunit biogenesis (GO:0042273), formation of translation preinitiation complex (GO:0001731), translation initiation regulation (GO:0006446), and translation reinitiation (GO:0002188), plus rRNA processing steps. This pattern strongly suggests a group of proteins involved in assembling the ribosome and initiating translation, with some notes on viral translation contexts (IRES-dependent initiation). ","confidence":"High","size":25,"edges":153,"triangles":429,"max_degree":18,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0042273","count":5},{"id":"GO:0002188","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0000447","count":4}]},{"hash":"1425359810908136686","title":"Synaptic Endocytosis and GTPase Signaling","description":"The cluster centers on endocytosis and vesicle trafficking with neuronal signaling components: endocytosis, retrograde Golgi-ER transport, ephrin receptor signaling, and positive regulation of synapse structural plasticity. The presence of small GTPase\u2013mediated signaling and negative regulation of GTPase activity reinforces a theme of dynamic membrane trafficking linked to receptor signaling at synapses. Some terms like mitotic spindle assembly and Wnt signaling suggest broader signaling roles, but the dominant pattern ties endocytosis/trafficking to GTPase-regulated signaling.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006897","count":3},{"id":"GO:0051835","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0006890","count":2}]},{"hash":"54418920597585390","title":"Stress-Activated Apoptosis and Inflammation","description":"These terms cluster around activation of stress-response pathways and programmed cell death, including positive regulation of TNF production and JNK signaling, and hepatocyte/neuron apoptosis. A vesicular trafficking term (endosome to lysosome transport) and cellular responses to mechanical stimuli suggest a broader stress/immune-response module that can involve platelet formation and inflammatory signaling. While some development terms are present, their inclusion likely reflects broader roles of these pathways rather than a separate function. Overall, the cluster points to a cohesive theme of stress-induced apoptosis and inflammation.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008333","count":3},{"id":"GO:0010796","count":3},{"id":"GO:0021766","count":2},{"id":"GO:0046330","count":2},{"id":"GO:0097284","count":2}]},{"hash":"2115172178980912769","title":"Developmental signaling and cytoskeletal dynamics","description":"Top GO terms indicate broad developmental programs (multicellular development; brain/forebrain/skin development; seminiferous tubule development) alongside processes such as protein ubiquitination, G1 DNA damage checkpoint signaling, and regulation of actin nucleation via Arp2/3, plus positive regulation of serine/threonine kinase activity. This mix suggests a cluster of proteins involved in developmental signaling that also modulates cytoskeletal dynamics and proteostasis, rather than a tissue-specific function. Hence the label Developmental signaling and cytoskeletal dynamics.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0000209","count":2},{"id":"GO:0072432","count":2},{"id":"GO:1902510","count":2},{"id":"GO:0007420","count":2}]},{"hash":"2223573390175089216","title":"Retroviral integration and proviral latency","description":"The top GO terms point to steps in the retroviral life cycle: reverse transcription (RNA-templated DNA biosynthetic process), DNA replication and recombination, DNA integration, entry into the host nucleus, and establishment of integrated proviral latency, plus host-virus interaction like suppression of host RNA silencing. Together these terms strongly indicate proteins involved in viral genome replication, integration, and maintenance of latent proviruses. ","confidence":"High","size":25,"edges":296,"triangles":2212,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":18},{"id":"GO:0046718","count":15},{"id":"GO:0075713","count":15},{"id":"GO:0039651","count":15},{"id":"GO:0015074","count":15}]},{"hash":"578788337002052730","title":"Cardiac electrical activity and ion transport","description":"This cluster is driven by GO terms centered on cardiac electrophysiology\u2014regulation of SA node and atrial action potentials, and regulation of resting membrane potential\u2014along with related ion handling (manganese transport) and a stress-responsive shift toward cardiac hypertrophy. The presence of vasopressin secretion suggests a neuroendocrine link to cardiac stress, while other terms (e.g., immune-related) appear as less central. Together, these terms point to a cohesive theme of cardiac electrical signaling and ion homeostasis.","confidence":"High","size":25,"edges":21,"triangles":6,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0051260","count":10},{"id":"GO:0043029","count":10},{"id":"GO:1903244","count":10},{"id":"GO:0098907","count":10},{"id":"GO:0098910","count":10}]},{"hash":"1955071793701911646","title":"Rho-MAPK Mediated Cytoskeletal Remodeling","description":"This cluster centers on cytoskeletal dynamics and signal transduction. The top GO terms include actin cytoskeleton reorganization, Rho protein signaling, and JUN phosphorylation downstream of MAPK, indicating remodeling of the cytoskeleton coupled to transcriptional signaling. Other terms like angiogenesis and response to muscle activity align with cellular processes driven by cytoskeletal changes, while some entries (lipopolysaccharide response, abscisic acid signaling) reflect broader signaling contexts across species. Taken together, the proteins likely participate in signaling pathways that regulate the cytoskeleton and associated transcriptional responses, justifying a label focused on cytoskeletal remodeling and Rho/MAPK signaling.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0031532","count":8},{"id":"GO:0001525","count":7},{"id":"GO:0007266","count":7},{"id":"GO:0014850","count":7},{"id":"GO:0007258","count":7}]},{"hash":"1163956004016090844","title":"Mitotic Cell Cycle and Growth","description":"The cluster\u2019s top GO terms are dominated by mitotic processes (mitotic sister chromatid cohesion, mitotic cell cycle, cell division) and by ribosomal large subunit biogenesis, pointing to a core function in cell division and protein synthesis required for proliferation. While there are developmental and immune terms, they likely reflect gene pleiotropy rather than a single alternative theme. Thus the label captures the strongest, shared biology of this group.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007064","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0042273","count":4},{"id":"GO:0006349","count":4}]},{"hash":"16943467522097370","title":"Cell death and innate immune signaling","description":"This cluster is dominated by terms related to apoptotic signaling and necroptosis regulation (including TRAIL-activated pathways and cysteine-type caspase activity) along with innate immune response, suggesting a core function in programmed cell death and immune signaling. While there are also terms like mitotic spindle assembly and viral mRNA export, these appear less central to the cluster\u2019s main theme, with a possible outlier indicating broader signaling roles (e.g., behavioral response to cocaine). Overall, the proteins likely participate in apoptosis/necroptosis and innate immunity pathways.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0090307","count":11},{"id":"GO:0046784","count":10},{"id":"GO:0060546","count":8},{"id":"GO:0006915","count":8},{"id":"GO:0045087","count":8}]},{"hash":"284916656882858014","title":"Potassium transport and membrane potential regulation","description":"These proteins cluster around potassium handling and membrane excitability: regulation of resting membrane potential, cardiac repolarization, intracellular potassium homeostasis, and potassium transmembrane transport, which together point to control of ionic gradients and membrane potential. Sensory terms (touch and pain) are present but likely reflect shared ion-channel involvement; development and thermogenesis terms may be incidental. Overall, the dominant theme is potassium homeostasis and membrane potential control.","confidence":"High","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060075","count":12},{"id":"GO:0098914","count":12},{"id":"GO:0030007","count":12},{"id":"GO:0030322","count":12},{"id":"GO:0050976","count":12}]},{"hash":"1342370005174658529","title":"Neural development and transcriptional regulation","description":"The top terms center on DNA-templated transcription and its regulation, along with brain/forebrain development, implying proteins that drive neural development via transcriptional control. While there are hints of DNA damage response and apoptosis, the core signal is neural-development\u2013related transcriptional regulation.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0006355","count":4},{"id":"GO:0072432","count":4},{"id":"GO:1902510","count":4},{"id":"GO:0007420","count":4}]},{"hash":"1854988625690577226","title":"Neuronal signaling and axon guidance","description":"The top GO terms are dominated by neural functions: neurotransmitter secretion, long-term synaptic depression, sensory perception of sound, and axon target recognition, with supporting roles for calcium signaling and Golgi organization. Together they point to proteins involved in neural signaling and axon guidance, rather than generic cellular processes.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0060292","count":2},{"id":"GO:0051262","count":2},{"id":"GO:0007269","count":2},{"id":"GO:0002115","count":2}]},{"hash":"1113896617585045484","title":"Transmembrane Transport Proteins","description":"The top GO terms are dominated by transmembrane transport across various substrates (phosphate, nitrate, galactose, potassium, xenobiotics), pointing to a cluster enriched for membrane transporters. Some unrelated or obsolete terms exist, but the common theme is transport across membranes, justifying the label.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":3},{"id":"GO:0097421","count":2},{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:2001172","count":2}]},{"hash":"170420327046078541","title":"Apoptosis, ubiquitination, and innate immunity","description":"This cluster is enriched for apoptotic processes, protein ubiquitination, and innate immune responses, with notable representations for responses to LPS and xenobiotic stimuli, as well as redox homeostasis. The combination points to a functional module linking cell death, protein turnover, and immune/stress signaling, though some terms (e.g., spindle assembly, transcription) suggest broader roles beyond the core theme.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":7},{"id":"GO:0016567","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0045454","count":6},{"id":"GO:0090307","count":5}]},{"hash":"1800022043523570413","title":"Developmental Signaling Networks","description":"This cluster aggregates proteins involved in multiple signaling pathways that regulate development and differentiation across tissues: CAMKK-AMPK pathway, Wnt signaling, calcium signaling, B cell receptor signaling, angiogenesis, and hippocampus development. The common thread is active signal transduction guiding lineage specification, morphogenesis, and tissue growth.","confidence":"High","size":24,"edges":262,"triangles":1750,"max_degree":23,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0061762","count":24},{"id":"GO:0060374","count":24},{"id":"GO:0045766","count":24},{"id":"GO:0021766","count":24},{"id":"GO:0090263","count":24}]},{"hash":"2039583878343175597","title":"Hormone signaling and developmental stress responses","description":"These proteins cluster around endocrine signaling, with multiple GO terms for insulin and IGF stimulus as well as corticosterone response, suggesting involvement in hormone-driven signaling pathways. The presence of heart and substantia nigra development terms indicates developmental programs in heart and brain. Additional terms on insulin response, stress-related survival mechanisms (negative regulation of necroptosis), and mitochondrial apoptotic changes point to integrated stress and metabolic signaling. Overall, the cluster seems to reflect hormone signaling intertwined with developmental programs and cellular stress responses.","confidence":"Medium","size":24,"edges":19,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0097274","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0006828","count":3},{"id":"GO:0032869","count":3}]},{"hash":"1105406523215370793","title":"Endosomal-to-vacuolar trafficking and protein transport","description":"Most prominent GO terms point to vesicle trafficking and vacuolar localization: late endosome to vacuole transport via multivesicular body sorting, protein transport, and protein targeting to vacuole. These indicate a shared function in directing proteins through endosomal pathways to the vacuole/lysosome, consistent with a trafficking/protein localization module. Other terms (sodium ion transport, gastric acid secretion, NF-kappaB signaling, splicing) are broader or secondary annotations and likely reflect multifunctional proteins present in the cluster rather than a single narrow function.","confidence":"High","size":24,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032511","count":2},{"id":"GO:0060453","count":2},{"id":"GO:0015031","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0043029","count":2}]},{"hash":"85217907854868602","title":"RNA processing and ribosome biogenesis","description":"The cluster shows strong enrichment for RNA maturation and processing (capping, splicing, polyadenylation) and for ribosome biogenesis (preribosome assembly, large subunit biogenesis), suggesting a cohesive theme around RNA metabolism and ribosome production. A couple terms like retina development and cell proliferation are present but appear incidental to the dominant RNA/ ribosome biology signal.","confidence":"High","size":24,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0098789","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0006378","count":2}]},{"hash":"387284617346704504","title":"Steroid and Prostaglandin Biosynthesis","description":"The top GO terms cluster around lipid-derived hormone production, including testosterone and androgen metabolism, prostaglandin biosynthesis, and vitamin D response, pointing to lipid hormone biosynthesis as the core function of this cluster. Some terms (viral process, Notch regulation) seem peripheral but do not outweigh the lipid hormone biosynthesis signal.","confidence":"Medium","size":24,"edges":12,"triangles":0,"max_degree":3,"top_function":"wound healing","top_go_terms":[{"id":"GO:0033280","count":6},{"id":"GO:0055114","count":6},{"id":"GO:0001516","count":5},{"id":"GO:0051965","count":4},{"id":"GO:0016032","count":4}]},{"hash":"982046622002939901","title":"Bacterial fatty acid and lipoteichoic acid biosynthesis","description":"The top GO terms cluster around fatty acid biosynthesis and metabolism, lipoteichoic acid biosynthesis (common in Gram-positive bacteria), and related lipid processes such as fatty acid transport and menaquinone biosynthesis. A few terms like seed coat development appear incongruent and may be annotation noise, but the dominant theme is lipid biosynthesis and metabolism in bacteria.","confidence":"High","size":24,"edges":89,"triangles":145,"max_degree":14,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0070395","count":6},{"id":"GO:0006633","count":5},{"id":"GO:0009234","count":5},{"id":"GO:0000038","count":5},{"id":"GO:1902987","count":5}]},{"hash":"1255380242093133931","title":"Neurodevelopment and Autophagy-Related Processes","description":"The top GO terms are centered on multicellular development and neural development (e.g., neural tube closure, neuron projection development, lens fiber and skeletal system development) with evidence for DNA-templated transcription, suggesting developmental regulation and gene expression. A subset of terms relates to autophagy/nuclear autophagy (piecemeal microautophagy of the nucleus, autophagosome assembly, nucleophagy), indicating possible involvement in cellular remodeling during development. Taken together, the cluster seems focused on neurodevelopment with associated transcriptional control and autophagy-related processes, rather than a single, cohesive metabolic pathway.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0070306","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0034727","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1325058860512861051","title":"Regulation of Signaling Pathways Across Systems","description":"The top terms focus on regulation of Rho and Ras signaling, as well as other regulatory processes (neutrophil degranulation, angiogenesis, synaptic potentiation, acrosome reaction, B cell differentiation) and intracellular transport, pointing to a broad theme of modulating signaling across diverse cellular contexts.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0046580","count":4},{"id":"GO:0009395","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0043314","count":3}]},{"hash":"913658557866396917","title":"Apoptosis and pyroptosis signaling","description":"The top terms are dominated by apoptotic processes and pyroptotic inflammatory response, indicating a cluster centered on programmed and inflammatory cell death pathways. Some other terms (DNA integration/recombination, proviral latency) appear ancillary, but the clear common theme is apoptosis/pyroptosis signaling rather than metabolism or localization. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:1902043","count":3},{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:2001172","count":2}]},{"hash":"1902462760442805484","title":"Innate immune and stress-response transcription regulation","description":"The cluster\u2019s top GO terms emphasize innate immune signaling (innate immune response, interferon response) and cellular stress responses (cadmium and hydrogen peroxide), suggesting a theme of immune/stress signaling. Coupled with transcription-related terms (DNA-templated transcription, RNA polymerase III transcription), the proteins appear connected through coordinated transcriptional regulation during immune and stress responses, despite some broader terms like development and cell cycle that may reflect general cellular states. ","confidence":"Medium","size":24,"edges":3,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":9},{"id":"GO:0071276","count":8},{"id":"GO:0006351","count":8},{"id":"GO:0007275","count":8},{"id":"GO:0000278","count":8}]},{"hash":"1408574558906912233","title":"Dopamine/Adrenergic GPCR Signaling","description":"This cluster is dominated by GO terms tied to GPCR signal transduction, notably dopamine receptor signaling that activates adenylate cyclase and adrenergic receptor signaling that engages MAPK pathways. They also include downstream effects such as protein phosphorylation, calcium channel regulation, and heart-rate modulation, with additional links to immune-related chemotaxis. The shared theme is GPCR-mediated signaling and its downstream regulation.","confidence":"High","size":24,"edges":4,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071883","count":8},{"id":"GO:0043278","count":8},{"id":"GO:1901386","count":8},{"id":"GO:0007191","count":8},{"id":"GO:0048245","count":8}]},{"hash":"1506602432187959258","title":"Actin Cytoskeleton Remodeling and Mechanotransduction","description":"Enriched GO terms highlight actin cytoskeleton dynamics (stress fibers, cytoskeleton reorganization), Rho signaling, and cellular responses to mechanical stimulus, which point to cytoskeleton remodeling and mechanotransduction. Developmental terms (forebrain and neural tube closure, cardiac differentiation) fit with cytoskeletal processes needed during morphogenesis. Overall, the cluster likely represents proteins involved in actin remodeling and mechanical signaling with developmental roles.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045736","count":7},{"id":"GO:0007266","count":5},{"id":"GO:0031532","count":5},{"id":"GO:0030900","count":5},{"id":"GO:0071260","count":4}]},{"hash":"517380812077507812","title":"Ribosome Biogenesis and Translation","description":"The top terms are centered on translation and ribosome-related processes (translation, cytoplasmic translation, translational termination, and ribosome biogenesis), with RNA turnover noted (deadenylation-dependent decay). This suggests the cluster is enriched for proteins involved in protein synthesis and RNA processing; a few terms about DNA integration and proviral latency appear incidental rather than defining the cluster\u2019s theme. ","confidence":"Medium","size":24,"edges":11,"triangles":4,"max_degree":4,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0015074","count":3},{"id":"GO:0002181","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0075713","count":2}]},{"hash":"2059448808288704795","title":"Neuronal ion transport and synaptic signaling","description":"The cluster centers on ion transmembrane transport (K+, Na+, Ca2+), EPSP, and GABA signaling, indicating neural, ion-channel\u2013mediated synaptic transmission. Behavior terms (locomotory behavior, startle, conditioned taste aversion, cocaine response) and circadian sleep regulation reinforce a neural signaling\u2013behavior module.","confidence":"High","size":24,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071805","count":15},{"id":"GO:0060079","count":15},{"id":"GO:0035725","count":14},{"id":"GO:0007626","count":14},{"id":"GO:0007214","count":13}]},{"hash":"1703748331207268148","title":"Temperature- and Pain-Sensing Pathways","description":"This cluster is enriched for sensory perception of pain and cellular response to temperature stimulus, with strong hints from diet-induced thermogenesis, suggesting a core theme of thermal nociception and temperature regulation. The presence of signaling-related terms such as ERK cascade regulation and prostaglandin-responsive signaling supports a network of inflammatory and sensory signaling that links heat or pain stimuli to cellular responses. Some terms like heart development and visual perception appear less central and may reflect shared signaling pathways or pleiotropy rather than core functions of this cluster. Overall, the dominant theme ties to temperature- and pain-sensing signaling with associated metabolic and inflammatory modulation.","confidence":"High","size":24,"edges":194,"triangles":713,"max_degree":23,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":13},{"id":"GO:0002024","count":10},{"id":"GO:0071502","count":10},{"id":"GO:0007507","count":8},{"id":"GO:0007601","count":8}]},{"hash":"1060674317918528116","title":"Neural signaling and sensory processing","description":"The cluster's GO terms cluster around neuronal signaling and sensory functions: ERK/MAPK cascades and GTPase regulation indicate intracellular signaling in neurons; visual learning, sensory perception of pain, and response to morphine point to neural processing of sensory information and drug modulation; adrenergic receptor signaling and calcium channel regulation further support neuronal signaling; temperature-related responses suggest autonomic modulation. Together these terms support a coherent theme of neural signal transduction and sensory modulation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0002024","count":4},{"id":"GO:0071502","count":4}]},{"hash":"59514369103688291","title":"Angiogenesis and ECM-Cell Adhesion Regulators","description":"This cluster is dominated by GO terms for positive regulation of angiogenesis, fibroblast migration, cell-matrix adhesion, and integrin signaling, all pointing to extracellular matrix interactions and vascular remodeling. Supporting terms like TNF production and multicellular development suggest inflammatory and developmental signaling contexts, while outlier terms (pain perception, CO2 detection) may reflect broader associations. Overall, the core theme fits angiogenesis and ECM-adhesion regulation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":4},{"id":"GO:0010754","count":4},{"id":"GO:0019233","count":3},{"id":"GO:0010763","count":3},{"id":"GO:0007160","count":3}]},{"hash":"1330043590765354670","title":"Neuronal actin remodeling and neurotrophin signaling","description":"These proteins cluster around actin cytoskeleton dynamics (filopodium and microspike assembly) and Rho-regulated signaling, with supporting involvement in endocytosis and cell adhesion, plus neurotrophin/TRK receptor signaling. This mix points to a shared function in neuronal growth and signaling through actin remodeling and neurotrophin pathways, consistent with neurite outgrowth and neuronal connectivity. Some terms like heart development may reflect broader signaling roles but do not override the neuronal cytoskeletal/theme signal.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0010863","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0006897","count":2},{"id":"GO:0007507","count":2}]},{"hash":"1213249863887724430","title":"Retroviral integration and host genome interaction","description":"The GO terms focus on viral entry into host cells, establishment of proviral latency, nuclear penetration, DNA integration, RNA-templated DNA synthesis, and DNA recombination, all hallmarks of the retroviral life cycle and its interaction with the host genome. A couple of terms (e.g., heart development) seem incidental, but the dominant theme is retroviral genome integration and host manipulation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0039651","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0090502","count":2}]},{"hash":"1897040203825398744","title":"Mitotic Cell Cycle and Gene Expression","description":"The top GO terms show strong enrichment for mitosis and cell division (cell division, mitotic cell cycle) and APC-dependent catabolic processes, along with DNA-templated transcription, suggesting the proteins cluster around mitotic machinery and transcriptional regulation during division. Some additional terms (cadmium ion response, vesicle transport, neural tube closure) may reflect broader stress responses or pleiotropic roles, but the dominant theme is mitosis and regulation of gene expression. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":8},{"id":"GO:0031145","count":6},{"id":"GO:0071276","count":6},{"id":"GO:0006351","count":6},{"id":"GO:2001162","count":6}]},{"hash":"764067832221744539","title":"Lipid metabolism and inflammatory signaling","description":"The top GO terms cluster around lipid processing (lipid catabolic process, triglyceride catabolic process, lipid oxidation) and lipid-mediated signaling (platelet activating factor metabolic process) along with a note of inflammatory response regulation. While a couple terms are less directly connected (e.g., beta-ketoadipate pathway, alkaloid metabolism), the dominant theme is lipid metabolism and inflammatory signaling via lipid mediators, supporting this label.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090502","count":1},{"id":"GO:0046839","count":1},{"id":"GO:0042952","count":1},{"id":"GO:0009820","count":1},{"id":"GO:0050729","count":1}]},{"hash":"1329452035782368321","title":"Programmed cell death and innate immune signaling","description":"This cluster is enriched for apoptosis, necroptosis, and pyroptosis-related terms, plus innate immune signaling and NF-kB activation, indicating involvement in inflammatory and programmed cell death pathways. The presence of mitotic spindle assembly and ubiquitination terms suggests additional ties to cell cycle regulation and protein turnover that can intersect with death and immunity. Overall, the proteins appear to participate in cell death processes along with innate immune responses.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":11},{"id":"GO:0016567","count":9},{"id":"GO:1990001","count":8},{"id":"GO:0070269","count":8},{"id":"GO:0006915","count":8}]},{"hash":"732713943397454195","title":"Cell Death Regulation and Stress Response","description":"The GO terms cluster around regulation of programmed cell death (negative regulation of necroptotic process; apoptotic process), protein ubiquitination as a regulatory mechanism, innate immune signaling, and mitochondrial dynamics (membrane fission), pointing to a cohesive theme of cellular stress signaling and cell fate decisions. Insulin signaling and transport terms appear secondary but may reflect broader metabolic context in stress responses.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060546","count":9},{"id":"GO:0032869","count":8},{"id":"GO:1990314","count":7},{"id":"GO:0006915","count":6},{"id":"GO:0016567","count":6}]},{"hash":"1989919611228862018","title":"Ubiquitin-Dependent TNF/NF-\u03baB Signaling","description":"The cluster is enriched for ubiquitin-related catabolic processes and TNF/NF-\u03baB\u2013associated signaling, including autoubiquitination, histone ubiquitination, JNK regulation, and I\u03baB phosphorylation, suggesting a cohesive module controlling NF-\u03baB\u2013mediated inflammatory responses.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":19},{"id":"GO:0051865","count":17},{"id":"GO:0046328","count":17},{"id":"GO:0007250","count":16},{"id":"GO:0070535","count":16}]},{"hash":"799669388560290437","title":"Developmental and cellular stress responses","description":"The terms show involvement in tissue development (brain, skin, prostate gland differentiation) alongside cell cycle and DNA damage responses (cell division, mitotic spindle assembly, G1 checkpoint signaling, apoptotic DNA fragmentation) and stress cues (response to nutrient, response to hypoxia). This suggests a set of proteins linked to growth/differentiation processes plus general stress and cell-cycle regulation, rather than a single focused pathway.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007584","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0001666","count":3},{"id":"GO:0060528","count":3},{"id":"GO:0072432","count":3}]},{"hash":"777444485401859745","title":"Unknown","description":"The GO terms are scattered across metabolism (thiamine biosynthesis regulation; glycolytic fermentation to ethanol), innate immune signaling, host\u2013symbiont interactions, proviral latency, DNA replication/integration, and siRNA processing, with no single unifying function apparent. The network is empty (Edges 0, Triangles 0, Max Degree 0) and includes an obsolete term, suggesting the annotations do not reflect a coherent, connected protein family. Therefore, no clear cluster function can be inferred from these terms.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:2001172","count":2},{"id":"GO:0009870","count":2},{"id":"GO:0046718","count":1}]},{"hash":"2067985788613518997","title":"Eye and Neural Development","description":"The GO terms cluster around ocular and nervous system development, with lens fiber cell differentiation, eye development, axon guidance, neural tube closure, and myelination. This suggests the proteins are involved in eye and CNS formation, with wound healing as a related developmental/regenerative process; a few terms touch skeletal or gonadal development but the dominant theme is neural/eye development.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070306","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0042552","count":3},{"id":"GO:0035023","count":3}]},{"hash":"1459628835957548117","title":"Unknown","description":"The top terms span immune signaling, nutrient and growth signaling, metabolism, development (lens), cell division, microtubule movement, and cell junctions, with no single shared function evident among the proteins. This suggests a heterogeneous set without a cohesive common theme, justifying an Unknown label.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031663","count":2},{"id":"GO:0007584","count":2},{"id":"GO:0070306","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0048009","count":2}]},{"hash":"751298621790488006","title":"Cytoskeletal Dynamics and Integrin Adhesion","description":"The cluster coalesces around cytoskeleton remodeling and adhesion signaling: stress fiber assembly, GTPase activation, and integrin regulation, with related roles in cell division and immune signaling; some outliers reflect broader developmental processes or noisy terms.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051496","count":3},{"id":"GO:0090630","count":3},{"id":"GO:0045792","count":3},{"id":"GO:1901998","count":3},{"id":"GO:0001893","count":3}]},{"hash":"638304875595007088","title":"GPCR-Driven Inflammatory and Vascular Signaling","description":"This cluster is dominated by GO terms for GPCR signaling (adenylate cyclase-activating and MAPK-activating adrenergic pathways) and immune/vascular processes (LPS response, TNF regulation, neutrophil chemotaxis, blood pressure regulation, coagulation). The combination suggests a set of proteins involved in GPCR-mediated communication that coordinates inflammatory responses and vascular function, with electron transport chain terms appearing as less cohesive background. Overall, a GPCR-centric inflammatory-vascular signaling theme best captures the shared functions.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":11},{"id":"GO:0010579","count":11},{"id":"GO:0045777","count":11},{"id":"GO:0035025","count":11},{"id":"GO:0032720","count":7}]},{"hash":"1143147659036778162","title":"Transcriptional Regulation and Development","description":"Most terms cluster around transcription control (DNA-templated transcription, transcriptional regulation by RNA Pol II, and regulation of transcription), with several development-related terms (brain development, skeletal muscle differentiation) and signaling/stress responses (TGF-beta stimulus, DNA damage response). A minority of terms touch on immune defense, but the dominant theme is transcription regulation linked to development. Confidence: High","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0071560","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0035914","count":3}]},{"hash":"1248855244514823144","title":"Diverse Substrate Transmembrane Transporters","description":"The proteins are labeled with multiple GO terms for transmembrane transport across a wide range of substrates (xenobiotics, nitrate, sugars like galactose/arabinose, ions such as Na+ and K+, vitamins). This suggests a set of membrane transport proteins with broad substrate specificity rather than a single-substrate pathway. The absence of interaction edges does not conflict with a transport-focused cluster, given the shared function rather than direct protein\u2013protein interactions.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":4},{"id":"GO:0015706","count":4},{"id":"GO:0042891","count":4},{"id":"GO:0015757","count":4},{"id":"GO:0071805","count":4}]},{"hash":"74345383731312713","title":"Mitochondrial Metabolite Transport and Fission","description":"The terms point to transport of various metabolites and ions into mitochondria (thiamine pyrophosphate, manganese, phosphate, alpha-ketoglutarate, pyrimidine nucleotides) as well as mitochondrial membrane fission, suggesting a cluster of proteins involved in mitochondrial transport processes and mitochondrial dynamics. The combination of transporter activity and mitochondrial fission-related terms supports a cohesive theme around mitochondrial metabolite import and membrane remodeling.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030974","count":3},{"id":"GO:0006828","count":3},{"id":"GO:0090149","count":3},{"id":"GO:0034198","count":3},{"id":"GO:0000303","count":3}]},{"hash":"474711874332701635","title":"Viral Entry, Integration, and Host Manipulation","description":"Top GO terms cluster around viral entry into host cells, nuclear penetration, proviral latency, DNA integration and recombination, suppression of host gene expression, host apoptosis activation, and viral release. This set of processes reflects a cohesive theme of virus-host interaction and propagation, including latency and genome integration.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":3},{"id":"GO:0075732","count":3},{"id":"GO:0075713","count":2},{"id":"GO:0039651","count":2},{"id":"GO:0015074","count":2}]},{"hash":"1079586916107968529","title":"Spliceosome-Mediated mRNA Processing and Export","description":"The cluster is dominated by GO terms for spliceosome-mediated splicing, splice-site recognition, and regulation of poly(A) tail processing, plus mRNA export from the nucleus, indicating a cohesive role in nuclear mRNA maturation and transport. Some terms about miRNA silencing or viral translation are peripheral but do not obscure the main theme.","confidence":"High","size":23,"edges":54,"triangles":22,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":5},{"id":"GO:0075525","count":4},{"id":"GO:0006376","count":4},{"id":"GO:0060211","count":4},{"id":"GO:0045292","count":4}]},{"hash":"1934146091142869327","title":"Spliceosome-Mediated RNA Splicing and Export","description":"The cluster is dominated by GO terms for mRNA splicing via the spliceosome, including both positive and negative regulation of splicing, and mRNA export from the nucleus. While there are a few outliers (transcription termination, embryonic morphogenesis), the strongest signal ties to RNA processing at the level of splicing and RNA export, suggesting a cohesive spliceosome-associated module.","confidence":"High","size":23,"edges":223,"triangles":1278,"max_degree":22,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":5},{"id":"GO:0006378","count":5},{"id":"GO:0031047","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0006369","count":5}]},{"hash":"2018696992989055945","title":"Inflammation and Proteolysis Signaling","description":"The top GO terms point to immune/inflammatory responses (response to lipopolysaccharide, interleukin-1 beta production) along with proteolysis-related processes (proteolysis, plasminogen activation) and remodeling signals (Wnt pathway, smooth muscle migration), suggesting a theme around inflammation coupled with tissue remodeling. Despite no observed network edges, the terms cluster around defense and proteolytic remodeling functions.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":5},{"id":"GO:0006508","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0055114","count":3}]},{"hash":"848024488722989973","title":"Transmembrane transport of ions and metabolites","description":"The top GO terms show transmembrane transport for multiple ions (sodium, potassium), nitrates, xenobiotics, sugars (galactose, arabinose), vitamins, and related processes, suggesting a cluster of membrane transporter proteins handling uptake and export of diverse substrates. While a few terms are metabolic, the prevailing signal is membrane transport, supporting a concise label centered on ion and metabolite movement across membranes.","confidence":"High","size":23,"edges":18,"triangles":0,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035725","count":6},{"id":"GO:0071805","count":6},{"id":"GO:0006855","count":5},{"id":"GO:0015706","count":5},{"id":"GO:0042891","count":5}]},{"hash":"455428758744549403","title":"Ribosome Biogenesis and Cell Division","description":"The cluster is dominated by GO terms for ribosome biogenesis and export, nuclear envelope organization, ER-to-Golgi vesicle transport, and mitotic processes such as cleavage furrow ingression and cell division, pointing to a cohesive theme around ribosome biology coupled with mitosis and intracellular trafficking; neural development terms are present but likely incidental. ","confidence":"Medium","size":23,"edges":8,"triangles":0,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0097284","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0007420","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0006888","count":5}]},{"hash":"1497208062465605532","title":"Developmental transcriptional regulation","description":"The cluster is dominated by GO terms related to transcription (DNA-templated transcription; negative regulation of transcription by RNA polymerase II) and multicellular development (brain development, growth, gonad development, vitellogenesis). While there are additional signals for transport and immune response, the common thread appears to be regulation of gene expression during development in a multicellular context. This supports labeling the cluster as developmental transcriptional regulation.","confidence":"Medium","size":23,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0007338","count":2}]},{"hash":"1613933100511892181","title":"Circadian Light Signaling","description":"The top terms cluster around light-responsive regulation of circadian rhythms, including far-red/light signaling and phototransduction, as well as transcriptional regulation, suggesting these proteins participate in light-driven circadian control. A few outlier terms appear, but the dominant theme is circadian/light signaling.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042753","count":4},{"id":"GO:0010018","count":4},{"id":"GO:0009585","count":4},{"id":"GO:0006355","count":4},{"id":"GO:0006313","count":3}]},{"hash":"1291646958173041991","title":"Embryonic Development and Morphogenesis Regulators","description":"This cluster centers on developmental and organogenesis themes across multiple tissues (placenta, pancreas, cartilage, midbrain) and processes (left-right patterning, EMT, fertilization) with a recurring note of transcriptional regulation, suggesting proteins that broadly regulate development rather than a single pathway.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0035270","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0003323","count":3}]},{"hash":"1071278476953517817","title":"Epidermal development and wound healing","description":"Top terms center on epithelial morphogenesis, keratinocyte development, wound healing, and inflammatory response, indicating a skin/epidermal development and injury-repair theme. While other terms (miRNA metabolic process, cholesterol homeostasis, potassium ion transport) are more general, they can reflect regulatory and membrane aspects of epidermal cells, supporting a cohesive albeit broad epithelial context.","confidence":"Medium","size":23,"edges":25,"triangles":3,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0010586","count":3},{"id":"GO:0071805","count":2},{"id":"GO:0042632","count":2},{"id":"GO:0006954","count":2},{"id":"GO:0055114","count":2}]},{"hash":"1928522752348512017","title":"Neural/glial apoptosis and stress response","description":"The top GO terms cluster around neural cell apoptosis (neuron apoptotic process, glial cell apoptotic process, extrinsic apoptotic signaling, execution phase of apoptosis) with supporting inflammatory signaling (NF-kappaB) and stress responses (hypoxia, wound healing, mechanical stimulus). This suggests a coherent theme of neural cell stress triggering apoptosis and associated signaling, rather than disparate unrelated processes. Confidence in this label is High.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042060","count":2},{"id":"GO:0001666","count":2},{"id":"GO:0051402","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0097192","count":2}]},{"hash":"910763657688302148","title":"RNA processing and translation machinery","description":"This cluster is dominated by GO terms tied to protein synthesis and RNA handling\u2014translation, mitochondrial translation, ribosome dynamics, translational elongation, and selenocysteine incorporation\u2014along with spliceosome-related RNA processing. A few peripheral terms (glial proliferation, hematopoietic differentiation) suggest broader expression contexts but do not override the central theme of translation and RNA processing.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0032543","count":2},{"id":"GO:0007269","count":2},{"id":"GO:1990145","count":1},{"id":"GO:0032790","count":1}]},{"hash":"679643773952634938","title":"Viral genome integration and latency","description":"This cluster is centered on genome integration processes, with strong signals for DNA recombination, replication, and integration, including viral entry into the host nucleus and proviral latency establishment. The presence of RNA-templated DNA synthesis and DNA transposition terms suggests retroviral or transposon-like genome integration, and there are hints of host RNAi pathway interactions (negative regulation of siRNA processing). Collectively, the functions point to viral genome integration and latency mechanisms.","confidence":"High","size":23,"edges":248,"triangles":1672,"max_degree":22,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":18},{"id":"GO:0006260","count":15},{"id":"GO:0015074","count":15},{"id":"GO:0075732","count":15},{"id":"GO:0075713","count":15}]},{"hash":"51831223854375985","title":"Nucleotide Metabolism and Genome Maintenance","description":"The top GO terms cluster around pyrimidine nucleotide biosynthesis and sanitization (dUTP/dUMP/dITP pathways) and related nucleotide metabolism, with additional DNA-related processes such as topoisomerase regulation, DNA repair via nonhomologous end joining, and DNA integration, suggesting a combined theme of nucleotide pool management and genome maintenance.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006229","count":3},{"id":"GO:0046081","count":3},{"id":"GO:0009220","count":3},{"id":"GO:0035863","count":3},{"id":"GO:0006226","count":3}]},{"hash":"475787695218763810","title":"Spliceosome-mediated mRNA processing","description":"The top GO terms point to pre-mRNA splicing via the spliceosome, including splice-site recognition, regulation of alternative splicing, and mRNA export, with supporting signals from mRNA tail regulation and processing; together these define a cohesive RNA processing cluster centered on splicing. A few terms touch on RNA silencing or translation, but they do not override the core splicing signal.","confidence":"High","size":23,"edges":2,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":6},{"id":"GO:0075525","count":5},{"id":"GO:0006376","count":5},{"id":"GO:0060211","count":5},{"id":"GO:0045292","count":5}]},{"hash":"733684791380406469","title":"Developmental and apoptotic signaling","description":"The cluster includes neural development terms (anterior/posterior axon guidance, pyramidal neuron differentiation), organ development terms (salivary gland boundary specification, kidney development) and strong apoptotic/immune terms (pyroptotic inflammatory response, TRAIL-activated apoptotic signaling, apoptotic process), suggesting proteins that participate in development but also in programmed cell death and innate immune pathways. Confidence: Medium","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033564","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0021859","count":4},{"id":"GO:0007432","count":4},{"id":"GO:0001822","count":3}]},{"hash":"1708857763946910444","title":"DNA transposition and recombination","description":"Rooted in the two top GO terms, DNA transposition and DNA recombination are the strongest signals in this cluster (6 annotations each), suggesting proteins involved in genome mobility and rearrangement. While other terms ( xenobiotic response, redox, mRNA stability, etc.) appear, they are less represented and may reflect broader or multi-function annotations. The name captures the dominant theme without overgeneralizing.","confidence":"Medium","size":23,"edges":60,"triangles":44,"max_degree":16,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006313","count":6},{"id":"GO:0006310","count":6},{"id":"GO:0042493","count":3},{"id":"GO:0045454","count":3},{"id":"GO:1900087","count":3}]},{"hash":"297626377542425831","title":"DNA Repair and Chromatin Regulation","description":"The top GO terms cluster around DNA processing, including DNA integration, recombination, topoisomerase activity, and histone modification (H3-K36 dimethylation), which together suggest involvement in DNA repair and chromatin regulation. Some metabolic terms appear but are likely less central to the core function of this cluster. Overall, the proteins appear to participate in DNA metabolism and chromatin state maintenance.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:2001172","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0097676","count":1}]},{"hash":"422028503833497166","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning plant development (root meristem growth, auxin transport, cytokinin signaling), animal development (pharyngeal system development), immune signaling (negative regulation of T cell activation-induced cell death, positive regulation of TNF production), and general cell biology (telomerase holoenzyme assembly, pericentriolar material localization). With 0 edges and no cohesive theme, no single function ties the proteins together, so Unknown.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060037","count":2},{"id":"GO:0070236","count":2},{"id":"GO:0032760","count":2},{"id":"GO:2000012","count":1},{"id":"GO:1905323","count":1}]},{"hash":"119098906563602366","title":"Adrenergic GPCR Signaling and Thermogenesis","description":"GO terms cluster around adrenergic GPCR signaling with downstream MAPK activation and physiological outputs such as blood pressure regulation, thermogenesis, temperature response, locomotory behavior, pain perception, and morphine response. An electron transport chain term is present but seems peripheral to the core signaling theme. Overall, the proteins appear to function chiefly in sympathetic GPCR signaling and thermogenic/neurophysiological responses.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":9},{"id":"GO:0010579","count":9},{"id":"GO:0045777","count":9},{"id":"GO:0035025","count":9},{"id":"GO:0007626","count":6}]},{"hash":"91563625028616796","title":"Unknown","description":"The GO terms span multiple organ development themes (hippocampus, heart, endocrine system) alongside cellular assembly processes (lamellipodium, spindle) and chromatin-related regulation, plus an adaptive immune response term. With no clear, cohesive functional theme and no network edges linking proteins, there isn\u2019t a single interpretable label that accurately represents the cluster.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021766","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0002250","count":2}]},{"hash":"411523455231288662","title":"Ion and Sugar Transmembrane Transporters","description":"The top GO terms are largely about transmembrane transport of various substrates (nitrate, galactose, xenobiotics, potassium, sodium, etc.), indicating a cohesive group of membrane transporter proteins. A few terms about development and inflammatory response appear but are less central to the cluster\u2019s main function. Thus, the core theme is membrane transport for ions and sugars, with some tissue-development context.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060658","count":2},{"id":"GO:0060427","count":2},{"id":"GO:0006954","count":2},{"id":"GO:0072224","count":2},{"id":"GO:0006855","count":2}]},{"hash":"1587947002965380705","title":"Lipid Metabolism and Sterol Biosynthesis","description":"The GO terms are dominated by lipid-related pathways (fatty acid oxidation, carnitine metabolism, cholesterol and steroid biosynthesis) with a few related regulatory processes, pointing to a metabolic cluster centered on lipid handling and steroid metabolism.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009437","count":1},{"id":"GO:0070814","count":1},{"id":"GO:0019395","count":1},{"id":"GO:1901206","count":1},{"id":"GO:0090031","count":1}]},{"hash":"1379023386668671188","title":"Cell Division and Growth with Vesicle Trafficking","description":"The proteins cluster around mitotic processes (mitotic spindle assembly, cell division, mitotic cell cycle) and vesicle trafficking (COPII vesicle budding, retrograde Golgi-to-ER transport), with supporting roles in ribosome biogenesis and transcription. The inclusion of brain development and multicellular organism growth suggests a broader developmental/proliferative program, tying cell division to growth and protein synthesis.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0006890","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1852406965556893440","title":"Unknown","description":"The terms cover a broad mix of cellular processes (proteasome assembly; mitochondrial translation and cytochrome c release; growth factor signaling; developmental differentiation in brain, muscle, and plants; plasminogen activation; p38 MAPK regulation). With no strong, shared theme across proteins and no edges linking them, there isn't a coherent cluster-wide function to name more specifically.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0080129","count":1},{"id":"GO:0021930","count":1},{"id":"GO:0010082","count":1},{"id":"GO:0070131","count":1},{"id":"GO:0031639","count":1}]},{"hash":"1016060361573763189","title":"Unknown","description":"This cluster's top GO terms span diverse and unrelated processes (gonad and retina development; mushroom body development; translation initiation/reinitiation; ubiquitin ligase regulation; SREBP signaling; viral mRNA export; mitotic cell cycle; protein homooligomerization). There is no single unifying function or pathway and the cluster has no edges, making it unclear what common function would bind these proteins. Therefore the appropriate label is Unknown with no confident functional theme.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":2},{"id":"GO:1904668","count":2},{"id":"GO:0032933","count":2},{"id":"GO:0046784","count":2},{"id":"GO:0060041","count":2}]},{"hash":"287806569649485184","title":"Innate Immune Activation and Inflammation","description":"Most frequent GO terms point to innate immune processes: innate immune response, defense against virus, TLR4 signaling, muramyl dipeptide response, and IL-1\u03b2 production. While there are a couple of metabolic/regulatory terms present, the immune-related terms dominate, supporting a label centered on innate immune activation and inflammation.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:2001172","count":2},{"id":"GO:0046827","count":2},{"id":"GO:0046580","count":2}]},{"hash":"2244596237291884650","title":"Angiogenesis Regulation and Extracellular Matrix Remodeling","description":"The cluster is enriched for vascular development terms (angiogenesis, sprouting angiogenesis, endothelial cell chemotaxis, cell migration) and extracellular matrix processes (ECM organization/secretion, integrin-mediated adhesion). The presence of both positive and negative regulation of angiogenesis points to a coordinated program of vascular remodeling and ECM interactions, making this a cohesive, representative label.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0070278","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0014909","count":2}]},{"hash":"1940217951412871876","title":"Unknown","description":"The top GO terms span apoptotic process, innate and adaptive immune responses, cytoskeletal and microtubule-associated processes, synaptic transmission, ribosome biogenesis, histone ubiquitination, cyclic nucleotide biosynthesis, and meiotic DNA repair. This broad mix does not point to a single coherent biological function or pathway for the cluster, suggesting it comprises proteins involved in multiple distinct cellular processes rather than a single module.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0035023","count":2},{"id":"GO:0035249","count":2},{"id":"GO:0042254","count":2}]},{"hash":"1450387209794298907","title":"Retroviral Entry and Integration with Latency","description":"The terms point to the core retroviral lifecycle: entry into the host cell and nucleus, reverse transcription (RNA-templated DNA synthesis), DNA integration into the host genome, and establishment of proviral latency, along with DNA replication and recombination. This combination strongly suggests a cluster of proteins involved in retroviral genome integration and latency. Some terms about host responses (e.g., siRNA processing) reflect antiviral interactions but do not override the central retroviral theme.","confidence":"High","size":22,"edges":226,"triangles":1446,"max_degree":21,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":16},{"id":"GO:0046718","count":14},{"id":"GO:0075713","count":14},{"id":"GO:0006260","count":14},{"id":"GO:0039651","count":14}]},{"hash":"1841163512457416855","title":"Spliceosome and RNA Processing","description":"Most terms point to nuclear RNA maturation: mRNA cis splicing via spliceosome, spliceosomal snRNP assembly, mRNA processing, tRNA processing, and deadenylation-dependent decapping, plus transcription termination and nuclear import. The presence of histone mRNA metabolism and ABA/water deprivation responses suggests plant-specific regulation but does not contradict the core RNA-processing theme.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":13},{"id":"GO:0006369","count":8},{"id":"GO:0009414","count":8},{"id":"GO:0000387","count":8},{"id":"GO:0008033","count":8}]},{"hash":"1509266652900786694","title":"Mitochondrial Translation and Metabolic Processes","description":"Top GO terms point to core translation activity, especially mitochondrial translation, with accompanying energy metabolism processes (TCA cycle, amino acid responses, arginine biosynthesis) and nutrient stress responses. While there are also RNA processing and DNA repair terms present (spliceosome dynamics, nucleotide-excision repair), the strongest and most recurrent theme is protein synthesis within mitochondria coupled to metabolic pathways, justifying a mitochondria-centric label with metabolism as a broader context.","confidence":"Medium","size":22,"edges":86,"triangles":269,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0032543","count":3},{"id":"GO:0006289","count":2},{"id":"GO:1990416","count":2},{"id":"GO:0000388","count":2}]},{"hash":"1922074412576809172","title":"Ubiquitin-Dependent Degradation and NF-\u03baB Signaling","description":"The cluster is dominated by ubiquitin-related processes\u2014protein ubiquitination, autoubiquitination, ERAD\u2014and links to NF-\u03baB signaling via I\u03baB phosphorylation and IKK activity, with related histone ubiquitination changes; cadmium response and V(D)J recombination terms suggest broader regulatory roles in immune and chromatin regulation. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0051865","count":5},{"id":"GO:0071276","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0007250","count":4}]},{"hash":"608127062802103494","title":"Actin dynamics and mechanotransduction","description":"The strongest signals relate to actin filament bundle assembly and cellular response to mechanical stimulus, with supportive ties to cell migration and GTPase-regulated signaling, implying a core theme of cytoskeletal remodeling and mechanical signaling; other terms are ancillary but do not override this coherence.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:2001172","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0042518","count":2}]},{"hash":"1061911141657442180","title":"DNA replication and cell cycle regulation","description":"The top GO terms cluster around regulation of nuclear DNA replication and the cell cycle, including replication fork protection/arrest, DNA replication checkpoint signaling, and mitotic sister chromatid cohesion, with some links to chromatin modification and transcription initiation regulation, all pointing to coordinated control of replication and mitosis.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033262","count":1},{"id":"GO:0048478","count":1},{"id":"GO:0043111","count":1},{"id":"GO:0034087","count":1},{"id":"GO:0000076","count":1}]},{"hash":"1984131323126725625","title":"Cell Cycle and Division Machinery","description":"The cluster is dominated by GO terms for cell division, DNA replication, spindle assembly, septin ring formation, and mitotic exit, with additional development-related terms (embryonic cell shape, differentiation) and a vesicle-transport term (ER to Golgi) that can relate to membrane remodeling during cytokinesis. This suggests proteins involved in cell-cycle progression and division, with some developmental context. Therefore, a concise label is \u201cCell Cycle and Division Machinery.\u201d","confidence":"Medium","size":22,"edges":11,"triangles":1,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0006888","count":4},{"id":"GO:0030420","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0046677","count":3}]},{"hash":"1686061799885568975","title":"Bacterial lipid biosynthesis and fatty acid metabolism","description":"The top GO terms cluster around fatty acid biosynthesis and various lipid metabolic processes (long-, medium-, very long-chain fatty acids, fatty-acyl-CoA, and lipoteichoic acid biosynthesis), with menaquinone biosynthesis also tying into bacterial lipid/isoprenoid pathways. A few terms like seed coat development and amino acid activation for nonribosomal peptide biosynthesis appear as outliers, but the dominant theme points to lipid metabolism in bacteria.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043041","count":4},{"id":"GO:0006633","count":3},{"id":"GO:0009234","count":3},{"id":"GO:0000038","count":3},{"id":"GO:1902987","count":3}]},{"hash":"2076695022000110956","title":"Deubiquitination and ubiquitination regulators","description":"The top GO terms are dominated by protein ubiquitination and various linkage-specific deubiquitination processes (K29, K33, K63), indicating the proteins cluster around ubiquitin turnover and regulation. Additional terms for negative regulation of transcription, Wnt signaling, and developmental processes like endocardial cushion morphogenesis fit the idea that ubiquitin modification state modulates signaling and gene expression during development.","confidence":"High","size":22,"edges":56,"triangles":38,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0035523","count":2},{"id":"GO:0071947","count":2},{"id":"GO:1902042","count":2},{"id":"GO:1990168","count":2}]},{"hash":"1768695513278639680","title":"Retroviral Replication and Proviral Latency","description":"This cluster centers on GO terms tied to the retroviral life cycle: DNA recombination, DNA replication, DNA integration, RNA-templated DNA biosynthesis, and establishment of integrated proviral latency, along with viral entry into host cells and nuclear penetration. The presence of host RNAi suppression and apoptosis modulation terms further supports virus\u2013host interactions typical of retroviruses. Overall, the terms coalesce around retroviral replication and provirus latency.","confidence":"High","size":22,"edges":33,"triangles":7,"max_degree":10,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":10},{"id":"GO:0046718","count":6},{"id":"GO:0075713","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0039651","count":6}]},{"hash":"11897606024356970","title":"Axon guidance in neural development","description":"Dominant terms center on axon extension and guidance, synapse assembly, and overall nervous system development, including sympathetic and trigeminal neuron projections. This points to a cohesive function: neural development with axon pathfinding and fasciculation. An outlier term about bone ossification is present but does not redefine the cluster's theme.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0048846","count":8},{"id":"GO:0014068","count":8},{"id":"GO:0051965","count":8},{"id":"GO:0007399","count":7},{"id":"GO:0043931","count":7}]},{"hash":"529058679048411728","title":"JNK and NF-\u03baB inflammatory signaling","description":"This cluster\u2019s GO terms center on regulation of the JNK cascade, TNF-mediated signaling, NF-\u03baB activation, and apoptotic regulation, all key components of stress- and inflammation-related signaling networks. Additional terms related to ubiquitination and chromatin dynamics support how these pathways are modulated at the level of protein turnover and gene expression. Together, they suggest a cohesive theme of regulated inflammatory signaling and cell fate decisions.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":3},{"id":"GO:1903762","count":3},{"id":"GO:0090073","count":3},{"id":"GO:0009048","count":3},{"id":"GO:1903265","count":3}]},{"hash":"1361175098475198396","title":"APC/C-Driven Mitotic Regulation","description":"The cluster is strongly associated with mitosis and cell-cycle control, highlighted by terms such as cell division, mitotic cell cycle, and anaphase-promoting complex\u2013dependent catabolic processes, along with K11-linked ubiquitination. This suggests proteins in the cluster are co-regulated by ubiquitin-mediated proteolysis via the APC/C to drive mitotic progression. Some transcription and development terms may reflect broader proliferative or developmental programs, but the central signal is APC/C-driven mitotic regulation.","confidence":"High","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0007584","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0070979","count":3}]},{"hash":"426423208481080130","title":"Wnt-Hippo signaling and differentiation","description":"This cluster centers on core signaling pathways that govern cell fate, growth, and tissue differentiation, highlighted by dominant terms for canonical Wnt signaling and Hippo signaling, plus related processes like angiogenesis, apoptosis, and various differentiation programs (keratinocytes, mast cells); CAMKK-AMPK signaling links metabolism to these growth signals, supporting a cohesive theme of signaling-regulated development.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":20},{"id":"GO:0006915","count":20},{"id":"GO:0030216","count":20},{"id":"GO:0060044","count":20},{"id":"GO:0006813","count":20}]},{"hash":"2147478047371246780","title":"Embryonic Development and Stress Signaling","description":"The top GO terms emphasize developmental processes (neural tube closure, forebrain and face development, skeletal development) alongside stress and transcriptional regulation (ER-stress\u2013induced apoptosis, cadmium response, DNA-templated transcription). This suggests a cohesive theme around embryonic development with integrated stress signaling and gene regulation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070059","count":19},{"id":"GO:0001843","count":19},{"id":"GO:0071276","count":19},{"id":"GO:0001501","count":19},{"id":"GO:0006351","count":19}]},{"hash":"675642482601636555","title":"DNA replication and cell cycle","description":"The top GO terms cluster around DNA replication, centrosome duplication, and meiotic cell cycle, pointing to roles in genome duplication and cell division. Other terms (DNA integration, neuron development, B cell signaling, metabolism) appear less central or potentially noisy annotations. Overall, the core theme is DNA replication and cell-cycle processes.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":3},{"id":"GO:0090180","count":3},{"id":"GO:2001172","count":3},{"id":"GO:0048666","count":2},{"id":"GO:0051491","count":2}]},{"hash":"465415867591663997","title":"DNA recombination and genome integration","description":"Most represented terms are DNA recombination and DNA integration, both with 7 annotations, pointing to a nucleic-acid processing/genome rearrangement theme. Other terms such as response to xenobiotic stimulus, redox homeostasis, cell cycle regulation and skin/kidney-related processes appear less consistently, suggesting the cluster may include proteins with diverse roles or reflect annotation noise, but the core signal remains DNA processing.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":7},{"id":"GO:0015074","count":7},{"id":"GO:0090502","count":6},{"id":"GO:0042493","count":4},{"id":"GO:0045454","count":4}]},{"hash":"422062391409368410","title":"Embryonic placental and tissue morphogenesis","description":"The cluster\u2019s GO terms cluster around embryonic development, especially placental/trophoblast differentiation, endocrine system development, left-right patterning, and various organ morphogenesis (pancreatic, cartilage, heart EMT). This points to a cohesive theme of early development and placental formation rather than a single non-overlapping function. Confidence is based on multiple top terms directly reflecting embryogenesis and placental processes.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":6},{"id":"GO:0035270","count":6},{"id":"GO:0060972","count":6},{"id":"GO:0003323","count":6},{"id":"GO:0060536","count":6}]},{"hash":"358782272188949301","title":"Ubiquitin-Dependent NF-\u03baB Signaling and T Cell Regulation","description":"The terms emphasize ubiquitin-mediated protein turnover and signaling (K63-linked ubiquitination, I\u03baB phosphorylation, NF-\u03baB activation) driving immune responses, including regulation of T cell proliferation/differentiation and chemokine production, with links to LPS signaling and antiviral transcription, and contextual spleen development.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":18},{"id":"GO:0032897","count":14},{"id":"GO:1903886","count":14},{"id":"GO:0031664","count":14},{"id":"GO:0046007","count":14}]},{"hash":"1806382479205773801","title":"Actin Cytoskeleton Remodeling and Migration","description":"The cluster is enriched for cytoskeletal assembly processes, including filopodium/microspike/stress fiber assembly and Rho GTPase signaling. Activation of GTPase activity and neutrophil chemotaxis indicate coordinated actin remodeling driving cell movement and adhesion-dependent spreading, consistent with cytoskeletal dynamics in migrating immune cells. A mitotic spindle assembly term appears but the dominant pattern is actin-driven motility.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":3},{"id":"GO:0030035","count":3},{"id":"GO:0060268","count":2},{"id":"GO:0030593","count":2},{"id":"GO:0007266","count":2}]},{"hash":"883003092335809247","title":"Immune Cytokine Signaling and Vascular Development","description":"The terms point to immune signaling (positive regulation of cytokine production, IL-2 production; negative regulation of T cell proliferation) and to vascular development (circulatory system development, vasculogenesis) with a note of muscle differentiation, suggesting a set of proteins coordinating immune responses with vascular and muscle tissue development. Some ubiquitin/protein turnover terms are present but seem ancillary to the main theme.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010039","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0050715","count":1},{"id":"GO:0042130","count":1},{"id":"GO:0072359","count":1}]},{"hash":"1573697616700924003","title":"Brain lipid metabolism and endocannabinoid signaling","description":"The top GO terms point to glycerolipid and phospholipid catabolism and remodeling (triglyceride, monoacylglycerol, acylglycerol remodeling, phosphatidylserine catabolic) and to regulation of endocannabinoid signaling, with a brain development term suggesting a neural context. Together, these indicate a cohesive theme around lipid metabolism and endocannabinoid pathways in the brain, with other terms representing broader metabolic roles that are less defining for the cluster.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0019433","count":3},{"id":"GO:0052651","count":3},{"id":"GO:2000124","count":3},{"id":"GO:0006660","count":3}]},{"hash":"1467665213322717924","title":"Unknown","description":"The top GO terms are diverse and span bacterial cell envelope biosynthesis (lipid A, LPS), wall/cell surface processes (spore wall assembly, chitin-related terms), metabolism (xylan catabolism, allantoin biosynthesis, arabinopyranosyl undecaprenyl phosphate biosynthetic process), and even an animal-specific term (sensory perception of sound), with no clear, single functional theme tying the cluster together. The lack of cohesive biology and the presence of an outlier term suggest no robust, representative function for this cluster.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045493","count":5},{"id":"GO:0042244","count":3},{"id":"GO:0042710","count":3},{"id":"GO:0034232","count":3},{"id":"GO:0009245","count":3}]},{"hash":"1642376457412200623","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":86,"triangles":225,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":11},{"id":"GO:0048026","count":11},{"id":"GO:0010610","count":9},{"id":"GO:0000398","count":8},{"id":"GO:0071031","count":7}]},{"hash":"2140846251229083494","title":"GTPase-driven signaling and actin remodeling","description":"The cluster\u2019s top terms converge on regulation of small GTPases (positive/negative regulation of GTPase activity, small GTPase-mediated signal transduction) and actin cytoskeleton dynamics (actin filament polymerization, podosome assembly), with connections to receptor-mediated pathways such as EGFR, ephrin, and Wnt signaling. This suggests a coherent theme of GTPase-regulated signaling driving cytoskeletal remodeling and cell signaling cross-talk.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0090263","count":5},{"id":"GO:0007173","count":5},{"id":"GO:0007264","count":5},{"id":"GO:0031532","count":5}]},{"hash":"822629275028462032","title":"Developmental Signaling and Differentiation Regulators","description":"The cluster is enriched for signaling pathways that govern cell fate decisions (Wnt, Hippo, abscisic acid-activated signaling) and downstream differentiation and survival processes (myoblast fusion, keratinocyte differentiation, apoptotic regulation, and synaptic activity), suggesting these proteins collectively regulate development and tissue differentiation across contexts.","confidence":"Medium","size":21,"edges":70,"triangles":94,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":16},{"id":"GO:0006915","count":16},{"id":"GO:0060044","count":16},{"id":"GO:0030216","count":16},{"id":"GO:0035329","count":16}]},{"hash":"1651072994984783511","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0001889","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0009718","count":2},{"id":"GO:0019673","count":2}]},{"hash":"1989885669012028912","title":"Vesicle trafficking and cell growth","description":"The cluster's top GO terms emphasize secretory and vesicle transport (COPII-coated vesicle budding; regulation of synaptic vesicle exocytosis) alongside developmental and growth processes (brain development; multicellular organism growth) and cell cycle events (mitotic spindle assembly; cell division; cell population proliferation). This suggests a cohesive theme around vesicle transport machinery linked to growth and proliferation, with some development-related signals. ","confidence":"Medium","size":21,"edges":105,"triangles":184,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010796","count":8},{"id":"GO:0007420","count":8},{"id":"GO:0031384","count":8},{"id":"GO:2000300","count":7},{"id":"GO:0035264","count":5}]},{"hash":"665517634283578540","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":15,"triangles":2,"max_degree":9,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":5},{"id":"GO:0006888","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0000480","count":4},{"id":"GO:0000447","count":4}]},{"hash":"539378276117655593","title":"Unknown","description":"The top GO terms span diverse processes (ubiquitin deubiquitination, mRNA processing and transcription regulation, lipid A biosynthesis, myelination, and necroptosis signaling), with no clear single function unifying all proteins. The absence of edges and the varied annotations suggest a heterogeneous collection rather than a cohesive pathway, so there is no confident single-label function to assign.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0022011","count":4},{"id":"GO:0006355","count":4},{"id":"GO:0009245","count":4},{"id":"GO:0010995","count":3},{"id":"GO:1990108","count":3}]},{"hash":"893011124889176278","title":"Calcium signaling and stress-response cluster","description":"The top GO terms center on calcium release into the cytosol and related signaling (calcineurin\u2013NFAT), ER-stress\u2013driven translation initiation, and stress responses (heat, hormone signaling), with additional terms touching development and cell cycle. This points to a cohesive theme of calcium-mediated signaling and stress-regulated processes, with some developmental and proliferative connections. Confidence: Medium","confidence":"","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0051209","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0051533","count":3}]},{"hash":"390650532833073817","title":"Cytokine-Mediated Immune Signaling","description":"The cluster is dominated by immune-related processes: production and regulation of chemokines (e.g., CXCL2), IL-23, and type I interferons, along with immunoglobulin-mediated responses and signaling pathways like NF-\u03baB and JNK. This points to cytokine-driven innate immune activation, with a few developmental terms likely incidental.","confidence":"Medium","size":21,"edges":3,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051092","count":5},{"id":"GO:0021766","count":4},{"id":"GO:2000341","count":4},{"id":"GO:0032747","count":4},{"id":"GO:0016064","count":4}]},{"hash":"1513342438482165092","title":"Golgi trafficking and mitosis proteins","description":"This cluster shows a strong\u4e3b\u9898 around Golgi-associated transport and cell division processes: GO terms for Golgi\u2013plasma membrane transport, COPII vesicle budding, endocytic recycling, and protein localization to the Golgi all appear with counts, indicating a cohesive role in vesicle trafficking at the Golgi. Simultaneously, terms for mitotic spindle assembly, cell division, and mitotic cell cycle suggest involvement in the cellular machinery that drives division. The presence of spermatid development hints at a gametogenesis-related facet, but it can be viewed as a specialized cell division context of these trafficking factors. Overall, the combination points to a label of Golgi trafficking functions coupled with mitotic/cell-division roles.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006893","count":2},{"id":"GO:0032456","count":2},{"id":"GO:0051016","count":2},{"id":"GO:0090114","count":2},{"id":"GO:0090307","count":2}]},{"hash":"1882673195238538046","title":"Innate Immunity and Cell Death Signaling","description":"The GO terms are dominated by innate immune response, pyroptotic inflammatory response, and apoptotic processes, with strong representation of NF-kappaB signaling regulation and ubiquitination, suggesting a cluster centered on inflammation and programmed cell death pathways. The mitotic spindle assembly term appears incidental, not defining the core theme. Overall, the proteins coalesce around innate immune activation linked to cell death signaling.","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":13},{"id":"GO:0090307","count":10},{"id":"GO:0043123","count":9},{"id":"GO:0016567","count":9},{"id":"GO:1990001","count":9}]},{"hash":"1482702647648789637","title":"Synaptic vesicle trafficking and exocytosis","description":"This cluster is dominated by GO terms related to vesicle transport\u2014endocytosis, ER-Golgi and Golgi-ER transport, endosome/melanosome transport, and especially regulation of synaptic vesicle exocytosis\u2014pointing to neuronal vesicle trafficking. Additional terms for brain development and mechanical stimulus support neural contexts but the vesicle-related terms provide the core theme.","confidence":"High","size":21,"edges":3,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007420","count":5},{"id":"GO:0006623","count":4},{"id":"GO:0006890","count":4},{"id":"GO:0035646","count":4},{"id":"GO:0006897","count":4}]},{"hash":"1407140452534119542","title":"RNA Processing and Transcription Regulation","description":"This cluster is dominated by RNA metabolism terms: rRNA processing/maturation (5.8S rRNA maturation and ITS2 cleavage) and mRNA turnover (RNA destabilization, deadenylation-independent decapping), along with regulation of RNA polymerase II transcription (termination, negative regulation of Pol II regulatory region). A couple of terms reference Rho GTPase signaling and germline development, which appear less central. Taken together, the proteins likely function in RNA biogenesis and transcriptional regulation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903026","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0043087","count":2},{"id":"GO:0010796","count":2},{"id":"GO:0000448","count":1}]},{"hash":"2062081915451897960","title":"Unknown","description":"The top GO terms cover a wide range of processes\u2014from DNA-templated transcription and ion transport to synapse plasticity, epithelial polarity, adherens junction localization, Rho signaling, and GTPase activation\u2014suggesting a heterogeneous set of functions without a single cohesive theme. There isn\u2019t a clear shared pathway or cellular context uniting these terms, so a neutral label is appropriate. ","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0003096","count":1},{"id":"GO:1901206","count":1},{"id":"GO:0051612","count":1},{"id":"GO:0051835","count":1}]},{"hash":"516268894112342205","title":"Developmental signaling and organ patterning","description":"This cluster is enriched for developmental processes: cell migration, endodermal fate commitment, organ identity maintenance, and regulation of signaling pathways (notably Wnt), with links to proliferation control, GTPase activity, and nuclear import. Together, these terms point to roles in tissue patterning and differentiation, including aspects of cardiac-associated cell adhesion and communication. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016477","count":7},{"id":"GO:0043065","count":6},{"id":"GO:0090090","count":6},{"id":"GO:0008285","count":6},{"id":"GO:0043547","count":6}]},{"hash":"1566897277242866317","title":"Unknown","description":"The terms are highly diverse, ranging from lipid biosynthesis and remodeling to mitochondrial energy production and even DNA replication/cell division, plus protein folding and ER-associated degradation. There isn\u2019t a clear, cohesive functional theme that ties most proteins in this cluster, so a concise, representative label cannot be confidently assigned.","confidence":"","size":21,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0070389","count":3},{"id":"GO:0051260","count":3}]},{"hash":"423713721311365532","title":"Unknown","description":"Top terms point to disparate biological themes: development (vulval fate specification, compound eye morphogenesis), cell cycle regulation (mitotic spindle assembly, ubiquitination), immune/inflammatory responses (negative regulation of IL-12 production, pyroptotic response), cardiac signaling (SA node interactions), and apoptosis. There isn\u2019t a single cohesive function or pathway that ties these terms together, so a precise label isn\u2019t supported.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072327","count":7},{"id":"GO:2000495","count":7},{"id":"GO:0090307","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0045083","count":2}]},{"hash":"1988109207069630741","title":"Transmembrane Transporters for Sugars, Ions, and Xenobiotics","description":"The GO terms show transmembrane transport across a broad set of substrates (nitrate, various sugars such as galactose and arabinose, ions like Na+ and K+, vitamins, and xenobiotics), indicating a cluster of membrane transporter proteins with wide substrate specificity.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":4},{"id":"GO:0015706","count":4},{"id":"GO:0042891","count":4},{"id":"GO:0015757","count":4},{"id":"GO:0071805","count":4}]},{"hash":"1147993754964306149","title":"Adrenergic GPCR Signaling and Energy Metabolism","description":"The cluster shows strong enrichment for adrenergic receptor\u2013mediated GPCR signaling, MAPK activation via adrenergic pathways, and energy regulation processes (electron transport chain, thermogenesis, blood pressure). These terms suggest a coordinated role in sympathetic signaling linked to metabolic and energetic regulation, justifying a label centered on adrenergic signaling and energy metabolism.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":16},{"id":"GO:0010579","count":16},{"id":"GO:0045777","count":16},{"id":"GO:0002024","count":16},{"id":"GO:0035025","count":16}]},{"hash":"85601367460557694","title":"Retroviral integration and latency","description":"The top GO terms cluster around steps of a retroviral life cycle: reverse transcription (RNA-templated DNA biosynthetic process), DNA replication and recombination, DNA integration into the host genome, and establishment of proviral latency, plus viral entry into the host nucleus. Some terms mention symbiont-host interactions and apoptosis, but the dominant signal is viral genome integration and latency. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":4},{"id":"GO:0046718","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0039651","count":3}]},{"hash":"2105782768992988167","title":"Immune Activation and Actin Regulation","description":"This cluster appears enriched for adaptive immune signaling and cytoskeletal dynamics, with GO terms like B cell receptor signaling, activated T cell proliferation, transitional B cell differentiation, and positive regulation of actin filament binding supporting a theme of immune cell activation and actin remodeling. Some metabolic terms present may be annotation noise, but the dominant signal centers on immune signaling and cytoskeletal regulation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":5},{"id":"GO:0090180","count":5},{"id":"GO:2001172","count":5},{"id":"GO:0090263","count":2},{"id":"GO:0050853","count":2}]},{"hash":"731617491823528937","title":"DNA replication and repair","description":"The top GO terms are dominated by DNA maintenance processes, including DNA replication, DNA recombination, and double-strand break repair (NHEJ), with additional related activity on DNA topoisomerase. While a couple terms touch metabolism, the core theme across terms points to genomic maintenance and DNA processing, justifying the label DNA replication and repair.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":5},{"id":"GO:0090180","count":5},{"id":"GO:2001172","count":5},{"id":"GO:0015074","count":2},{"id":"GO:0097676","count":1}]},{"hash":"1097056158083967451","title":"Unknown","description":"The Top Terms are scattered across transcription/ DNA processing, development, metabolism, and immune-related processes, with no single dominant theme tying the proteins together. Because there isn't a cohesive shared function or pathway clearly represented, a specific, representative label cannot be confidently assigned.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006313","count":2},{"id":"GO:0019284","count":2},{"id":"GO:0019509","count":2},{"id":"GO:0070306","count":2}]},{"hash":"78781353312645438","title":"Developmental Tissue Morphogenesis","description":"The cluster\u2019s GO terms cluster around development of various tissues and structures\u2014glomerular basement membrane formation, cuticle/matrix development, lymphangiogenesis, cartilage and tendon morphogenesis\u2014suggesting a shared theme of tissue morphogenesis and extracellular matrix assembly. Some terms (like protein heterotrimerization or oxidative stress detection) are less directly tied to morphogenesis, but overall the developmental pattern is evident.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032836","count":2},{"id":"GO:0042338","count":2},{"id":"GO:1901492","count":2},{"id":"GO:0060351","count":2},{"id":"GO:0051873","count":2}]},{"hash":"2287554260566866931","title":"Ubiquitin-regulated NF-\u03baB/TNF innate immune signaling","description":"The cluster centers on ubiquitin-dependent protein catabolic and ubiquitination processes (including K63-linked ubiquitination and autoubiquitination) together with activation of NF-\u03baB and TNF-mediated signaling, and innate immune response. The pattern suggests a cohesive module where ubiquitin signaling controls NF-\u03baB\u2013driven inflammatory responses in innate immunity; a vitamin D response term appears incidental. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0070534","count":12},{"id":"GO:0007250","count":12},{"id":"GO:0033209","count":12},{"id":"GO:0051865","count":12}]},{"hash":"1351237152779828710","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":5},{"id":"GO:0075525","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0075522","count":4},{"id":"GO:0006446","count":4}]},{"hash":"1692904540138093818","title":"Organogenesis and tissue morphogenesis","description":"The top GO terms point to developmental processes across diverse tissues\u2014notochord formation, genitalia morphogenesis, keratinocyte proliferation, neural axon fasciculation, and brush border assembly\u2014along with DNA-templated transcription. This suggests a broad theme of organogenesis and tissue morphogenesis rather than a single pathway, making this a suitable label for the cluster.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050957","count":4},{"id":"GO:1904970","count":4},{"id":"GO:0060044","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0097156","count":3}]},{"hash":"829896396097365089","title":"Placental Development and Chromatin Regulation","description":"This cluster includes terms related to placental structure development (labyrinthine layer and spongiotrophoblast layer development) alongside regulatory processes tied to chromatin dynamics (endoreduplication, desumoylation/deneddylation, chromatin binding, kinetochore assembly, and translesion synthesis). The combination points to a developmental/regulatory module focused on placental tissue and cell cycle\u2013chromatin control, even though other terms are broader. Confidence: Medium","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010724","count":1},{"id":"GO:0032875","count":1},{"id":"GO:0016926","count":1},{"id":"GO:0060711","count":1},{"id":"GO:0035562","count":1}]},{"hash":"813633157421661211","title":"Neurodevelopment and Synaptic Regulation","description":"The top GO terms cluster around brain development, ephrin receptor signaling regulation, and regulation of synaptic plasticity through receptor localization to the synapse, indicating a focus on neural development and synaptic function. Additional terms on neuron and glial apoptotic processes and angiogenesis support a broad developmental nervous system theme, while pigmentation and protein heterotrimerization may be less core. Overall, the theme is Neurodevelopment and Synaptic Regulation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":4},{"id":"GO:1901187","count":3},{"id":"GO:1900383","count":3},{"id":"GO:0007420","count":2},{"id":"GO:0043473","count":2}]},{"hash":"836563194538430876","title":"Melanosome transport and pigmentation","description":"This cluster is strongly enriched for melanosome-related processes (melanosome transport, melanosome organization, developmental pigmentation, endosome to melanosome transport) and related vesicle trafficking, suggesting a cohesive role in pigment cell biology and vesicular transport to pigment-containing organelles. A few terms about secretory vesicles appear but are less representative. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048490","count":1},{"id":"GO:0032402","count":1},{"id":"GO:0032816","count":1},{"id":"GO:0033299","count":1},{"id":"GO:0032438","count":1}]},{"hash":"1422132795703174730","title":"Stress and host-symbiont response cluster","description":"The top GO terms point to cellular responses to various stresses (hypoxia, general stress, xenobiotic) and signaling (TGF-beta), plus entries related to host-symbiont interactions (dormancy entry of symbiont in host, symbiont entry into host cell). There is also a molecular-process hint in RNA guanine-N7 methylation that can be involved in stress-related gene regulation. While some neural terms (visual learning, myelin maintenance) appear unrelated, the dominant theme across terms is cellular adaptation to stress and host-associated interactions, justifying a concise \u201cStress and host-symbiont response cluster.\u201d ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071456","count":3},{"id":"GO:0006950","count":3},{"id":"GO:0085014","count":3},{"id":"GO:0008284","count":2},{"id":"GO:0036265","count":2}]},{"hash":"2047567236241806349","title":"Mechanosensory and Cardiovascular Development","description":"The cluster centers on mechanotransduction themes: cellular response to mechanical stimulus, bone ossification, and inner ear sensory differentiation, with additional representation of heart/vascular signaling and mechanosensitive processes, suggesting a shared mechanosensory-developmental role across tissues.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0042491","count":2},{"id":"GO:0045083","count":2},{"id":"GO:0030103","count":2}]},{"hash":"810420562437102321","title":"RNA processing and RNA interference pathways","description":"Most top GO terms point to post-transcriptional gene regulation: spliceosome-mediated splicing, mRNA export, and RNA silencing pathways (siRNA processing; miRNA-related silencing). A few terms are peripheral, but the core signal is RNA maturation and RNAi-based regulation of gene expression, justifying this label.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030307","count":2},{"id":"GO:0050910","count":2},{"id":"GO:0045292","count":1},{"id":"GO:1905696","count":1},{"id":"GO:0030422","count":1}]},{"hash":"858976133952603728","title":"Symbiont-driven immune modulation and epidermal barrier biosynthesis","description":"The top GO terms cluster around immune modulation (regulation of tolerance induction, suppression of host adaptive immune response, antigen processing/presentation via MHC II, and regulation of MHC II biosynthesis) and host ubiquitination processes, suggesting a common theme of symbiont-mediated control of host immunity. Added terms for cutin and suberin biosynthesis point to epidermal barrier formation, which can be relevant in host-symbiont interfaces. The combination implies a focus on how symbionts modulate immunity while participating in or influencing barrier-related biosynthesis, though the mix across plant-cuticle and animal immune terms makes the connection only moderately cohesive. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002643","count":1},{"id":"GO:1900490","count":1},{"id":"GO:0010143","count":1},{"id":"GO:0010345","count":1},{"id":"GO:0039648","count":1}]},{"hash":"931638020475690774","title":"Stress-Responsive Lipid Metabolism and Xenobiotic Response","description":"The prominent GO terms show stress response and lipid-related metabolism (cholesterol biosynthesis, cholesterol transport, and long-chain fatty acid catabolism) with additional xenobiotic response signals; some terms about development and neuronal stem cell maintenance are likely incidental. Thus the core theme is a stress-activated, lipid/metabolism-associated module with xenobiotic responsiveness.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006950","count":4},{"id":"GO:0085014","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0042758","count":2},{"id":"GO:0006695","count":2}]},{"hash":"561348180808968066","title":"RNA Methylation and Protein Modifications","description":"The cluster is enriched for RNA modification processes, including guanine-N7 methylation of RNA and rRNA and mRNA capping, pointing to nucleic acid processing roles. It also shows several post-translational modification terms (histone H3 acetylation, peptidyl-lysine dimethylation, peptidyl-arginine hydroxylation), suggesting proteins involved in various protein modification pathways. A few terms related to vitamin/menaquinone biosynthesis and aging appear incidental. Overall, the common theme centers on RNA modification together with protein post-translational modifications.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036265","count":2},{"id":"GO:0043966","count":2},{"id":"GO:0009234","count":1},{"id":"GO:0070476","count":1},{"id":"GO:0090398","count":1}]},{"hash":"1571247795849240356","title":"GPCR-cAMP/IP3 Signaling and Development","description":"The top GO terms point to G protein-coupled receptor signaling and downstream second messenger pathways (activation of adenylate cyclase, cAMP signaling, and IP3 biosynthesis) as the core theme, with acetylcholine metabolism also tied to neurotransmitter signaling. Several terms indicate developmental processes (nipple morphogenesis, primary ovarian follicle growth, lung connective tissue development), suggesting these proteins participate in signaling networks guiding tissue development. There are some less cohesive terms like electron transport and general cell proliferation, which may reflect broader cellular roles, but the dominant pattern is GPCR-driven signaling linked to development. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008283","count":3},{"id":"GO:0045777","count":3},{"id":"GO:0022900","count":3},{"id":"GO:0010579","count":3},{"id":"GO:0060408","count":3}]},{"hash":"1426108378998982683","title":"Rho/Rac GTPase signaling and actin remodeling","description":"The top GO terms cohere around small GTPase\u2013mediated signaling (Rho/Rac) and actin cytoskeleton organization, including regulation of Rac/Rho signaling and filopodium assembly, pointing to coordinated actin remodeling governed by Rho family GTPases. Insulin/IGF signaling terms appear but are likely context-dependent cross-talk rather than the main theme. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":5},{"id":"GO:0030036","count":5},{"id":"GO:0048009","count":4},{"id":"GO:0043314","count":4},{"id":"GO:0060313","count":4}]},{"hash":"521853344428304003","title":"Protein regulation and targeting in division and signaling","description":"This cluster centers on regulatory and targeting processes that control protein function, including mitotic spindle assembly (cell division), regulation of kinase and GTPase activities (signaling), post-translational targeting to membranes/mitochondria, protein complex oligomerization, and protein quality control pathways like ERAD, along with redox homeostasis. The terms together suggest a cohesive theme of how proteins are modified, targeted, and assembled to regulate division and signaling, though the set is somewhat diverse.","confidence":"Medium","size":20,"edges":97,"triangles":215,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090307","count":5},{"id":"GO:0030433","count":4},{"id":"GO:0006469","count":4},{"id":"GO:0000742","count":4},{"id":"GO:0043547","count":4}]},{"hash":"1108740168693419478","title":"NF-kappaB and T cell signaling cluster","description":"This cluster is dominated by immune signaling GO terms: canonical NF-kappaB signal transduction and its positive regulation, along with T cell receptor signaling and interleukin-12 response, pointing to a module of T cell\u2013mediated immune activation and NF-kappaB\u2013driven transcription. Sparse terms on mRNA processing and proteolysis may reflect background cellular processes, but the strongest theme is immune signaling.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030717","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0070671","count":2},{"id":"GO:0007249","count":2},{"id":"GO:0043123","count":2}]},{"hash":"268124169474176802","title":"Mitotic Progression and APC/C-Linked Ubiquitination","description":"The dominant GO terms point to mitotic cell cycle, cell division, and anaphase-promoting complex-dependent catabolic processes, together with K11-linked ubiquitination, highlighting APC/C-mediated regulation of mitosis and targeted protein degradation. Negative regulation of protein kinase activity may further modulate mitotic signaling. Some neural terms (brain development, response to morphine) appear as noise or broader pleiotropy, but the core theme is mitotic progression and ubiquitin-dependent control, justifying this label.","confidence":"High","size":20,"edges":6,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0043278","count":2},{"id":"GO:0051301","count":2}]},{"hash":"1880992500482121279","title":"Immune signaling and receptor trafficking","description":"Most terms point to immune functions: positive regulation of B cell proliferation and isotype switching, plus receptor internalization, implying a cluster of proteins involved in immune signaling and receptor trafficking. A few terms refer to plant meristem growth and iron homeostasis, likely annotation noise or cross-kingdom homology, and do not cohere with the immune theme. Overall, the core signal is immune regulation and membrane/internalization processes.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030890","count":2},{"id":"GO:0050884","count":2},{"id":"GO:0007039","count":1},{"id":"GO:0045830","count":1},{"id":"GO:0010081","count":1}]},{"hash":"460649829047350782","title":"Neuronal signaling and synaptic plasticity","description":"This cluster shows proteins linked to neural communication and structural changes at synapses, including neurotransmitter secretion, dendritic spine morphogenesis, and long-term synaptic depression, along with behavioral and transcription regulation terms that support neural plasticity. While a few terms (like eye morphogenesis) are broader or incidental, the dominant pattern points to synaptic signaling and plasticity mechanisms in neurons.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006950","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0051835","count":2},{"id":"GO:0071625","count":2},{"id":"GO:0035021","count":2}]},{"hash":"1512566038273863517","title":"TLR4-Mediated Inflammatory Neuroimmune Signaling","description":"Cluster centers on innate immune and TLR4/LPS signaling terms (lipopolysaccharide-mediated signaling, inflammatory response, TLR4 signaling, innate immune response), indicating a module driven by TLR4-mediated inflammation. The presence of neuronal terms (hippocampus development, learning or memory, neuron apoptotic process) suggests these immune signals may interface with neural development and plasticity, i.e., a neuroimmune signaling context.","confidence":"High","size":20,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0031663","count":5},{"id":"GO:0006954","count":5},{"id":"GO:0034142","count":4},{"id":"GO:0021766","count":4},{"id":"GO:0046330","count":4}]},{"hash":"1950825538686366237","title":"Cell signaling and stress-response cluster","description":"The proteins are enriched for GO terms tied to signaling and responses to external stimuli, including regulation of GTPase activity, protein autophosphorylation, NF-kappaB-related activity, death-inducing signaling complex assembly, xenobiotic/morphine responses, and synaptic vesicle maturation. While developmental terms appear (thymus and skeletal system development), the dominant themes point to signaling transduction and stress-response processes, with vesicle dynamics involved, supporting a label centered on signaling and stress responses.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0042493","count":2},{"id":"GO:0043278","count":2},{"id":"GO:0048538","count":2},{"id":"GO:0001501","count":2}]},{"hash":"823388024185090356","title":"Unknown","description":"Top GO terms span diverse processes: cell division, type I interferon response, box C/D snoRNP assembly, prostate gland development, steroid receptor complex assembly, male sex differentiation, and basic nuclear activities like Pol III transcription. The mix includes obsolete annotations, suggesting annotation noise, and there isn\u2019t a unifying function evident across the cluster.","confidence":"","size":20,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0071357","count":4},{"id":"GO:0000492","count":4},{"id":"GO:0030850","count":4},{"id":"GO:0006463","count":4}]},{"hash":"1263124887241738417","title":"Neuronal vesicle trafficking and synaptic regulation","description":"The cluster centers on neuronal membrane trafficking and signaling, with GO terms for Golgi to plasma membrane transport, vesicle docking in exocytosis, regulation of filopodium assembly, and regulation of long-term synaptic plasticity, plus regulation of GTPase activity that influences cytoskeletal dynamics and trafficking. While a couple terms (mitochondrion inheritance, hair follicle maturation) are less directly connected, the dominant pattern points to neuronal vesicle transport and synaptic regulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":2},{"id":"GO:0046909","count":2},{"id":"GO:0043525","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0051489","count":2}]},{"hash":"207069362351172474","title":"Membrane Transporters for Xenobiotics and Ions","description":"The set is dominated by GO terms about transport across membranes, including xenobiotic transmembrane transport, xenobiotic transport, nitrite, phosphate ion, and sialic acid transport, and even a term related to neurotransmitter loading into synaptic vesicles, all pointing to a core function as membrane transport proteins across diverse substrates. Some terms (uterus development, histone methylation, general metabolism) are off-theme and may reflect broader annotations, but the strongest signal is transport activity.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":3},{"id":"GO:0051571","count":2},{"id":"GO:0019852","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0042908","count":2}]},{"hash":"575195706699881207","title":"Male germline development and spermatogenesis","description":"Based on the top GO terms, the proteins cluster around processes essential for the male germline: germ cell proliferation, regulation of meiosis, germ cell migration, and positive regulation of male gonad development. Although there are some broader terms (translational initiation, ER-to-cytosol transport) that are less specific, the core theme ties to male germline development and spermatogenesis.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002176","count":2},{"id":"GO:0045835","count":2},{"id":"GO:0008354","count":2},{"id":"GO:0006413","count":2},{"id":"GO:0030970","count":1}]},{"hash":"172454336321324506","title":"Nuclear gene expression and cell cycle regulation","description":"The top GO terms emphasize transcription (DNA-templated transcription), chromatin regulation (histone dephosphorylation, ubiquitination), and cell division, pointing to a nuclear module governing gene expression and cell cycle progression. Some terms related to immune or drug responses appear peripheral, suggesting noise or broad regulatory connections rather than a tight pathway. The low to moderate connectivity (one edge) supports a loosely connected regulatory cluster rather than a single cohesive process.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0070979","count":6},{"id":"GO:0071276","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0016576","count":5}]},{"hash":"1344550023902969838","title":"Cardiac Development and Electrophysiology","description":"This cluster is dominated by GO terms linking heart formation (outflow tract morphogenesis; multicellular organism development) with cardiac electrical activity (resting membrane potential regulation; SA node and atrial action potential regulation; intracellular potassium ion homeostasis; atrial AP repolarization). While terms like diet-induced thermogenesis, skin development, and pain perception appear, the cardiac-related terms provide a coherent theme of heart development and rhythm regulation.","confidence":"Medium","size":20,"edges":29,"triangles":28,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0003151","count":7},{"id":"GO:0007275","count":7},{"id":"GO:0002024","count":5},{"id":"GO:0071502","count":5},{"id":"GO:0019233","count":5}]},{"hash":"1275712705816539304","title":"Retroviral genome integration and latency","description":"The cluster is dominated by GO terms tied to retroviral life cycle activities: DNA recombination, DNA replication, DNA integration, RNA-templated DNA biosynthesis, establishment of integrated proviral latency, and viral penetration into the host nucleus. The presence of these terms, especially the proviral latency and RNA-templated DNA synthesis, strongly points to retroviral genome integration and latency as the central theme. The inclusion of \u201csymbiont entry into host cell\u201d and related host-interaction terms aligns with viral infection processes. Confidence: High.","confidence":"","size":20,"edges":76,"triangles":84,"max_degree":12,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":8},{"id":"GO:0046718","count":7},{"id":"GO:0075713","count":7},{"id":"GO:0006260","count":7},{"id":"GO:0039651","count":7}]},{"hash":"1261186596725068571","title":"Nuclear Export and Periphery Tethering","description":"This cluster centers on nuclear transport components and export processes (mRNA, tRNA, ribosomal subunits) as well as localization and tethering events at the nuclear periphery, including telomere and chromatin associations. The recurring themes of nuclear pore organization and RNA export, together with periphery tethering terms, justify a label that captures both transport and periphery-related chromatin interactions.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035392","count":1},{"id":"GO:0036228","count":1},{"id":"GO:0016973","count":1},{"id":"GO:0034398","count":1},{"id":"GO:0035080","count":1}]},{"hash":"315094231096371138","title":"DNA methylation and transposition","description":"The cluster centers on nucleic-acid modification and mobility, as seen by multiple terms for DNA integration, DNA transposition, and various methylation processes (DNA, tRNA, rRNA, protein). Endocytosis-related terms appear but are less coherent with the dominant DNA-centric signals, so the label reflects the core theme of DNA modification and transposition.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0006907","count":2},{"id":"GO:0002031","count":2},{"id":"GO:0006313","count":2},{"id":"GO:0009307","count":1}]},{"hash":"557430543647265705","title":"Chromatin Regulation and Transcription Control","description":"The GO terms point primarily to chromatin state regulation (heterochromatin formation, pericentric heterochromatin formation, dosage compensation) and transcriptional control (DNA-templated transcription, regulation of transcription). A couple of developmental terms (antenna and compound eye development) seem ancillary, suggesting the cluster may contain factors involved in chromatin-mediated transcription regulation with broader roles in development. Overall, the cohesive theme is regulation of gene expression via chromatin state and transcriptional control.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":3},{"id":"GO:0090180","count":3},{"id":"GO:2001172","count":3},{"id":"GO:0009047","count":1},{"id":"GO:0006355","count":1}]},{"hash":"2216962739942878520","title":"Fungal Metabolic Regulation and Stress Response","description":"The top GO terms cluster around regulation of core metabolism (positive regulation of thiamine biosynthesis and glycolytic fermentation to ethanol) and cellular stress responses (xenobiotic stimulus response, redox homeostasis). While a couple terms (corneocyte development, renal water transport) appear unrelated and may reflect annotation noise, the dominant signal is metabolic regulation coupled with stress adaptation, supporting a label focused on metabolism and stress response in a fungal context.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":5},{"id":"GO:0090180","count":5},{"id":"GO:2001172","count":5},{"id":"GO:0042493","count":1},{"id":"GO:0045454","count":1}]},{"hash":"2052894972815674368","title":"DNA Recombination and Proviral Integration","description":"The top GO terms are centered on DNA metabolism\u2014DNA recombination, DNA replication, and DNA integration\u2014and include proviral latency, pointing to retroviral or transposon-related processes. While some terms about chromatin remodeling and host interactions appear as well, the dominant theme across the cluster is genetic material manipulation and integration, justifying a label focused on recombination and proviral integration.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":3},{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:2001172","count":2},{"id":"GO:0043966","count":2}]},{"hash":"126678968762826332","title":"Meiosis and germ cell development","description":"This cluster is dominated by terms tied to meiotic processes and germline differentiation (spermatid development, sperm DNA condensation, female meiosis chromosome separation, lateral element assembly), plus DNA repair and replication events that occur during meiosis, supporting a cohesive theme of meiotic chromosome dynamics in germ cells.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072327","count":1},{"id":"GO:2000495","count":1},{"id":"GO:0051309","count":1},{"id":"GO:0035093","count":1},{"id":"GO:0007286","count":1}]},{"hash":"1855495851406454125","title":"Genome maintenance and chromatin organization","description":"The set includes terms tied to DNA repair at telomeres, subtelomeric heterochromatin formation, G-quadruplex DNA structures, and maturation of rRNA, collectively pointing to nuclear genome stability and chromatin dynamics. Some developmental or transport-related annotations appear as secondary, but the dominant theme centers on genome maintenance and chromatin regulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031848","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0035390","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0071919","count":2}]},{"hash":"1309930273343465226","title":"Embryonic Morphogenesis and Placental Development","description":"The top GO terms cluster around embryonic development and differentiation, especially placenta formation (placental development, trophoblast differentiation, placental morphogenesis) and broader morphogenesis processes (left-right pattern formation, EMT-related heart development). Endocrine system development and cartilage morphogenesis further support a general embryonic differentiation theme. This combination justifies naming the cluster as embryonic morphogenesis with a placental focus.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0003323","count":4},{"id":"GO:0060536","count":4}]},{"hash":"1980295378917169254","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0090307","count":2}]},{"hash":"711202619841397817","title":"Actin Cytoskeleton Remodeling and Motility","description":"The top GO terms point to actin-based protrusions (filopodium and lamellipodium assembly), Rho GTPase signaling (activation of GTPase activity, regulation of Rho), and related cytoskeletal dynamics that drive cell movement. Additional terms about neutrophil functions and vascular remodeling support a broader theme of cytoskeletal reorganization in migrating or changing cells. A glucose transport term is an outlier; overall the cluster centers on cytoskeletal remodeling rather than metabolism.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902042","count":3},{"id":"GO:0006924","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0015758","count":2},{"id":"GO:1904693","count":2}]},{"hash":"148269637588978507","title":"Developmental Morphogenesis and Differentiation","description":"The top GO terms point to morphogenesis across multiple tissues (coronary/vein/pulmonary artery morphogenesis, bone formation, digit morphogenesis, lymphangiogenesis) along with differentiation events in various cell types (inner ear receptors, prostate epithelium, gamma-damma T cells). There is also involvement of developmental signaling (JAK-STAT regulation). The common thread is tissue morphogenesis and cell differentiation during development, rather than a single pathway or function, which justifies a development-focused label.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060982","count":2},{"id":"GO:0042491","count":1},{"id":"GO:0061156","count":1},{"id":"GO:0060528","count":1},{"id":"GO:1901492","count":1}]},{"hash":"1780007879282675493","title":"Mitosis and chromosome dynamics","description":"The GO terms are dominated by mitotic processes: mitotic metaphase chromosome alignment, exit from mitosis, chromosome condensation, and cell division, all pointing to chromosome dynamics and mitotic machinery. Additional terms about nucleus organization and trafficking are present but secondary, suggesting a core role in mitosis with supporting cellular logistics. Confidence in this thematic label is high.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902188","count":1},{"id":"GO:0007080","count":1},{"id":"GO:0010458","count":1},{"id":"GO:0007076","count":1},{"id":"GO:0000920","count":1}]},{"hash":"2288125720490259007","title":"Cell Envelope Biosynthesis and Antibiotic Response","description":"The top GO terms cluster around cell wall and outer membrane components, including lipid A and lipopolysaccharide biosynthesis, Und-P\u2013linked sugar biosynthesis, and various carbohydrate metabolic processes, all of which are central to envelope construction. Biofilm formation and a general response to antibiotic further reinforce a surface- and envelope-focused functional theme, despite a few sporulation-related terms that may reflect annotation noise. Overall, the proteins appear linked to cell wall/envelope biosynthesis and surface-associated metabolism.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0042244","count":2},{"id":"GO:0045493","count":2},{"id":"GO:0042710","count":2},{"id":"GO:0034232","count":2}]},{"hash":"1170945958604500107","title":"Nucleic Acid Processing and Genome Maintenance","description":"The cluster\u2019s top GO terms cluster around RNA processing (splicing via spliceosome, polyadenylation) and DNA-related processes (DNA integration, DNA recombination), with cell division as a broad associated function, pointing to roles in genome expression and maintenance. A few terms related to host-pathogen interactions and transport are present but do not define the main theme. Overall, nucleic acid metabolism and genome dynamics best describe the cluster.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0015074","count":2}]},{"hash":"2071163634970884816","title":"Adaptive Immune Differentiation and Signaling","description":"This cluster is dominated by GO terms related to adaptive immunity, including regulation of pro-T cell differentiation, memory T cell differentiation, B cell receptor signaling, and germinal center formation, indicating involvement in T/B cell development and activation. Some terms (circadian, renal, gravitropism) seem less connected and may reflect annotation noise or pleiotropy, but the core theme points to adaptive immune processes.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000176","count":2},{"id":"GO:0043380","count":2},{"id":"GO:2000312","count":2},{"id":"GO:0042748","count":2},{"id":"GO:0070294","count":2}]},{"hash":"71831589962188665","title":"RNA processing and ribosome biogenesis","description":"This cluster centers on RNA metabolism, with GO terms for mRNA splicing and transport, and maturation of rRNA (5.8S and LSU), highlighting a link to ribosome assembly and gene expression. Additional terms for TORC1 signaling and regulatory phosphorylation/GTPase activity suggest broader growth-related regulation, but the core theme remains RNA processing and ribosome biogenesis.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0061087","count":2},{"id":"GO:0038202","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0051028","count":2}]},{"hash":"1842761582211792293","title":"Ciliogenesis and Intraflagellar Transport","description":"The top terms cluster around ciliary biology: cilium assembly, intraciliary retrograde transport, and microtubule-based movement, suggesting a module focused on ciliogenesis and intraflagellar transport. The presence of additional transcription/translation and ER-associated terms likely reflects background housekeeping functions shared by many proteins in the set, but the strongest signal points to a ciliogenesis-related group. ","confidence":"Medium","size":19,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0030433","count":3}]},{"hash":"1325644243810700611","title":"Transmembrane Transporters","description":"Dominant GO terms describe transmembrane transport of various ions and small molecules (sugars, nitrite, xenobiotics) and vesicle loading, indicating a cohesive set of membrane transporter proteins and related vesicle transport functions.","confidence":"High","size":19,"edges":68,"triangles":97,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":9},{"id":"GO:0006004","count":9},{"id":"GO:0015707","count":9},{"id":"GO:0035435","count":9},{"id":"GO:0015739","count":9}]},{"hash":"1492202967850974597","title":"Transcriptional Regulation and Differentiation","description":"The top GO terms are dominated by transcription-related processes (RNA polymerase II transcription, DNA-templated transcription), with several development/differentiation terms (osteoblast differentiation, placental development, inner ear receptor cell differentiation, metanephric mesenchyme differentiation) and related regulatory processes. This pattern points to a cluster of proteins involved in controlling transcription during development and cell fate decisions, rather than a single, isolated pathway.","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":13},{"id":"GO:0006351","count":11},{"id":"GO:0045668","count":9},{"id":"GO:0060766","count":9},{"id":"GO:0000117","count":8}]},{"hash":"1908561048096210936","title":"Neural and Muscle Differentiation","description":"Top GO terms indicate differentiation across neural and muscular lineages (neuron development, skeletal muscle cell differentiation, myoblast differentiation, floor plate development), with supporting terms for various other differentiating tissues (inner ear, metanephric mesenchyme, carotid body glomus cells). Transcription by RNA polymerase II suggests activation of gene expression programs during these differentiation processes. The common theme is developmental differentiation across multiple tissues, notably neural and muscular lineages.","confidence":"High","size":19,"edges":170,"triangles":952,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045668","count":15},{"id":"GO:0060766","count":15},{"id":"GO:0006366","count":13},{"id":"GO:0035914","count":13},{"id":"GO:0042491","count":12}]},{"hash":"1579915192987471014","title":"Organogenesis and GPCR signaling","description":"This cluster's GO terms cluster around developmental processes across several organs (enteric nervous system, heart, visual system) and associated signaling pathways. The presence of protein phosphorylation, adenylate cyclase activation, GTPase regulation, and opsin-mediated signaling supports a common theme of GPCR- or receptor-driven signaling cascades that influence development and sensory function. Taken together, the prevailing theme is organogenesis linked to signaling pathways.","confidence":"Medium","size":19,"edges":6,"triangles":4,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048484","count":7},{"id":"GO:0006468","count":7},{"id":"GO:0055117","count":7},{"id":"GO:0001975","count":7},{"id":"GO:0007507","count":7}]},{"hash":"2109230859339406967","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":78,"triangles":135,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":4},{"id":"GO:1901407","count":3},{"id":"GO:0070651","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0034475","count":3}]},{"hash":"2131559760801570108","title":"Embryonic Development and Tissue Differentiation","description":"The top GO terms point to development and organogenesis across multiple tissues\u2014neural development (forebrain morphogenesis, neural tube closure, neural crest migration, locus ceruleus development), skeletal/eye differentiation (osteoblast differentiation, lens fiber cell differentiation), and organogenesis processes (ureteric bud morphogenesis, male gonad development). A general transcriptional regulation term (negative regulation of transcription by RNA polymerase II) fits into developmental gene regulation. Together, they suggest a cohesive theme of embryonic development and tissue differentiation.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0008584","count":4},{"id":"GO:0048853","count":3},{"id":"GO:0090190","count":3},{"id":"GO:0001843","count":3}]},{"hash":"2254648246663019553","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by GO terms related to ribosome biogenesis, maturation of SSU/LSU rRNA, translation, and initiation\u2014indicating a set of proteins involved in ribosome assembly and the translation machinery. A few terms like neural tube closure and cell division may reflect broader developmental roles of translation-related proteins, but the core signal is ribosome assembly and protein synthesis.","confidence":"High","size":19,"edges":61,"triangles":91,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0000466","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0000463","count":3}]},{"hash":"818061553450399033","title":"Protein and RNA Methyltransferases","description":"Top terms show strong enrichment for methylation activities (rRNA methylation, peptidyl-arginine methylation, serine dimethylation, and general methylation), suggesting these proteins are involved in methyltransferase activity and methylation-related processing of RNA and proteins. While other terms like cellular senescence and cell growth are present, the dominant signal is methylation, making this a representative, concise label.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090398","count":3},{"id":"GO:0046690","count":2},{"id":"GO:0031167","count":2},{"id":"GO:0043985","count":2},{"id":"GO:0019919","count":2}]},{"hash":"1752726922963261708","title":"Mitochondrial energy production and protein oligomerization","description":"The top GO terms show clear signals for mitochondrial electron transport (ubiquinol to cytochrome c) and for protein oligomerization (homotetramerization/heterooligomerization), suggesting a cluster centered on mitochondrial metabolism and assembly of protein complexes. Some other terms (lifespan determination, insulin signaling, bradykinin catabolism, PQQ biosynthesis) appear peripheral, but do not outweigh the central mitochondrial/assembly theme.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0032461","count":3},{"id":"GO:0051289","count":3},{"id":"GO:0006122","count":3},{"id":"GO:0008340","count":3},{"id":"GO:0006627","count":3}]},{"hash":"1541447726105872357","title":"Pyrimidine nucleotide biosynthesis and transport","description":"The top GO terms strongly point to nucleotide metabolism, especially pyrimidine ribonucleotide biosynthesis (dUTP, dUMP, and related pathways) and tRNA queuosine biosynthesis, with additional transport-related terms. While there are some other biosynthesis terms present (e.g., lipoate), the nucleotide-related processes dominate, justifying the label centered on pyrimidine nucleotide biosynthesis and associated transport activities.","confidence":"Medium","size":19,"edges":15,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0008616","count":2},{"id":"GO:0009107","count":2},{"id":"GO:0006229","count":2},{"id":"GO:0046081","count":2},{"id":"GO:0009220","count":2}]},{"hash":"1955785293179645579","title":"Growth and gene-expression machinery","description":"The terms cluster around core cellular growth and gene-expression functions: cell division, ribosome biogenesis, chromatin organization, tRNA modification, and neuroblast proliferation point to mechanisms that drive cell growth and division. Some terms like response to nutrient or UV-B/trehalose stimulus reflect how cells regulate growth under stress or resource availability, suggesting a broad growth-regulation theme rather than a single pathway. The presence of multiple nuclear processes involved in transcription, RNA processing, and ribosome assembly supports labeling as a growth/gene-expression cluster.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0042254","count":3},{"id":"GO:0000747","count":3},{"id":"GO:0007584","count":3},{"id":"GO:0006336","count":2}]},{"hash":"4089446160387980","title":"Neuronal Stress and Apoptotic Signaling","description":"The cluster\u2019s terms cohere around apoptosis and stress-response pathways (caspase activation, NF-kappaB, JNK), with supporting roles for ubiquitination and calcium signaling, plus neuron-specific processes (synaptic vesicle endocytosis and substantia nigra development). This suggests a grouping of proteins involved in neuronal stress responses and programmed cell death, rather than a single, narrowly defined function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006919","count":5},{"id":"GO:0010881","count":5},{"id":"GO:0043123","count":5},{"id":"GO:0090307","count":5},{"id":"GO:0046330","count":5}]},{"hash":"1196957943780462687","title":"Cardiac conduction and heart development related proteins","description":"The strongest GO signals are about regulating heart rate via cardiac conduction and regulating ventricular cardiac muscle cell action potential, with a notable adhesion term linked to the His-Purkinje system, suggesting components of the cardiac conduction network. Additional terms touch on broader developmental processes (medulla oblongata, ectoderm, embryonic morphogenesis), which may reflect shared regulatory pathways or pleiotropy. Overall, the cluster seems centered on cardiac electrophysiology with ancillary developmental roles, justifying this label.","confidence":"Medium","size":19,"edges":17,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0086091","count":2},{"id":"GO:0098911","count":2},{"id":"GO:0086073","count":1},{"id":"GO:0061198","count":1},{"id":"GO:0051211","count":1}]},{"hash":"1919890685769312224","title":"Developmental patterning and cell migration","description":"The dominant GO terms point to tissue and organ patterning (larval cuticle, hair placodes, neuron differentiation) and cytoskeletal regulation of movement (GTPase activity, pseudopodium assembly, cell migration). The presence of organ identity maintenance and cell division hints at growth and morphogenesis accompanying patterning. Together, these proteins appear to participate in developmental patterning coupled with cell motility.","confidence":"Medium","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0032467","count":3},{"id":"GO:0035293","count":3},{"id":"GO:1904948","count":3},{"id":"GO:0060789","count":3}]},{"hash":"1831170302151804303","title":"Mitochondrial Transport and Fission","description":"These proteins appear linked to mitochondrial membrane processes and nutrient handling. The top GO terms emphasize transmembrane transport of ions and cofactors (phosphate, manganese, thiamine pyrophosphate) and import of pyrimidine nucleotides into mitochondria, alongside mitochondrial membrane fission. Additional terms related to metabolic stress responses (amino acid starvation, oxidative stress) and insulin signaling support a theme of mitochondrial transport/metabolism and membrane dynamics driving the cluster\u2019s function.","confidence":"High","size":19,"edges":23,"triangles":6,"max_degree":12,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0035435","count":6},{"id":"GO:0010815","count":4},{"id":"GO:0030974","count":4},{"id":"GO:0006828","count":4},{"id":"GO:0090149","count":4}]},{"hash":"1714466166221067893","title":"Vertebrate organ development","description":"The Top Terms are dominated by organogenesis and sensory development in vertebrates (heart development, neural tube closure, placenta blood vessel development, labyrinthine morphogenesis, visual perception). A few terms touch on cellular trafficking and stress responses, but the prevailing theme is vertebrate organ formation and maturation.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033555","count":3},{"id":"GO:0009414","count":2},{"id":"GO:0035902","count":2},{"id":"GO:0060674","count":2},{"id":"GO:0001843","count":2}]},{"hash":"1123807103215862038","title":"Stress response, apoptosis, and cell cycle control","description":"The GO terms indicate a suite of stress-related processes: DNA recombination, apoptosis, xenobiotic response, redox homeostasis, and regulation of the G1/S transition, alongside post-transcriptional and signaling activities. This points to a coordinated stress response and homeostatic control of survival, DNA maintenance, and cell-cycle progression, with some tissue-specific processes (corneocyte development, renal water transport) that may reflect context-dependent roles.","confidence":"Medium","size":19,"edges":47,"triangles":30,"max_degree":8,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":10},{"id":"GO:0042493","count":8},{"id":"GO:0006915","count":8},{"id":"GO:0045454","count":7},{"id":"GO:1900087","count":7}]},{"hash":"733565852041039566","title":"Calcium-Dependent Synaptic Plasticity and Hippocampal Development","description":"This cluster is dominated by neural/brain-related GO terms: long-term synaptic potentiation, hippocampus development, calcium ion\u2013dependent exocytosis, and CAMKK-AMPK signaling, all pointing to calcium-driven neuronal signaling and hippocampal circuit development. While there are a few vascular/immune-associated terms, the strongest signal is about calcium-mediated synaptic plasticity and hippocampal maturation.","confidence":"High","size":19,"edges":41,"triangles":26,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060291","count":19},{"id":"GO:0045956","count":18},{"id":"GO:0061762","count":17},{"id":"GO:0060374","count":17},{"id":"GO:0045766","count":17}]},{"hash":"657166132192173121","title":"Sensory Perception and GPCR Signaling","description":"The terms are dominated by sensory processes (pain, vision) and signaling pathways (GPCR signaling, Rho, ERK cascade) with links to cardiovascular regulation (blood pressure, heart development) and prostaglandin responses, suggesting a module centered on sensory signaling and its cardiovascular modulation. Some metabolism-related terms (electron transport chain) may reflect shared proteins rather than core function. Overall, the cluster aligns best with sensory perception and GPCR-mediated signaling.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":15},{"id":"GO:0045777","count":14},{"id":"GO:0022900","count":14},{"id":"GO:0035025","count":14},{"id":"GO:0010579","count":14}]},{"hash":"532440459998880971","title":"Unknown","description":"The terms include DNA transposition and DNA-templated transcription, but also various metabolic processes (thiamine regulation, glycolytic fermentation, glycerol metabolism) and guard cell morphogenesis, with some entries marked obsolete. This mixture lacks a coherent, shared function across the proteins, so the cluster likely spans diverse roles rather than a single pathway.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090305","count":2},{"id":"GO:0006313","count":2},{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:2001172","count":2}]},{"hash":"1281865001989322788","title":"Immune signaling and cytokine regulation","description":"This cluster is dominated by GO terms related to dampening inflammatory signaling and cytokine production, including negative regulation of TLR signaling, negative regulation of NF-\u03baB activity, and regulation of IL-12/IL-23 and chemokine production, as well as TNF response and T cell activation-induced death. The common theme is modulation of immune signaling and cytokine networks, with a few unrelated terms present as minor outliers. ","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034122","count":2},{"id":"GO:0071356","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0072327","count":1},{"id":"GO:2000495","count":1}]},{"hash":"1398691821795660238","title":"Developmental Regulation and Gene Processing","description":"The top terms center on developmental processes (skeletal system development, embryo implantation, male gonad development, blood vessel maturation) and on gene regulation/processing (histone methylation, mRNA splicing, proteasomal degradation). While a couple terms are not strictly developmental, the dominant theme across the cluster is development with supporting gene-expression control mechanisms.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061087","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0007566","count":2},{"id":"GO:0008584","count":2}]},{"hash":"1852267279395934217","title":"Programmed Cell Death and Inflammatory Signaling","description":"The terms cluster around apoptosis (including extrinsic pathways), necroptosis, pyroptosis, and innate immune/inflammatory responses, with ubiquitination indicating regulatory control. While a mitotic spindle term appears, the dominant theme is regulated cell death and inflammation, suggesting these proteins modulate death pathways and immune signaling.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":11},{"id":"GO:0016567","count":8},{"id":"GO:1990001","count":8},{"id":"GO:0070269","count":8},{"id":"GO:0045087","count":8}]},{"hash":"106245501513870664","title":"Developmental transcription and Rho-mediated adhesion","description":"This cluster centers on DNA-templated transcription and developmental processes such as heart development and neuroblast division, with supportive terms for cell adhesion and Rho-mediated signaling that links transcriptional regulation to cytoskeletal remodeling and tissue morphogenesis. Some terms appear outdated or contextually unrelated (cytokinin signaling, morphine response), suggesting annotation noise, but the core theme points to development-stage transcription coupled with adhesion and Rho-driven signaling.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0007507","count":2},{"id":"GO:1900122","count":2}]},{"hash":"286102227827126947","title":"Neural and Eye Development","description":"The top GO terms cluster around neural and ocular development (retina development in camera-type eye, lens fiber cell differentiation, cerebral cortex development), with supporting developmental processes like interkinetic nuclear migration and pronuclear migration, suggesting a cohesive neural/eye formation theme for this protein set.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":2},{"id":"GO:0070306","count":2},{"id":"GO:0001935","count":1},{"id":"GO:0006313","count":1},{"id":"GO:0022027","count":1}]},{"hash":"2145397713689668350","title":"Hormone-regulated development and ECM remodeling","description":"The GO terms point to developmental processes (brain and male gonad development) and responses to estradiol, along with regulation of extracellular matrix turnover (ECM disassembly, collagen catabolic process, bone mineralization). Additional terms indicate immune and vascular remodeling (acute-phase response, regulation of coagulation, VEGF signaling, immune response to tumor cells). Together these suggest proteins involved in hormone-modulated development with roles in ECM remodeling and immune/inflammatory regulation.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0010716","count":1},{"id":"GO:0030502","count":1},{"id":"GO:0010711","count":1}]},{"hash":"1314325419417290473","title":"Organogenesis and Developmental Differentiation","description":"The cluster is dominated by GO terms related to embryonic and organ development and differentiation (placenta, endocrine system, pancreas, cartilage, trophoblast, EMT in heart cushion formation, left-right patterning). A few terms (ribosome biogenesis, gibberellin biosynthesis) are peripheral, but the core signal points to developmental programs governing tissue formation and lineage specification. ","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":3},{"id":"GO:0035270","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0060536","count":3}]},{"hash":"1343390973448213579","title":"Insect development and ecdysone signaling","description":"Terms cluster around developmental morphogenesis across multiple tissues (ventral midline, eye-antennal disc, gonads, muscles) and include cellular responses to ecdysone and hormone-mediated signaling. This points to a coherent theme of developmental regulation under ecdysone signaling, rather than a single pathway.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007418","count":1},{"id":"GO:0008628","count":1},{"id":"GO:0061040","count":1},{"id":"GO:1903212","count":1},{"id":"GO:0008346","count":1}]},{"hash":"1119524887030412930","title":"Transcription Regulation and Ubiquitin-Mediated Protein Modification","description":"This cluster's top GO terms center on regulation of DNA-templated transcription and general transcription activity, alongside multiple ubiquitin-related processes (deubiquitination and ubiquitin chain processing). There are also signals related to cell-cycle control and necroptosis, hinting at a broader regulatory network. The common thread appears to be transcriptional control coupled with ubiquitin-mediated protein modification, implying roles in coordinating gene expression via ubiquitination pathways.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:1901026","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0008277","count":3},{"id":"GO:0090035","count":2}]},{"hash":"898683903360647650","title":"Multiorgan Developmental Transcriptional Regulation","description":"The terms point to broad developmental processes across several organs (pituitary gland, pancreas, inner ear, muscle) and a core role in DNA-templated transcription, suggesting these proteins participate in generalized developmental transcription programs guiding organogenesis. While a few terms mention DNA transposition and integration, the dominant theme is developmental transcription across multiple tissues rather than a single specific pathway.","confidence":"Medium","size":18,"edges":20,"triangles":7,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021983","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0015074","count":3},{"id":"GO:0006313","count":3},{"id":"GO:0021913","count":3}]},{"hash":"1769298244353172855","title":"Cell Cycle Control via Ubiquitin and Neddylation","description":"The cluster is dominated by GO terms for ubiquitin-mediated proteolysis (SCF-dependent degradation, autoubiquitination, ERAD), protein neddylation, and mitotic events (G2/M transition, exit from mitosis, chromosome segregation), pointing to tight regulation of cell cycle through ubiquitin ligases and neddylation. Although a few terms like viral process and Fc-epsilon receptor signaling appear, the core pattern clearly reflects proteostasis linked to cell-cycle progression.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0070911","count":18},{"id":"GO:0051865","count":17},{"id":"GO:0031146","count":17},{"id":"GO:0007059","count":17},{"id":"GO:0030433","count":17}]},{"hash":"1424204089702980596","title":"Developmental signaling and organ morphogenesis","description":"This cluster is dominated by GO terms related to development across organs (heart, skeletal system, nervous system) and includes associated signaling processes (Rho signaling, calcium-dependent exocytosis). While there are some terms related to immune responses and other growth contexts, the strongest theme is developmental morphogenesis and tissue formation, suggesting the proteins work together in developmental signaling pathways and organ development.","confidence":"Medium","size":18,"edges":123,"triangles":444,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":12},{"id":"GO:0019233","count":11},{"id":"GO:0045956","count":10},{"id":"GO:0001501","count":10},{"id":"GO:0007266","count":10}]},{"hash":"787157746439313972","title":"Developmental cell cycle and signaling","description":"Top GO terms indicate a strong emphasis on DNA replication, transcription, and the centrosome cycle, pointing to cell cycle regulation. Coupled with development- and signaling-related terms (embryonic cranial skeleton morphogenesis, hippocampus development, angiogenesis, Wnt signaling, mast cell differentiation, CAMKK-AMPK), the cluster appears to group proteins that coordinate cell proliferation with developmental patterning and tissue morphogenesis. Therefore, Developmental cell cycle and signaling is a concise, representative label.","confidence":"High","size":18,"edges":54,"triangles":62,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":14},{"id":"GO:0006351","count":13},{"id":"GO:0048701","count":13},{"id":"GO:0007098","count":13},{"id":"GO:0010571","count":13}]},{"hash":"1081094889183405085","title":"Developmental Differentiation and Notch Signaling","description":"The cluster shows a cohesive emphasis on developmental processes and cell fate decisions, with terms like luteinization, Leydig cell differentiation, habenula development, and multicellular organism development, plus Notch signaling and DNA-templated transcription. This suggests a general theme of developmental regulation and differentiation rather than a single specific pathway. Some metabolic terms appear but seem secondary to the developmental signals. ","confidence":"Medium","size":18,"edges":9,"triangles":1,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0010259","count":4},{"id":"GO:0001553","count":4},{"id":"GO:0033327","count":4},{"id":"GO:0097053","count":4},{"id":"GO:0007219","count":4}]},{"hash":"2002332836640656545","title":"DNA Transposition and Developmental Morphogenesis","description":"Top GO terms show a strong emphasis on DNA integration, DNA transposition, and DNA-templated transcription, with translation also represented, while a smaller set of terms highlights developmental morphogenesis (antenna, otic vesicle, neural tube patterning, facial/bone morphogenesis). This suggests the cluster is driven by DNA transposition and transcriptional activity, with some involvement in developmental regulatory processes.","confidence":"Medium","size":18,"edges":63,"triangles":102,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0015074","count":7},{"id":"GO:0006313","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0006412","count":6},{"id":"GO:0007469","count":2}]},{"hash":"1775828305862561975","title":"Unknown","description":"The terms are scattered across muscle and heart development (myotome development, atrioventricular node cell development), neuronal regulation, transport and metabolic processes (phosphate ion transport, molybdopterin cofactor biosynthesis), and even obsolete biosynthetic terms, with no clear shared pathway or function. The cluster also has no edges or triangles, indicating a lack of connectivity that would define a cohesive biological module. Therefore, Unknown.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061055","count":2},{"id":"GO:0043524","count":2},{"id":"GO:0035435","count":2},{"id":"GO:0006777","count":2},{"id":"GO:0009086","count":2}]},{"hash":"747203209300366276","title":"Mitochondrial energy metabolism","description":"The terms point to core energy production and redox balance, including TCA cycle, glycolysis, mitochondrial electron transport, NADPH regeneration, and glutathione metabolism, with some mention of amino acid catabolism and a translation term that may reflect mitochondrial protein synthesis. Overall, the cluster reflects mitochondrial energy metabolism and related redox processes.","confidence":"High","size":18,"edges":150,"triangles":769,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":5},{"id":"GO:0006103","count":5},{"id":"GO:0006749","count":4},{"id":"GO:0006740","count":3},{"id":"GO:0002098","count":3}]},{"hash":"1117772203934345890","title":"Fatty acid oxidation and TCA cycle","description":"The GO terms point to core energy metabolism, with strong representation of fatty acid beta-oxidation, the tricarboxylic acid cycle, and related processes like succinyl-CoA metabolism and ketone body biosynthesis. This suggests a cohesive cluster centered on central carbon metabolism and energy production. Some terms such as liver/brain development, sporulation, and antibiotic biosynthesis may be secondary annotations or cross-species notes, but they do not override the dominant metabolic theme. The presence of response to starvation further supports an energy-management focus. ","confidence":"High","size":18,"edges":147,"triangles":729,"max_degree":17,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0001889","count":5},{"id":"GO:0042594","count":5},{"id":"GO:0046951","count":5},{"id":"GO:0006635","count":4},{"id":"GO:0006099","count":4}]},{"hash":"2042546361650659318","title":"Ecdysone-driven insect development and morphogenesis","description":"These terms cluster around insect development controlled by the ecdysone hormone (cellular response to ecdysone) and various morphogenetic processes (eye-antennal disc morphogenesis, ventral midline development, gonad morphogenesis, Malpighian tubule regulation). The presence of transcriptional as well as chromatin methylation regulation hints at coordinated gene expression and epigenetic control during metamorphosis. Thus the label captures hormone-regulated development and tissue morphogenesis.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0010216","count":3},{"id":"GO:0007418","count":2},{"id":"GO:0008628","count":2},{"id":"GO:0061040","count":2}]},{"hash":"839250016290088279","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":146,"triangles":715,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":12},{"id":"GO:0048026","count":12},{"id":"GO:0006283","count":11},{"id":"GO:0000464","count":11},{"id":"GO:0034475","count":11}]},{"hash":"1474309594755742091","title":"Lung branching morphogenesis and bone remodeling","description":"The top GO terms point to branching morphogenesis in the lung (GO:0060448, GO:0060441) and skeletal remodeling processes (GO:0001957 intramembranous ossification, GO:0045453 bone resorption, GO:0030574 collagen catabolic process), with additional cues from thyroid hormone response and bradykinin catabolism. Together, this suggests a cohesive module involved in tissue morphogenesis and extracellular matrix turnover across lung and bone contexts, rather than a single tissue-specific pathway.","confidence":"Medium","size":18,"edges":80,"triangles":114,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0060448","count":6},{"id":"GO:0051603","count":6},{"id":"GO:2000179","count":6},{"id":"GO:0001957","count":6},{"id":"GO:0060441","count":6}]},{"hash":"1593714487668147662","title":"Ubiquitin-dependent proteolysis and NF-kappaB signaling","description":"Proteins in this cluster are strongly linked to ubiquitin-mediated protein degradation (ubiquitin-dependent proteolysis, K6-linked ubiquitination) and signaling pathways such as NF-kappaB and JNK. The recurrent GO terms indicate a cohesive theme around ubiquitin-mediated regulation of protein turnover and inflammatory signaling, with additional links to chromatin dynamics via histone catabolism.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0090073","count":13},{"id":"GO:0046328","count":12},{"id":"GO:1903762","count":12},{"id":"GO:0009048","count":12}]},{"hash":"2137405882113790403","title":"Developmental signaling and polyamine metabolism","description":"The terms include developmental processes (angiogenesis, skeletal system development) and signaling regulators (ERK cascade, GTPase activity) alongside transcription, plus polyamine metabolism (putrescine, spermidine, spermine acetylation) and glucosamine metabolism. This suggests a theme of growth-related development tied to metabolic remodeling, with polyamine turnover supporting signaling and proliferation. Confidence: Medium.","confidence":"","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0043547","count":3}]},{"hash":"673121840255122871","title":"Meristem Growth and Chromatin Regulation","description":"This cluster features GO terms tied to meristem growth and identity (root meristem, vegetative meristem, trichome differentiation, meristem structural organization) along with chromatin- and replication-related processes (chromatin organization, chromatin assembly, pre-replicative complex assembly, DNA replication-dependent chromatin assembly). The convergence suggests a functional module where chromatin state and cell cycle regulation intersect during meristem development, guiding patterning and organ identity.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006335","count":2},{"id":"GO:0033674","count":2},{"id":"GO:0048496","count":2},{"id":"GO:0051661","count":2},{"id":"GO:0010449","count":1}]},{"hash":"1361558926319849743","title":"Neural development and organogenesis","description":"The top GO terms are dominated by neural development (forebrain development, neural tube closure) and broad multicellular development (skeletal system development, male gonad development, multicellular organism development), with DNA-templated transcription supporting general regulatory activity. A few terms related to defense and metal response appear but are less representative of the cluster\u2019s core function. Thus, the label captures the main theme of neural and embryonic development, with supportive broader developmental processes.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0071276","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0001501","count":2}]},{"hash":"664826950027830241","title":"Redox detox and glucocorticoid response","description":"This cluster centers on oxidative stress handling (cellular oxidant detoxification) and steroid signaling (response to glucocorticoid stimulus), with anti-inflammatory regulation, and includes differentiation and cell-cycle terms (muscle and fat differentiation; spindle assembly; regulation of the cell cycle). This suggests a coherent theme around redox balance coupled with growth/differentiation and stress hormone signaling.","confidence":"Medium","size":18,"edges":33,"triangles":28,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":6},{"id":"GO:0007289","count":5},{"id":"GO:0051225","count":5},{"id":"GO:0043403","count":4},{"id":"GO:0045444","count":4}]},{"hash":"337392987965852006","title":"GPCR Signaling: Adrenergic/Dopaminergic Pathways","description":"The cluster is dominated by GO terms for GPCR-mediated signaling (adrenergic and dopaminergic pathways) and downstream events such as protein phosphorylation and calcium channel regulation, plus related processes like morphine response, heart-rate modulation, eosinophil chemotaxis, and inflammatory signaling, indicating a cohesive GPCR signaling focus with related regulatory and immune links.","confidence":"High","size":18,"edges":18,"triangles":10,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071883","count":16},{"id":"GO:0043278","count":16},{"id":"GO:1901386","count":16},{"id":"GO:0007191","count":16},{"id":"GO:0048245","count":16}]},{"hash":"1124696542805373085","title":"Calcium-Driven Cardiac and Vascular Signaling","description":"The top GO terms cluster around calcium ion release into the cytosol, cardiac and vascular signaling (SA node conduction, vasopressin secretion, endothelial processes), and related multicellular signaling. While immune and telomere-related terms appear, the core theme is calcium-dependent signaling regulating heart and blood vessel function, justifying this label.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051209","count":8},{"id":"GO:0010745","count":8},{"id":"GO:0045083","count":7},{"id":"GO:0030103","count":7},{"id":"GO:0070213","count":7}]},{"hash":"1348517008842851595","title":"Golgi-ER vesicle trafficking","description":"The cluster is enriched for GO terms related to Golgi organization, protein transport, intra-Golgi vesicle-mediated transport, ER membrane fusion, and ER inheritance, indicating a cohesive theme of intracellular trafficking between ER and Golgi and vesicle trafficking machinery. Some terms (dsRNA transport, bitter taste detection, bicarbonate transport, steroid hormone response) are more peripheral and may reflect broader annotations in the protein set.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007030","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0006891","count":1},{"id":"GO:0033227","count":1},{"id":"GO:0016320","count":1}]},{"hash":"1605299890675158989","title":"Drosophila development and morphogenesis","description":"This cluster is dominated by GO terms related to insect development and morphogenesis, including ventral midline development, eye-antennal disc morphogenesis, and female gonad morphogenesis, along with cellular responses to the hormone ecdysone and hormone-mediated apoptotic signaling. These features point to a coherent theme of developmental remodeling and hormone signaling in Drosophila, despite a couple metabolic terms that appear less central. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":4},{"id":"GO:0090180","count":4},{"id":"GO:2001172","count":4},{"id":"GO:0007418","count":2},{"id":"GO:0008628","count":2}]},{"hash":"1305976402110455744","title":"Oxidative Stress and Transcription Regulation","description":"This cluster seems centered on cellular stress responses, especially oxidative stress (hydrogen peroxide), coupled with transcriptional regulation (DNA-templated transcription and its regulation), DNA damage signaling, ER stress-related translation control, and apoptosis modulation. The mixture suggests a coherent theme of how cells respond to stress by adjusting transcription, translation, and survival pathways.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070301","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0016576","count":2},{"id":"GO:0043278","count":2},{"id":"GO:0006355","count":2}]},{"hash":"188226956786596735","title":"Mitotic Cell Cycle and Golgi Retention","description":"The top GO terms point to mitosis and cell division (mitotic metaphase chromosome alignment, exit from mitosis, chromosome condensation, cell division) along with a Golgi retention process, suggesting proteins involved in mitotic progression and Golgi trafficking/retention rather than a single tight complex. The lack of edges among proteins supports a broad functional association rather than a tightly connected module, but the shared themes center on cell cycle regulation and Golgi-related maintenance.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045053","count":2},{"id":"GO:0007049","count":2},{"id":"GO:1902188","count":1},{"id":"GO:0007080","count":1},{"id":"GO:0010458","count":1}]},{"hash":"1707627176590204282","title":"Organogenesis and Tissue Development","description":"The top GO terms cluster around organ development and morphogenesis in diverse tissues (otic placode, lacrimal gland, nephron tubule, antennal development, skeletal muscle differentiation), with DNA-templated transcription indicating broad developmental gene regulation rather than a single tissue-specific function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043049","count":3},{"id":"GO:0032808","count":3},{"id":"GO:0090190","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0072289","count":3}]},{"hash":"1727418690110487638","title":"GTPase signaling\u2013driven cytoskeletal remodeling and migration","description":"The cluster shows strong enrichment for small GTPase\u2013mediated signaling, positive regulation of GTPase activity, actin cytoskeleton organization, integrin- and growth factor\u2013receptor signaling, and enrichment for fibroblast migration. This points to a cohesive theme of GTPase-driven cytoskeletal dynamics that regulate cell adhesion and movement, rather than a single isolated pathway.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0060396","count":3},{"id":"GO:0048009","count":3},{"id":"GO:0043314","count":3}]},{"hash":"1111946822562336891","title":"Unknown","description":"The GO terms are highly diverse, including plant-specific processes (abscisic acid homeostasis, chloroplast avoidance movement) and mammalian signaling pathways (VEGF signaling, HGF receptor signaling, integrin signaling, TNF/TNFSF11 production) plus developmental events, with no clear single function tying the cluster together. A meaningful specific label cannot be assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045035","count":1},{"id":"GO:0031022","count":1},{"id":"GO:1902265","count":1},{"id":"GO:0009903","count":1},{"id":"GO:1900748","count":1}]},{"hash":"1918220469000771371","title":"Retroviral entry, reverse transcription, and integration","description":"This cluster centers on viral entry, reverse transcription, and integration steps of a proviral lifecycle, as evidenced by GO terms for symbiont entry into host cells, RNA-templated DNA biosynthesis, and DNA integration. Additional terms related to proviral latency, interferon response, and apoptosis reflect host defense and viral-host interactions, supporting a cohesive retroviral biology theme rather than general cellular processes.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071346","count":2},{"id":"GO:0001666","count":2},{"id":"GO:0046718","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0006260","count":1}]},{"hash":"1810124833479343202","title":"Cell Cycle and Nucleotide Biosynthesis","description":"The top GO terms center on cell division and the cell cycle, including mitotic metaphase chromosome alignment, indicating a shared role in cell cycle progression. Additionally, multiple terms relate to pyrimidine nucleotide biosynthesis and related catabolic/biosynthetic processes (dUTP, dITP, dUMP, pyrimidine ribonucleotide biosynthesis), suggesting involvement in nucleotide metabolism during DNA replication and mitosis. Some terms (L-ascorbic acid biosynthesis; obsolete regulation of viral release) appear less coherent and may reflect annotation noise.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0019853","count":2},{"id":"GO:0006229","count":2},{"id":"GO:0046081","count":2}]},{"hash":"1121298602550912256","title":"Unknown","description":"The GO terms span a wide range of unrelated processes (neural development, transcription, immune function, cardiac activity, chromatin localization, metabolism), with only sporadic two-protein supports and no interaction network. This makes it impossible to derive a coherent, specific function for the cluster.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036289","count":2},{"id":"GO:0033564","count":2},{"id":"GO:0000077","count":2},{"id":"GO:0021859","count":2},{"id":"GO:0002377","count":2}]},{"hash":"1438873475813720964","title":"Unknown","description":"The GO terms are highly diverse with no single dominant function linking the proteins. They include xenobiotic transport, aminoacyl-tRNA synthetase activity, embryonic development, angiogenesis, mitochondrial DNA metabolism, interferon response, and host-virus interactions. While there is a weak hint of translation-related activity (tRNA aminoacylation), it is not sufficient to define a cohesive function for the cluster.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":2},{"id":"GO:0015966","count":1},{"id":"GO:0001525","count":1},{"id":"GO:0006436","count":1},{"id":"GO:0001701","count":1}]},{"hash":"1706012906525877347","title":"Ubiquitin-mediated degradation and ER stress response","description":"The cluster centers on ubiquitination and proteasomal degradation (K11-linked ubiquitination, ubiquitin-dependent protein catabolic process) and stress-responsive processes (response to unfolded protein, ER stress, and ER-stress\u2013related translation regulation), indicating a proteostasis-focused group. While there are transcription regulation and neuronal signaling terms present, they appear ancillary to the core proteostasis theme.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070979","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0006986","count":5},{"id":"GO:0042787","count":5},{"id":"GO:0051967","count":3}]},{"hash":"163096445746821150","title":"Proviral DNA Integration and Latency","description":"The top GO terms cluster around DNA integration and proviral latency, with related processes such as viral entry into the host nucleus, RNA-templated DNA synthesis, DNA replication, and recombination, plus suppression of host RNAi. This pattern points to a coherent functional theme of viral genome integration and maintenance within the host, i.e., proviral integration and latency, rather than a single host pathway. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":5},{"id":"GO:0046718","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0039651","count":2}]},{"hash":"1480817309054707889","title":"NF-\u03baB signaling and T cell regulation","description":"This cluster centers on NF-\u03baB\u2013driven immune signaling and transcriptional control, as shown by terms like activation of NF-\u03baB-inducing kinase, K63-linked ubiquitination, and immune-related regulation of T cells and chemokine production. LPS signaling and related pathways further support an immune/inflammatory theme, with ubiquitination acting as a regulatory mechanism. Some metabolic terms appear incidental, but the dominant pattern is immune signaling via NF-\u03baB. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":3},{"id":"GO:0090180","count":3},{"id":"GO:2001172","count":3},{"id":"GO:0032897","count":2},{"id":"GO:1903886","count":2}]},{"hash":"52177973075002698","title":"Cytoskeleton Dynamics and Cell Division","description":"Top GO terms cluster around sarcomere organization, intracellular transport, cleavage furrow formation, mitotic cycle and cytokinesis, and membrane remodeling, all pointing to cytoskeletal dynamics and cell division, with a few ancillary regulatory processes (GTPase activity, apoptotic membrane regulation, and mRNA translation). This suggests a core theme of cytoskeleton-driven division and membrane changes.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0036089","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0097320","count":2}]},{"hash":"309567854230968879","title":"T cell receptor signaling and NF-kappaB activation","description":"The top GO terms are centered on T cell receptor signaling and Th1-type immune responses, with key components of the NF-kappaB pathway (IKK activation, I-kappaB phosphorylation) and K63-linked ubiquitination, plus dendritic cell differentiation. While a couple terms (bone resorption, liver development, translation) are less directly connected, the dominant theme is T cell\u2013driven immune signaling and NF-kappaB activation.","confidence":"High","size":17,"edges":32,"triangles":4,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":2},{"id":"GO:0042088","count":2},{"id":"GO:0045453","count":2},{"id":"GO:1901407","count":2},{"id":"GO:0001889","count":2}]},{"hash":"39427288403744353","title":"Translation Initiation and Preinitiation Complex","description":"Most of the top GO terms are about translation initiation, reinitiation, IRES-dependent initiation, and assembly of the translation preinitiation complex, indicating the cluster's proteins are enriched for components of the translation machinery. A couple of terms about retina/visual perception and spindle organization appear but are likely incidental rather than core to the cluster's function. Therefore, the label reflects the central theme.","confidence":"High","size":17,"edges":25,"triangles":4,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0061298","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0007052","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0002188","count":2}]},{"hash":"1576508570309618884","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":59,"triangles":119,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":10},{"id":"GO:0007601","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0042068","count":7},{"id":"GO:1905608","count":7}]},{"hash":"1976739520132586266","title":"mRNA processing and translation initiation","description":"This cluster centers on RNA processing and translation control: splicing via the spliceosome, splice-site recognition, regulation of mRNA tailing and stability, and formation of the translation preinitiation complex. The shared themes suggest proteins involved in mRNA maturation and initiation of protein synthesis.","confidence":"High","size":17,"edges":15,"triangles":2,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0048026","count":8},{"id":"GO:0001731","count":8},{"id":"GO:0075525","count":7}]},{"hash":"312967324374774407","title":"Bone formation and ECM remodeling","description":"The cluster centers on skeletal morphogenesis and extracellular matrix remodeling, with clear signals from intramembranous and endochondral ossification, collagen catabolic activity, and proteolysis; some developmental and reproductive terms appear but are less representative.","confidence":"Medium","size":17,"edges":21,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":4},{"id":"GO:2000360","count":3},{"id":"GO:0043050","count":3},{"id":"GO:0035987","count":3},{"id":"GO:0001957","count":3}]},{"hash":"1286127068362093505","title":"Unknown","description":"The GO terms cover embryo implantation, memory and neurotransmission, neural development (myelination), kidney tubule development, bone formation, wound healing, and hypoxia response, with no single clear pathway linking them. This diversity makes it difficult to assign a cohesive, representative label with confidence.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0007566","count":4},{"id":"GO:0007613","count":3},{"id":"GO:0072221","count":3},{"id":"GO:0022011","count":3},{"id":"GO:0007269","count":3}]},{"hash":"75771632155532483","title":"Unknown","description":"The terms include apoptotic processes, neural tube closure, various developmental processes (cell morphogenesis, thymus and skeletal system development), B cell receptor signaling, innate immune response, and responses to toxins/drugs (cadmium, cocaine). There isn\u2019t a single cohesive biological function that ties these terms together, spanning development, immune signaling, apoptosis, and stress responses, so a unified label isn\u2019t clearly justifiable.","confidence":"","size":17,"edges":15,"triangles":1,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0000902","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0070059","count":2}]},{"hash":"926895694496404029","title":"Amino acid catabolism with fatty acid biosynthesis","description":"This cluster shows a strong representation of amino acid catabolic and related biosynthetic processes (threonine, lysine, histidine, alanine, kynurenine) alongside fatty acid biosynthesis, suggesting a core theme around amino acid metabolism coupled with lipid biosynthesis. Some terms like copper/nitrosative stress responses and lignin biosynthesis indicate broader stress- or organism-specific signals, but the dominant signal is amino acid catabolic metabolism linked to lipid production.","confidence":"Medium","size":17,"edges":89,"triangles":230,"max_degree":16,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0019518","count":6},{"id":"GO:0006633","count":5},{"id":"GO:0033512","count":4},{"id":"GO:0000105","count":4},{"id":"GO:0097053","count":4}]},{"hash":"1815896446992194407","title":"Unknown","description":"The proteins show a highly diverse set of GO terms (RNA stability regulation, epithelial polarity, calcium release, xenobiotic response, DNA transposition/recombination, cAMP signaling, membrane depolarization in cardiac tissue, GABA secretion, IL-12 regulation) with no unifying function, and the cluster has no edges or interactions (Edges 0), suggesting no cohesive biological theme. This makes a specific, representative label unlikely; thus Unknown with no confidence.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043488","count":3},{"id":"GO:0090162","count":3},{"id":"GO:0051209","count":3},{"id":"GO:0042493","count":2},{"id":"GO:0006313","count":2}]},{"hash":"1671463159492203794","title":"Neuronal development and differentiation","description":"This cluster shows strong enrichment for neural development terms: spinal cord motor neuron cell fate specification, lateral motor column neuron migration, motor neuron axon guidance, and cerebellar Purkinje cell differentiation, indicating a core theme of neural development and neuron specification. The presence of other terms (platelet aggregation, uterine epithelium development, sulfur oxidation, cell wall glucan biosynthesis, miRNA silencing, hepatocyte proliferation) suggests some functional diversity or annotation noise, but the dominant neural terms support the label.","confidence":"Medium","size":17,"edges":58,"triangles":106,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0070527","count":7},{"id":"GO:0021520","count":5},{"id":"GO:0035847","count":5},{"id":"GO:0019417","count":5},{"id":"GO:0097477","count":5}]},{"hash":"1085989432841396665","title":"Ubiquitin-Proteasome Proteolysis and Circadian Regulation","description":"This cluster shows strong enrichment for ubiquitin-dependent protein catabolic processes, including SCF-dependent proteasomal degradation and ERAD pathways, pointing to a core role in proteostasis. The presence of autoubiquitination, sumoylation, and cadmium-response terms suggests regulation of protein stability under stress, while circadian rhythm and mitotic checkpoint terms imply clock protein turnover and cell-cycle\u2013linked degradation. Overall, these proteins likely function in ubiquitin-mediated proteolysis with connections to circadian timing and stress responses.","confidence":"High","size":17,"edges":24,"triangles":4,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0031146","count":8},{"id":"GO:0071276","count":7},{"id":"GO:0030433","count":7},{"id":"GO:0042752","count":6}]},{"hash":"2171307729218251840","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":4,"triangles":1,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0070979","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0055114","count":3}]},{"hash":"1381524513213092641","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071456","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0051764","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0046677","count":1}]},{"hash":"2070679844312751912","title":"Mitochondrial translation and tRNA aminoacylation","description":"The top terms point to core translation processes and tRNA charging, especially mitochondrial variants (mitochondrial alanyl- and prolyl-tRNA aminoacylation) and regulation of translational fidelity, with supporting hints from mitochondrial DNA metabolism. This suggests the cluster reflects components of the mitochondrial translation machinery and its regulation, rather than general cellular stress responses. Some xenobiotic or developmental associations appear ancillary to the main theme.","confidence":"High","size":17,"edges":114,"triangles":419,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0006450","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0015966","count":1},{"id":"GO:0097056","count":1}]},{"hash":"1747736658190820938","title":"Retinoic acid\u2013driven vertebrate embryonic development","description":"The top GO terms cluster around retinol/retinal metabolism along with hindbrain and forebrain development, pattern formation, limb morphogenesis, and other organogenesis processes, pointing to retinoic acid signaling as a common driver of vertebrate embryonic development. While a few terms touch on other processes (endothelial proliferation, ureter maturation), their presence supports a broader RA-regulated developmental program. ","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":16},{"id":"GO:0042574","count":16},{"id":"GO:0030902","count":13},{"id":"GO:0009954","count":13},{"id":"GO:0001936","count":13}]},{"hash":"1318905870840387778","title":"Lipid Biosynthesis and Related Metabolic Processes","description":"The top GO terms converge on lipid biosynthesis and membrane-related metabolism, including unsaturated fatty acid biosynthesis, ergosterol biosynthesis regulation, and sphingolipid (MIPC) metabolism, with additional metabolic activities like nitrate assimilation and nitric oxide production. Some terms point to lipid-rich tissues (sebaceous gland differentiation, myelin maintenance), supporting a broader lipid/metabolic theme, though several terms are peripheral or cross-species. Overall, the cluster appears enriched for lipid metabolism and membrane lipid homeostasis, justifying this label with Medium confidence.","confidence":"Medium","size":17,"edges":15,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0006675","count":2},{"id":"GO:0006809","count":2},{"id":"GO:0006636","count":2}]},{"hash":"1189905090661678379","title":"Chromatin organization, nucleosome assembly, and histone modification","description":"Based on the GO terms, the cluster centers on chromatin-related processes: heterochromatin organization, nucleosome assembly, localization of proteins to chromatin, and histone methylation. Although some RNA processing terms are marked obsolete, the recurring theme is chromatin structure and histone modification, suggesting these proteins work together to organize chromatin and regulate nucleosome dynamics. ","confidence":"High","size":17,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070828","count":2},{"id":"GO:0097298","count":2},{"id":"GO:0071169","count":2},{"id":"GO:0098532","count":2},{"id":"GO:0016584","count":2}]},{"hash":"582503199019997897","title":"Endosomal Transport & Mitotic Cell Cycle","description":"The top GO terms cluster around endosome-to-lysosome/melanosome trafficking and mitotic cell cycle processes, with a few signaling and phagocytosis-related terms. This suggests a group of proteins tied to intracellular trafficking that interfaces with cell division and signaling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008333","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0035646","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0060684","count":1}]},{"hash":"696590439512152123","title":"Protein Ubiquitination and ERAD/Quality Control","description":"This cluster is dominated by GO terms related to ubiquitination and ER-associated degradation (ERAD), including protein ubiquitination and the ubiquitin-dependent ERAD pathway. Additional terms point to post-translational targeting to membranes and protein complex oligomerization, suggesting a common theme around ubiquitin-mediated protein processing, trafficking, and quality control. Some immune- or development-related terms appear as less central outliers, but the core signal aligns with proteostasis and protein regulation. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0060348","count":2},{"id":"GO:0045087","count":2}]},{"hash":"291457970959479565","title":"Neural Development and Growth Signaling","description":"The top GO terms cluster strongly around neural development (forebrain development, cerebellar cortex formation, Bergmann glial cell differentiation, multicellular organism development, axon regeneration) and are complemented by growth factor signaling pathways (ERK1/ERK2 cascade regulation, insulin receptor signaling). This suggests a coherent theme of brain development driven by signaling cascades that regulate differentiation and connectivity, with a few broader signaling terms included. ","confidence":"Medium","size":17,"edges":33,"triangles":64,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030900","count":8},{"id":"GO:0070374","count":7},{"id":"GO:0021697","count":7},{"id":"GO:0008285","count":7},{"id":"GO:0060020","count":7}]},{"hash":"857654721056244336","title":"Adrenergic and Dopaminergic GPCR Signaling","description":"The GO terms point strongly to GPCR-mediated signaling, especially adrenergic and dopamine receptor pathways, with downstream kinase and phosphorylation events (MAPK activation, protein phosphorylation) and regulation of vascular tone/blood pressure. While there are some outliers (e.g., an electron transport chain term), the dominant signal is GPCR-driven neuromodulatory and vascular signaling, justifying this label.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":13},{"id":"GO:0022900","count":13},{"id":"GO:0010579","count":13},{"id":"GO:0035025","count":12},{"id":"GO:0071883","count":11}]},{"hash":"2191874000816538703","title":"Cardiovascular adrenergic and dopaminergic GPCR signaling","description":"These proteins cluster around GPCR signaling pathways activated by adrenergic and dopaminergic receptors, including adenylate cyclase activation and MAPK signaling, linked to regulation of blood pressure and heart rate. Additional signals such as calcium channel modulation, protein phosphorylation, morphine response, and eosinophil chemotaxis reflect broader GPCR- and calcium-dependent signaling in cardiovascular and immune contexts. Overall, the cluster points to catecholamine-responsive GPCR signaling governing cardiovascular function.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":17},{"id":"GO:0022900","count":17},{"id":"GO:0010579","count":17},{"id":"GO:0071883","count":16},{"id":"GO:0043278","count":16}]},{"hash":"2104974250725122599","title":"Developmental transcriptional regulation and apoptosis","description":"The cluster centers on DNA-templated transcription and gene expression regulation, with frequent links to apoptosis, cell-cycle control, and developmental processes (neural tube closure, angiogenesis, fibroblast migration). This suggests a set of transcriptional regulators that influence development and cell fate decisions, including programmed cell death, even though there are no reported edges among members in this dataset.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0045766","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0045736","count":2}]},{"hash":"1269803334046607495","title":"DNA replication and recombination","description":"This cluster is dominated by DNA metabolism terms: DNA recombination (7), DNA replication (4), and RNA-templated DNA biosynthetic process (3), pointing to proteins involved in genome duplication and rearrangement. Additional terms reflect stress responses and cell-cycle coordination, but the strongest signal is DNA replication/recombination, suggesting a cluster of replication/repair factors.","confidence":"High","size":17,"edges":8,"triangles":0,"max_degree":3,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":7},{"id":"GO:0006260","count":4},{"id":"GO:0006278","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0045454","count":3}]},{"hash":"1286105084238478184","title":"Endomembrane trafficking and ubiquitination","description":"Most terms point to vesicle sorting and transport within the endomembrane system (Golgi to ER, early-to-late endosomes, multivesicular bodies) and to protein ubiquitination, suggesting a cluster centered on intracellular trafficking and membrane-associated protein modification. The signaling terms (NF-kappaB and JNK) may reflect cross-talk with these processes but do not define the core theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043124","count":4},{"id":"GO:0051835","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0045022","count":3}]},{"hash":"2038983580151135975","title":"Innate immune signaling and inflammation","description":"The top terms center on innate immune activation and inflammatory pathways (innate immune response, MyD88-dependent TLR signaling, LPS signaling, TNF response, inflammatory response). Apoptosis is mentioned but less central, and several terms are broad cellular processes. Taken together, the cluster appears to group proteins involved in innate immune signaling and inflammatory responses.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0002755","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0031663","count":2}]},{"hash":"803343536623823121","title":"Cofactor and vitamin biosynthesis","description":"The top GO terms cluster around biosynthetic processes for cofactors and vitamins (heme via protoporphyrinogen IX, menaquinone, thiamine, biotin, molybdopterin, PQQ) and related RNA modification, suggesting these proteins participate broadly in diverse cofactor/vitamin biosynthesis pathways rather than a single function.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006782","count":3},{"id":"GO:0009234","count":2},{"id":"GO:0018339","count":2},{"id":"GO:0009228","count":2},{"id":"GO:0019475","count":2}]},{"hash":"662211986549762165","title":"Regulatory and Metabolic Processes","description":"The cluster mixes terms tied to transcriptional and kinase regulation (negative regulation of RNA Pol II transcription, negative regulation of kinase activity) with several metabolic pathways (galactose, inositol, heme catabolic, hyaluronan biosynthesis). While some GO terms are obsolete, the common theme appears to be proteins involved in regulating gene expression alongside metabolic processes, rather than a single specific pathway. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0000122","count":3},{"id":"GO:1900127","count":2},{"id":"GO:0042167","count":2}]},{"hash":"565948379597441812","title":"Ubiquitin-Dependent Protein Degradation","description":"The top terms are dominated by ubiquitination and ubiquitin-dependent protein catabolic processes, including K6-linked ubiquitination, pointing to a core function in ubiquitin-mediated protein turnover. Some terms are obsolete or peripheral (histone modification regulation, TNF signaling, JNK regulation), but the dominant theme remains proteostasis via ubiquitination. Therefore this label captures the primary function of the cluster.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0085020","count":2},{"id":"GO:2000620","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0070512","count":2},{"id":"GO:0042276","count":2}]},{"hash":"208701003007163583","title":"Angiogenesis and ECM remodeling","description":"This cluster is dominated by GO terms linking blood vessel formation (angiogenesis), plasminogen activation, and elastic fiber assembly, pointing to vascular development and extracellular matrix remodeling. Additional terms related to mesenchymal-epithelial signaling and hormone secretion suggest broader developmental and signaling roles, but the strongest, recurring themes are angiogenesis and ECM remodeling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031639","count":1},{"id":"GO:0001525","count":1},{"id":"GO:0060739","count":1},{"id":"GO:0090277","count":1},{"id":"GO:0048251","count":1}]},{"hash":"547552133662738684","title":"Vesicle Trafficking and Golgi Transport","description":"The terms point to a common theme of intracellular membrane trafficking, including endocytosis, vesicle budding and transport (anterograde and retrograde), endosome-to-Golgi routing, and Golgi localization, with additional hints from pigmentation-related organelles and neuronal development in Purkinje cells. Together these suggest a cluster of proteins involved in vesicle trafficking and membrane routing across secretory and endocytic pathways, including neuron-specific trafficking contexts.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043473","count":1},{"id":"GO:0048490","count":1},{"id":"GO:0016185","count":1},{"id":"GO:0009615","count":1},{"id":"GO:0006623","count":1}]},{"hash":"2017020427441231984","title":"Neural development and transcriptional regulation","description":"Dominant terms center on brain development and neuronal signaling, alongside DNA-templated transcription and chromatin modification (H3-K9 methylation) with protein ubiquitination, indicating a cluster of proteins involved in neural development through transcriptional control and protein turnover. While there are a few broader developmental terms (lens differentiation, growth hormone response), the core theme remains neural development and gene regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0051567","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0090305","count":1},{"id":"GO:0023041","count":1}]},{"hash":"545363325570360860","title":"FGF-ERK signaling in angiogenesis and development","description":"This cluster centers on angiogenesis and broader developmental processes modulated by fibroblast growth factor receptor signaling and the MAPK/ERK cascade. The top GO terms include angiogenesis, positive regulation of ERK1/ERK2 cascade, and positive regulation of MAPKKK cascade by FGF signaling, plus endothelial chemotaxis to FGF. Additional terms point to organogenesis such as lung-associated mesenchyme development, organ induction, nervous system development, and multicellular organism development. Together these suggest a cohesive theme of FGF-driven signaling promoting vascular growth and tissue development.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":2},{"id":"GO:0090080","count":2},{"id":"GO:0045944","count":2},{"id":"GO:2000546","count":2},{"id":"GO:0000187","count":2}]},{"hash":"1605452644112665357","title":"Cell Division and Development Processes","description":"The top GO terms center on cell division and proliferation (cell division, mitotic spindle assembly, positive regulation of proliferation) and development (multicellular organism development, ovulation), with additional associations to ribosome maturation and vesicle transport. This suggests a cluster tied to fundamental cellular machinery and developmental contexts rather than a single specific pathway, hence a label focusing on division and development. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008284","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0003100","count":2},{"id":"GO:0007584","count":2},{"id":"GO:0001542","count":2}]},{"hash":"1206147113254860593","title":"Proliferation and Cytoskeletal Signaling","description":"The terms point to coordinated growth and remodeling: cell division and proliferation indicate growth, while actin filament bundle assembly and cell migration reflect cytoskeletal dynamics; these are driven by signaling inputs such as GTPase activity, tyrosine phosphorylation, and TGF-beta\u2013related responses. Calcium release and cadmium response suggest signaling and stress integration that can influence both growth and cytoskeletal changes. The retina development term appears as a developmental context rather than a dominant theme, but overall the cluster centers on proliferation coupled with cytoskeletal remodeling and related signaling. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0060041","count":3}]},{"hash":"349720219840065569","title":"mRNA processing, splicing, and export regulation","description":"This cluster centers on post-transcriptional RNA processing: spliceosome-mediated mRNA splicing, mRNA export from the nucleus, and regulation of poly(A) tail length and mRNA stability, with additional hints of miRNA-mediated translational silencing. Taken together, the proteins likely form or interact with the mRNA maturation and export machinery and coordinately regulate RNA fate under stress.","confidence":"High","size":16,"edges":96,"triangles":344,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0075525","count":1},{"id":"GO:0006376","count":1},{"id":"GO:0060211","count":1},{"id":"GO:0045292","count":1},{"id":"GO:0006378","count":1}]},{"hash":"199613733312189138","title":"Unknown","description":"The GO terms are highly diverse, including transcription regulation, nematode development, cuticle/molting processes, DNA transposition/integration, tRNA modification, and even a few unrelated terms. There is no clear, single biological function or theme tying these proteins together, so a cohesive cluster label cannot be confidently assigned.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0007313","count":2},{"id":"GO:0043050","count":2},{"id":"GO:0018996","count":2},{"id":"GO:0015074","count":2}]},{"hash":"40927726590893616","title":"Embryonic tissue differentiation and neural fate specification","description":"The cluster is enriched for transcription-related GO terms and differentiation programs across skeletal muscle, endocrine pancreas, bronchiole development, and multiple neural lineages (spinal motor neurons, cortical GABAergic interneurons, oligodendrocytes). This points to a role in coordinating developmental fate decisions across tissues, especially neural lineage specification, rather than a single tissue-specific function.","confidence":"Medium","size":16,"edges":118,"triangles":533,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":10},{"id":"GO:0035914","count":9},{"id":"GO:0031018","count":9},{"id":"GO:0006351","count":8},{"id":"GO:0071353","count":7}]},{"hash":"906615282986342146","title":"Chromatin remodeling and transcription regulation","description":"The cluster's terms center on chromatin dynamics and transcription control: CENP-A\u2013containing chromatin assembly, chromatin localization, nucleosome mobilization, and DNA-templated transcription, with a component of transcriptional regulation by RNA Pol II and DNA transposition-related activity. This combination points to chromatin remodeling and transcription regulation as the defining theme.","confidence":"High","size":16,"edges":92,"triangles":275,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0015074","count":7},{"id":"GO:0006313","count":6},{"id":"GO:0000122","count":5},{"id":"GO:0071392","count":4},{"id":"GO:0006351","count":3}]},{"hash":"569436104925058031","title":"Unknown","description":"These 16 proteins show a diverse, non-overlapping set of GO terms (retinol/retinal metabolism, L-serine biosynthesis, lipopolysaccharide biosynthesis, lung development, antibiotic biosynthesis, androgen metabolism, vacuole organization, response to cAMP, etc.), spanning metabolism, development, signaling, and organelle processes across different contexts. There isn\u2019t a single coherent function or pathway tying them together, so a meaningful specific label cannot be inferred. ","confidence":"","size":16,"edges":28,"triangles":17,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0042572","count":4},{"id":"GO:0009103","count":4},{"id":"GO:0042574","count":4},{"id":"GO:0006564","count":4}]},{"hash":"507403806879241042","title":"Diverse Metabolic Pathways","description":"The top GO terms point to several distinct metabolic processes (glycolysis, spermidine biosynthesis, dihydrolipoamide metabolic process, 2-oxoglutarate metabolic process, and protoporphyrinogen IX biosynthesis). There are also environmental response terms, but no single pathway dominates the cluster. This suggests the proteins cluster around general metabolism rather than a single defined function, justifying a broad label like this.","confidence":"Medium","size":16,"edges":13,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0008295","count":1},{"id":"GO:0006096","count":1},{"id":"GO:0051068","count":1},{"id":"GO:0006782","count":1},{"id":"GO:0010044","count":1}]},{"hash":"804952414943366800","title":"Diverse Metabolic and Detoxification Processes","description":"This cluster\u2019s top GO terms predominantly point to varied small-molecule metabolism (methanol, methane, cholesterol, glycine betaine) and oxidant detoxification, suggesting a functional theme around metabolic enzymes and redox-related detoxification, despite sparse connectivity and some obsolete terms that may reflect annotation noise.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0001701","count":2},{"id":"GO:0019285","count":2},{"id":"GO:0015945","count":2}]},{"hash":"623683780613086216","title":"Unknown","description":"The top GO terms are heterogeneous across transcription, DNA recombination/integration, metabolism, and developmental processes, with no clear shared function linking all proteins. Therefore, no coherent cluster label can be assigned.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":3},{"id":"GO:2001172","count":3},{"id":"GO:0090180","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0015074","count":2}]},{"hash":"479953271126898566","title":"Embryonic organ morphogenesis","description":"Top GO terms point to development and morphogenesis across multiple organs during embryogenesis (pancreas, heart, eye, hindlimb, gonad, habenula, etc.), with added hints of transcriptional regulation and growth. This suggests the cluster groups proteins involved in broad embryonic organogenesis rather than a single pathway.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061113","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0035116","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1777693076860300851","title":"Ribosome Biogenesis and Transcription Regulation","description":"The cluster is enriched for ribosome biogenesis and transcription activities across RNA polymerases I, II, and III, along with mRNA export from the nucleus and negative regulation of RNAP II. This points to a nucleolar/nuclear program coordinating ribosome assembly with transcription and RNA export, suggesting the proteins function together in ribosome production and transcription regulation processes.","confidence":"High","size":16,"edges":57,"triangles":79,"max_degree":12,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0006406","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0042176","count":3},{"id":"GO:0001172","count":2}]},{"hash":"2053305913660316403","title":"Developmental signaling and morphogenesis","description":"The top GO terms point to various developmental processes (nervous, limb/wing morphogenesis, adipogenesis, somitogenesis) and signaling pathways (Wnt, activin receptor) with regulatory roles. There is no single tissue but a common theme of development and cell differentiation guided by signaling cascades. Thus a label focusing on developmental signaling and morphogenesis fits best.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021762","count":2},{"id":"GO:0007286","count":2},{"id":"GO:0035317","count":1},{"id":"GO:0098908","count":1},{"id":"GO:0001525","count":1}]},{"hash":"1991808584953810810","title":"Vertebrate Development and Cell Proliferation","description":"The top GO terms cluster around vertebrate development across multiple tissues (heart, skeletal system, neural tube, hippocampus) and overall multicellular organism development, with concurrent cell-cycle and transcriptional activity. This suggests proteins involved in developmental regulation and proliferation rather than a single pathway, justifying a label focused on development plus cell division. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0097194","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0090307","count":4},{"id":"GO:0001501","count":4}]},{"hash":"1823461532452556904","title":"Cofactor biosynthesis and core cellular processes","description":"This cluster centers on biosynthetic processes for cofactors (menaquinone and biotin) and components of basic cellular machinery, including tRNA methylation, DNA replication, cell division, and SRP-dependent protein targeting to membranes, plus transcription regulation. Some terms (IL-1 response, ubiquitin-dependent ERAD) appear as noise or cross-species annotations, but the dominant themes reflect metabolism and fundamental gene expression/replication activities.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0070555","count":3},{"id":"GO:0009102","count":3}]},{"hash":"545314851415925989","title":"Pyrimidine Nucleotide Metabolism","description":"The GO terms are predominantly centered on pyrimidine nucleotide metabolism: dUTP biosynthesis, dUTP catabolism, dITP catabolic process, dUMP biosynthesis, and overall pyrimidine ribonucleotide biosynthetic process. This points to a shared role in synthesizing and balancing pyrimidine nucleotides. Additional terms related to DNA-templated transcription and stress responses appear less prominently, likely reflecting other functions of the included proteins or annotation noise.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006229","count":5},{"id":"GO:0046081","count":5},{"id":"GO:0009220","count":5},{"id":"GO:0035863","count":5},{"id":"GO:0006226","count":5}]},{"hash":"1257305924204844913","title":"Translation Initiation Regulation and Inflammatory Signaling","description":"This cluster is named for its strongest signals around translation initiation: GO:0006446 and GO:0001731 indicate initiation regulation and preinitiation complex assembly. It also includes multiple signaling terms tied to stress and innate immunity (JNK cascade, IL-1- and LPS-mediated signaling) and apoptosis/damage response terms. Together these suggest a functional group of proteins that couple translational control with stress- and inflammation-related signaling pathways, rather than a single, isolated process. Some terms are marked obsolete, reflecting annotation updates, but the core theme remains translational regulation intersecting inflammatory signaling.","confidence":"Medium","size":16,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0046330","count":2},{"id":"GO:0048148","count":2},{"id":"GO:0070498","count":2}]},{"hash":"906684674945953791","title":"Drosophila germline development and miRNA processing","description":"The top GO terms cluster around germline development processes (germarium-derived female germ-line cyst formation, pole cell formation, megasporocyte differentiation) and RNA processing (pre-miRNA and primary miRNA processing, mRNA deadenylation regulation), with supporting signaling context (Wnt and PI-mediated signaling) and dosage compensation in Drosophila. This suggests a cohesive theme of Drosophila germline development coupled with RNA biogenesis/processing regulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007223","count":2},{"id":"GO:0048015","count":2},{"id":"GO:0009047","count":1},{"id":"GO:0031054","count":1},{"id":"GO:0060213","count":1}]},{"hash":"1511640398731066821","title":"Embryonic development and morphogenesis","description":"This cluster centers on developmental processes and tissue shaping, with GO terms for gastrulation, axis elongation, convergent extension, organogenesis, pancreas development, and muscle cell migration, plus related growth regulation. The common theme is embryonic development and morphogenesis across multiple tissues.","confidence":"High","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042074","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0014812","count":1},{"id":"GO:0060028","count":1},{"id":"GO:0031016","count":1}]},{"hash":"624992035746984358","title":"Dopaminergic signaling and neural drug response","description":"These proteins co-occur with strong enrichment for neural signaling and drug-response terms: dopaminergic synaptic transmission, behavioral response to cocaine, morphine response, visual perception/learning, and ERK cascade regulation. Together they suggest a cluster centered on brain signaling and reward-related pathways, with modulation of sensory processing and drug responses. The unrelated terms (macrophage chemotaxis, heart development) may reflect broader, pleiotropic roles across tissues.","confidence":"High","size":16,"edges":8,"triangles":3,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010759","count":11},{"id":"GO:0048148","count":11},{"id":"GO:0007507","count":11},{"id":"GO:0007601","count":11},{"id":"GO:0008542","count":11}]},{"hash":"1146057487492396395","title":"Retroviral entry, reverse transcription, and proviral latency","description":"The cluster is dominated by GO terms tied to retroviral infection and integration processes: entry into the host cell, penetration into the nucleus, reverse transcription (RNA-templated DNA synthesis), DNA integration, and establishment of proviral latency. Additional terms about DNA recombination, replication, and host defense modulation (siRNA processing) further support a retroviral life cycle theme, with some host apoptosis activation often seen in virus-host interactions. This makes the proposed label specific and representative.","confidence":"High","size":16,"edges":74,"triangles":147,"max_degree":13,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":10},{"id":"GO:0046718","count":8},{"id":"GO:0075732","count":8},{"id":"GO:0006260","count":8},{"id":"GO:0075713","count":7}]},{"hash":"1354920088515563146","title":"Mitochondrial Energy Metabolism","description":"The terms cluster around metabolic regulation and mitochondrial energy production: mitochondrial electron transport (NADH to ubiquinone) and respiratory chain complex II assembly, plus various metabolism-related processes (thiamine biosynthesis regulation, glycolytic fermentation to ethanol, CoA catabolic process, isopentenyl diphosphate biosynthesis). While a couple of annotations are unrelated, the dominant theme is metabolism with a mitochondrial energy focus.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:2001172","count":2},{"id":"GO:0001935","count":1},{"id":"GO:0006313","count":1}]},{"hash":"968655527992657379","title":"Neural development and cytoskeletal dynamics","description":"The Top Terms center on neural development (neuroblast proliferation, CNS neuron axonogenesis, neuron migration) and cytoskeletal/microtubule processes (microtubule nucleation, spindle orientation, GTPase activity), suggesting a cohesive theme of neural development coupled with cytoskeletal regulation. Some terms also reflect general morphogenesis, but the neural-focused terms predominate, supporting this label.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":2},{"id":"GO:0003344","count":2},{"id":"GO:0097421","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000132","count":1}]},{"hash":"271582953126355617","title":"Diverse Transmembrane Transporters","description":"The top GO terms point to transmembrane transport activities for varied substrates (xenobiotics, nitrate, sugars like galactose and arabinose, ions Na+/K+, vitamins) and nitrate assimilation. This suggests a cluster of membrane transporter proteins with broad substrate specificity, rather than a single substrate or pathway. Therefore the label \u201cDiverse Transmembrane Transporters\u201d captures the common function represented.","confidence":"High","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":2},{"id":"GO:0015706","count":2},{"id":"GO:0042891","count":2},{"id":"GO:0015757","count":2},{"id":"GO:0071805","count":2}]},{"hash":"1312074554609520697","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":3},{"id":"GO:0006261","count":3},{"id":"GO:0000738","count":3},{"id":"GO:0090502","count":3},{"id":"GO:0006281","count":2}]},{"hash":"836286945810381634","title":"Mitosis and APC/C-Dependent Ubiquitination","description":"The top GO terms point to mitotic processes (mitotic cell cycle, cell division, APC/C-dependent catabolic process) and ubiquitin-related regulation (K11-linked ubiquitination, ubiquitin-dependent ERAD). Additional signals include chromatin and RNA methylation hints (H3-K79 methylation, RNA guanine-N7 methylation) and protein interactions (protein homooligomerization), suggesting a cluster of proteins coordinating mitosis with ubiquitin-mediated proteolysis and chromatin-related control.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":2},{"id":"GO:0036265","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0031145","count":2}]},{"hash":"558113978956388579","title":"TNF/NF-\u03baB signaling and ubiquitination","description":"The top GO terms point to a cohesive inflammatory signaling module centered on TNF-mediated NF-\u03baB activation, including I\u03baB phosphorylation, and regulation by ubiquitination (including K63-linked), as well as innate immune response. Despite no physical edges, the functional theme is clear: TNF/NF-\u03baB pathway regulation and ubiquitin-mediated signaling. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0007250","count":14},{"id":"GO:0033209","count":14},{"id":"GO:0051865","count":14},{"id":"GO:1903721","count":14},{"id":"GO:0045087","count":14}]},{"hash":"1651110233215263276","title":"Immune-Neuronal Signaling Modulators","description":"Top GO terms point to innate immune receptor signaling (TLR3/7/9; Fc\u03b5 receptor) and axonogenesis, with additional hints of signaling regulation and transport. This combination suggests proteins that broadly modulate signaling in immune and neural development contexts, rather than a single, cohesive pathway. Confidence reflects moderate evidence for a shared regulatory theme across these terms.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007409","count":3},{"id":"GO:0006469","count":2},{"id":"GO:0034138","count":2},{"id":"GO:0034154","count":2},{"id":"GO:0034162","count":2}]},{"hash":"1758964527390854626","title":"Multitissue Development and Nuclear Transport","description":"The cluster centers on broad developmental processes across tissues (skin, spinal cord, multicellular organism development) and includes nucleocytoplasmic transport activities (nuclear pore localization, mRNA export). Additional terms point to ER-stress\u2013related apoptosis and growth hormone responses, suggesting a mix of development-related and general cellular regulation. With no detected edges among members, the common theme is broad developmental programs with supporting transport-related functions rather than a single cohesive pathway.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":2},{"id":"GO:0070059","count":2},{"id":"GO:0031081","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0007275","count":2}]},{"hash":"207407646230599618","title":"Adrenergic GPCR-MAPK signaling","description":"Most terms point to GPCR-mediated signaling and downstream MAPK/Rho pathways (adrenergic receptor signaling, ERK cascade, GTPase regulation). The presence of blood pressure regulation and morphine response suggests vascular/neuronal contexts, with calcium channel modulation as a downstream effect. Taken together, the cluster seems to represent Adrenergic GPCR-MAPK signaling in cardiovascular/neuronal settings.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":7},{"id":"GO:0010579","count":7},{"id":"GO:0070374","count":7},{"id":"GO:0045777","count":7},{"id":"GO:0043547","count":7}]},{"hash":"1327220885793403202","title":"Neuronal development and axon guidance","description":"The top GO terms are dominated by neuron-related processes: trigeminal ganglion development, axonogenesis, and sympathetic neuron projection extension, pointing to a shared role in neural development and axon pathfinding. Some terms appear unrelated or obsolete (e.g., histone methylation, VEGF signaling, ethanol fermentation), likely due to annotation noise or cross-species data, but the core signal supports a neural development theme.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007338","count":3},{"id":"GO:0061551","count":3},{"id":"GO:0036124","count":2},{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2}]},{"hash":"1194793405958680334","title":"Glycinergic Synaptic Transmission and Serotonin Regulation","description":"This cluster's dominant terms describe glycinergic synaptic transmission and related glycine transport, alongside serotonin secretion and uptake, pointing to a neuronal signaling module centered on inhibitory glycine signaling with associated monoaminergic regulation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0006541","count":3},{"id":"GO:0014064","count":2},{"id":"GO:0060092","count":2},{"id":"GO:0051610","count":2}]},{"hash":"695978970908623913","title":"Vascular and Cardiac Signaling with Pain/Temperature Response","description":"Top terms suggest a cluster centered on cardiovascular signaling (vasopressin secretion, endothelial remodeling, SA node action potential regulation) and calcium signaling, with concurrent links to nociception and thermosensation (pain, capsazepine, cold, brown fat regulation). This points to a cohesive theme of autonomic cardiovascular signaling intertwined with sensory/thermoregulatory responses, hence a vascular/cardiac signaling cluster with pain/temperature response. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030103","count":5},{"id":"GO:0097497","count":5},{"id":"GO:0098907","count":5},{"id":"GO:0048265","count":5},{"id":"GO:1901594","count":5}]},{"hash":"1732342185416263826","title":"Histone modification and nucleosome assembly","description":"The most represented GO terms are histone modifications (H3K27 acetylation/trimethylation and H3K4 methylation) and nucleosome assembly, indicating a chromatin-regulating cluster involved in modifying histones and assembling nucleosomes to control gene expression, with some related terms touching on chromatin maintenance and transcription-related processes.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901674","count":2},{"id":"GO:0098532","count":2},{"id":"GO:0060669","count":2},{"id":"GO:0080182","count":2},{"id":"GO:0044648","count":2}]},{"hash":"1875527360517473964","title":"Unknown","description":"The top GO terms are scattered across diverse processes (lymphangiogenesis, DNA integration, synaptic plasticity, ADP-ribosylation, ceramide biosynthesis, microvillus localization, morphogenesis, unfolded protein response, telomere maintenance), and there are no connecting edges or a dominant shared function, so a coherent label cannot be inferred.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901491","count":2},{"id":"GO:0015074","count":1},{"id":"GO:0051835","count":1},{"id":"GO:0070213","count":1},{"id":"GO:2000303","count":1}]},{"hash":"431758323517766042","title":"Cellular stress signaling and apoptosis","description":"This cluster centers on stress-responsive pathways: responses to mechanical and xenobiotic stimuli, positive regulation of the JNK cascade, and hepatocyte apoptotic processes. Additional terms like ubiquitination and ribosomal subunit export suggest coordinated regulation of protein turnover and nucleocytoplasmic transport during stress and development. Overall, the proteins likely participate in signaling pathways that govern cellular stress responses and apoptosis, with some developmental context.","confidence":"Medium","size":15,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":2},{"id":"GO:0007411","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0000056","count":2},{"id":"GO:0035690","count":2}]},{"hash":"1181607839650011146","title":"Cellular stress response and signaling","description":"The top GO terms show multiple stress-related processes (redox homeostasis, heat response, mechanical stimulus) alongside signaling-related terms (cell surface receptor signaling, Notch pathway regulation, receptor internalization) and mRNA stability regulation. This mix suggests a cluster of proteins involved in responding to cellular stress and modulating signaling rather than a single, tight biological process. A few terms are tissue-specific (retina vasculature development, paranodal junction assembly), but the dominant pattern centers on stress response and signal transduction.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0043488","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0009408","count":2},{"id":"GO:0061298","count":1}]},{"hash":"337021500891653053","title":"EMT and Wnt Signaling Regulation","description":"Top terms show epithelial-mesenchymal signaling and positive regulation of canonical Wnt signaling, indicating a core role in development and cell fate decisions. Additional terms point to broader cellular organization and division processes (anatomical structure arrangement, Golgi vesicle budding, mitotic cleavage furrow ingression), suggesting the proteins coordinate signaling with cell architecture and division.","confidence":"Medium","size":15,"edges":52,"triangles":76,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060684","count":15},{"id":"GO:0032949","count":15},{"id":"GO:0071701","count":15},{"id":"GO:0021766","count":15},{"id":"GO:0090263","count":15}]},{"hash":"760838531807845280","title":"TGF-\u03b2/BMP/SMAD Signaling Regulation","description":"Most terms cluster around negative regulation of TGF-\u03b2 receptor signaling, BMP signaling, and SMAD complex assembly, with a supporting theme of cellular response to TGF-\u03b2 and related pathways. While a few terms reference photosystem or plant development, the dominant pattern is regulation of TGF-\u03b2/BMP/SMAD signaling, implying the proteins act as upstream modulators dampening these signaling cascades.","confidence":"Medium","size":15,"edges":7,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030512","count":6},{"id":"GO:0030514","count":5},{"id":"GO:0010991","count":5},{"id":"GO:0000173","count":4},{"id":"GO:0042006","count":4}]},{"hash":"865612294980467651","title":"Unknown","description":"The terms span cell cycle (DNA replication, G1/S transition, kinetochore localization), ECM interactions and remodeling (integrin signaling, hyaluronan metabolism, metallopeptidase activity), immune/stress responses (amino acid starvation, LPS response), and neural signaling (glutamatergic transmission, cocaine response), with no clear single biological theme connecting all proteins. Therefore there isn\u2019t a coherent shared function to name this cluster.","confidence":"","size":15,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034198","count":4},{"id":"GO:0007229","count":3},{"id":"GO:0030212","count":3},{"id":"GO:1905050","count":3},{"id":"GO:0071222","count":3}]},{"hash":"141227276022271824","title":"Ribosome and translation machinery","description":"The top GO terms revolve around translation across cytosolic and mitochondrial contexts, including initiation, termination, and ribosomal large subunit assembly, plus translation fidelity and preinitiation complex regulation. This points to proteins that form or regulate the core protein synthesis machinery and ribosome biogenesis, with secondary signals like antibiotic response or growth factor stimuli being less defining. ","confidence":"High","size":15,"edges":104,"triangles":442,"max_degree":14,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0002181","count":3},{"id":"GO:0032543","count":3},{"id":"GO:0000027","count":3},{"id":"GO:1990090","count":2}]},{"hash":"1599742526874899790","title":"Ubiquitin-Dependent NF-\u03baB Signaling in Innate Immunity","description":"The terms cluster around ubiquitin-driven protein catabolism, histone ubiquitination, and activation/regulation of NF-\u03baB and TNF signaling, all converging on innate immune responses; this suggests a role in ubiquitination-modulated NF-\u03baB signaling within innate immunity.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0007250","count":7},{"id":"GO:0070535","count":7},{"id":"GO:0033209","count":7},{"id":"GO:0051865","count":7}]},{"hash":"157947287620765528","title":"Unknown","description":"The top GO terms span DNA replication, nuclear fusion (karyogamy), cell morphogenesis, protein refolding, ER-Golgi transport, synaptic activity, iron-sulfur cluster assembly, and regulation of heat response, which are diverse and not obviously connected by a single shared function. There isn\u2019t a clear unifying theme tying these proteins together, so a specific, cohesive label is not supported. Confidence: None.","confidence":"","size":15,"edges":39,"triangles":65,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0000742","count":6},{"id":"GO:0000902","count":5},{"id":"GO:0070389","count":5},{"id":"GO:0006888","count":4}]},{"hash":"888312104241270261","title":"Translation and Ribosome Dynamics","description":"The dominant GO terms center on translation and ribosome function (translation, initiation, elongation, termination, ribosome disassembly, and cytoplasmic translation regulation). Selenocysteine incorporation ties into specialized translation. A couple of terms like glial cell proliferation and response to antibiotic are less central but do not override the main theme. This suggests a cluster of proteins involved in protein synthesis and ribosome regulation.","confidence":"High","size":15,"edges":55,"triangles":89,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0006415","count":4},{"id":"GO:0045901","count":3},{"id":"GO:0014009","count":3},{"id":"GO:0001514","count":3}]},{"hash":"1157212039366604317","title":"Exocyst-Mediated Exocytosis","description":"The top GO terms are centered on Golgi-to-plasma membrane transport, exocytosis, and vesicle tethering/assembly, especially exocyst localization and exocyst complex assembly, with vesicle docking and SNARE regulation. This points to a cohesive module of vesicle trafficking leading to exocytosis at the plasma membrane, driven by the exocyst complex. Confidence: High","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006893","count":3},{"id":"GO:0090522","count":3},{"id":"GO:0006887","count":3},{"id":"GO:0051601","count":2},{"id":"GO:0001927","count":2}]},{"hash":"1223833885198455159","title":"ER-Golgi vesicle budding","description":"The top terms are dominated by vesicle trafficking in the secretory pathway, especially COPII-coated vesicle budding and Golgi vesicle budding, suggesting these proteins collectively participate in ER-to-Golgi transport and secretion. While other terms touch on signaling or development, they can be ancillary to vesicle-mediated processes in various contexts. Overall, the dominant theme is the secretory pathway, so the label fits well.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090114","count":9},{"id":"GO:0060684","count":8},{"id":"GO:0032949","count":8},{"id":"GO:0071701","count":8},{"id":"GO:0021766","count":8}]},{"hash":"2070617722600073312","title":"Viral and host nucleic acid processing","description":"The cluster centers on nucleic acid metabolism and regulation, including DNA/RNA replication, transcription, repair, and processing, plus viral-related processes (viral genome replication, viral protein processing) and a host-autophagy interaction linked to symbionts. This suggests a cohesive theme around nucleic acid metabolism with viral/symbiont modulation of host pathways.","confidence":"Medium","size":15,"edges":54,"triangles":85,"max_degree":12,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0032508","count":8},{"id":"GO:0006310","count":8},{"id":"GO:0032211","count":7},{"id":"GO:0043504","count":6},{"id":"GO:0090305","count":6}]},{"hash":"801483223464132846","title":"Neural signaling with visual and dopaminergic processing","description":"The cluster is dominated by neural-related GO terms: visual perception and visual learning, dopaminergic synaptic transmission, behavioral response to cocaine, and ERK1/2 signaling, all pointing to brain function and sensory processing. Additional terms like sensory perception of pain and cellular responses to prostaglandin E stimulus further support neural signaling and neuromodulatory activity. A couple terms (heart development, animal organ regeneration) suggest broader developmental roles or pleiotropy, but the strongest, recurring theme is neuronal signaling and visual/dopaminergic pathways.","confidence":"Medium","size":15,"edges":28,"triangles":28,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0007601","count":9},{"id":"GO:0010759","count":8},{"id":"GO:0048148","count":8},{"id":"GO:0008542","count":8}]},{"hash":"935232862034253049","title":"RNA processing and ncRNA-mediated gene silencing","description":"The dominant signals are RNA processing and ncRNA-guided silencing: spliceosome-mediated mRNA splicing, poly(A) tail regulation, miRNA/ncRNA-mediated silencing, and transcription-related processes, indicating a cohesive theme of RNA maturation and post-transcriptional gene regulation.","confidence":"High","size":15,"edges":6,"triangles":1,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":4},{"id":"GO:0010918","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0075525","count":3},{"id":"GO:0006376","count":3}]},{"hash":"1198820139390965540","title":"Cardiac Muscle Regulation via cGMP Signaling","description":"The cluster centers on cardiac function and cGMP signaling, with terms for regulation of cardiac muscle contraction, relaxation, and cGMP pathways (cGMP catabolic process; negative regulation of guanylyl cyclase signaling). Immune-related and dopamine metabolism terms appear but are secondary.","confidence":"Medium","size":15,"edges":13,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042053","count":3},{"id":"GO:0010613","count":3},{"id":"GO:0010754","count":3},{"id":"GO:0046069","count":3},{"id":"GO:0036006","count":3}]},{"hash":"323554752273940240","title":"Vertebrate embryonic neural and cardiac development","description":"The cluster shows strong enrichment for vertebrate developmental processes\u2014skeletal system development, heart development, forebrain development, and neural tube closure\u2014plus transcriptional regulation, suggesting vertebrate embryonic neural and cardiac patterning; a few terms relate to stress or immune responses that may be secondary.","confidence":"High","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001501","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0071276","count":5},{"id":"GO:0030900","count":5}]},{"hash":"716557303701887911","title":"Inflammation-Driven Angiogenesis","description":"The cluster is dominated by GO terms for inflammatory response and positive regulation of angiogenesis, with supporting signals related to PDGF and TGF-beta stimuli and epithelial cell migration. This suggests proteins that participate in inflammatory signaling that promotes blood vessel formation and tissue remodeling, consistent with wound-healing\u2013type processes, even if some members touch other developmental pathways.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0036120","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0010634","count":3},{"id":"GO:0050729","count":3},{"id":"GO:0006954","count":3}]},{"hash":"609981196181227495","title":"Cardiovascular signaling and blood pressure regulation","description":"The cluster centers on heart-related development, vascular tone (vasoconstriction), blood pressure regulation, and coagulation, with supporting signaling pathways (GPCR signaling and ERK cascade) that tie these processes together. While there are some immune response terms present, the strongest, most frequent terms align with cardiovascular signaling and blood pressure control, suggesting a cohesive functional theme around cardiovascular regulation.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":6},{"id":"GO:0010579","count":6},{"id":"GO:0045777","count":6},{"id":"GO:0035025","count":6},{"id":"GO:0042742","count":5}]},{"hash":"969934411191714039","title":"Multisystem Signal Transduction and Response","description":"This cluster features terms tied to signaling regulation (positive regulation of GTPase activity, regulation of opsin-mediated signaling, protein phosphorylation) plus various stimulus-response processes (sensory pain perception, behavioral responses to amphetamine and cocaine, vasoconstriction). The GO terms span multiple systems (visual, neural, cardiovascular, immune), suggesting a broad role in conveying and responding to diverse signals rather than a single organ-specific function.","confidence":"Medium","size":15,"edges":15,"triangles":0,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":10},{"id":"GO:0007601","count":10},{"id":"GO:0043547","count":10},{"id":"GO:0022400","count":10},{"id":"GO:0019233","count":10}]},{"hash":"239572244594427741","title":"Neural and cardiac Ca2+/cAMP signaling","description":"This cluster centers on signaling cascades involving calcium release and cAMP/adenylate cyclase activity, as shown by terms like activation of adenylate cyclase, positive regulation of calcium release, and protein phosphorylation, with supporting cardiac functions (heart development, regulation of contraction) and neural/sensory contexts (pain and visual perception, temperature response, amphetamine response). The common theme appears to be Ca2+- and cAMP-mediated signaling in excitable tissues such as heart and brain.","confidence":"Medium","size":15,"edges":11,"triangles":8,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":6},{"id":"GO:0071502","count":6},{"id":"GO:0019233","count":6},{"id":"GO:0006468","count":5},{"id":"GO:0055117","count":5}]},{"hash":"2136709979424081025","title":"Unknown","description":"The top GO terms are diverse and not clearly connected (neuroblast division, RNA polymerase III transcription, interferon response, ubiquitination, gibberellin/signaling, mitochondria distribution, prostate development, innate immunity, etc.), offering no single cohesive biological theme. Because the terms span unrelated processes, a single interpretable label is not supported.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055059","count":4},{"id":"GO:0001041","count":4},{"id":"GO:0071357","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0009938","count":4}]},{"hash":"1519768591043981940","title":"Drosophila development and morphogenesis","description":"The cluster shows several insect developmental terms: eye-antennal disc morphogenesis, ventral midline development, female gonad morphogenesis, larval walking behavior, and cellular responses to ecdysone/hormone signaling, indicating proteins likely involved in developmental patterning and hormone-driven morphogenesis in Drosophila. A few metabolism-related terms appear as potential outliers. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:2001172","count":2},{"id":"GO:0007418","count":1},{"id":"GO:0008628","count":1}]},{"hash":"212159864727923365","title":"Viral Entry and Genome Integration","description":"This cluster centers on GO terms describing viral entry into host cells, proviral latency, and genome integration (symbiont entry into host cell; integrated proviral latency; DNA integration; DNA transposition; viral penetration into host nucleus), with supporting terms related to host intracellular trafficking and cell cycle regulation that viruses often hijack. Overall, the common theme is viral entry and genome integration processes.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0039651","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0090502","count":2}]},{"hash":"666572354083296690","title":"ER-Golgi trafficking and morphogenesis signaling","description":"The cluster is enriched for vesicle transport between the ER and Golgi (retrograde and ER-to-Golgi) and several development-related terms (Wnt signaling, compound eye morphogenesis, vulval cell fate), suggesting a link between membrane trafficking and morphogenesis signaling. Some terms like pigmentation and coagulation are present but less central to the main theme. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":3},{"id":"GO:0043473","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0035264","count":3}]},{"hash":"698544814710904088","title":"Opsin GPCR Signaling and Endocytosis","description":"This cluster centers on GPCR signaling and receptor trafficking, especially opsin/visual signaling and GPCR internalization via clathrin-mediated pathways, with downstream GTPase regulation and dopaminergic/synaptic signaling cues. The common theme appears to be receptor signaling coupled to endocytosis in visual and neural contexts, rather than a single strictly defined pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007601","count":2},{"id":"GO:0022400","count":2},{"id":"GO:0002031","count":2},{"id":"GO:0071340","count":2}]},{"hash":"425641890596064558","title":"TLR-Mediated Innate Immune Signaling","description":"This cluster centers on innate immune responses and inflammatory signaling, with terms for defense against viruses, LPS-mediated signaling, MyD88-dependent Toll-like receptor signaling, and NF-kappaB regulation. The convergence on TLR/NF-kB pathways and TNF production strongly suggests a core function in pathogen sensing and pro-inflammatory signaling, with occasional peripheral annotations like response to morphine.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0051607","count":2},{"id":"GO:0031663","count":2},{"id":"GO:0060335","count":2},{"id":"GO:0032088","count":2}]},{"hash":"1928159982478591451","title":"Transcriptional regulation and vascular development","description":"Most terms cluster around transcriptional regulation (negative regulation of RNA Pol II transcription, DNA-templated transcription, DNA binding) and developmental/vascular processes (limb bud formation, endothelial cell chemotaxis, angiogenesis in wound healing). The presence of metabolic regulation terms (glucose homeostasis, ROS metabolism) suggests broader regulatory involvement, but the dominant theme is transcriptional control linked to development and vascular signaling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0035767","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0043046","count":3},{"id":"GO:0060174","count":3}]},{"hash":"1661361514612741410","title":"Cell division and development","description":"The top GO terms show strong signals for cell cycle and division (cell septum assembly, cell cycle, cell division, male meiosis cytokinesis, pole cell formation) with accompanying developmental processes (muscle organ development, axon diameter regulation). There are additional notes on apoptosis signaling and metabolism, but the dominant pattern ties to proliferation and organismal development. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090529","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0007112","count":1},{"id":"GO:1901030","count":1}]},{"hash":"163763731792835790","title":"Chloroplast pigment and cofactor biosynthesis","description":"Most terms cluster around biosynthesis of pigments and cofactors used in photosynthesis (chlorophyll, plastoquinone, phylloquinone) and related quinones (menaquinone/ubiquinone) as well as heme O. This suggests a plastid/chloroplast-associated biosynthetic program for pigments and electron carriers. A few terms about vitamin metabolism are included, but the unifying theme is pigment and cofactor biosynthesis in the photosynthetic apparatus. Hence the label.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":1},{"id":"GO:0042371","count":1},{"id":"GO:0032194","count":1},{"id":"GO:0042372","count":1},{"id":"GO:0010236","count":1}]},{"hash":"1467124071992755448","title":"Nuclear transcription and transport regulation","description":"This cluster is dominated by terms tied to nuclear functions: DNA-templated transcription, positive regulation of transcription by RNA polymerase III, and nuclear pore complex assembly or protein import into the nucleus. These suggest a cohesive theme around transcription control and nuclear-cytoplasmic trafficking, with additional regulatory signals (ubiquitination, kinase activity) that modulate these processes. Some outliers (meiotic spindle elongation, ceramide metabolism, apoptotic signaling, TORC1) reflect broader cellular regulation but do not negate the core nuclear/transcription focus.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031397","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051232","count":1},{"id":"GO:0045945","count":1},{"id":"GO:0000060","count":1}]},{"hash":"663223519809692764","title":"Unknown","description":"Top GO terms cover transcription regulation, mRNA export, phosphorylation regulation, lipid clearance, histone modification, and various developmental processes including endocrine and cardiovascular development. With no network edges and only scattered term representation, there isn\u2019t a single cohesive function linking these proteins; the cluster appears to mix disparate gene expression, signaling, metabolic, and developmental roles. ","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0016973","count":2},{"id":"GO:0050731","count":2},{"id":"GO:0034383","count":2},{"id":"GO:0036123","count":1}]},{"hash":"1009873335871002085","title":"Microtubule-driven spindle organization and cell polarity","description":"Given the GO terms, the proteins cluster around microtubule-based functions: spindle assembly/organization (including meiosis II), cortical microtubule organization, intracellular transport along microtubules, and establishment or maintenance of cell polarity (with related processes like nuclear migration and bicoid mRNA localization). This points to a cohesive module of cytoskeletal dynamics that governs spindle function, organelle/vesicle trafficking, and cell shape/polarity. The dominant signal is microtubule-mediated organization of division and polarity across contexts.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032889","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0098863","count":1},{"id":"GO:0045450","count":1},{"id":"GO:0007058","count":1}]},{"hash":"1032280342478106875","title":"Immune signaling and developmental pathways","description":"The top GO terms cluster around signaling pathways, notably immune receptor signaling (T cell receptor, C-type lectin receptor, Fc-epsilon receptor) and Wnt-related development/ossification, with additional associations to cytoskeletal organization and proteasome assembly. This suggests the proteins participate in broader signaling networks with immune and developmental roles rather than a single specific function.","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0002223","count":3},{"id":"GO:0043931","count":2},{"id":"GO:0043149","count":2}]},{"hash":"2027892857842303845","title":"Unknown","description":"The GO terms are spread across lipid and xenobiotic metabolism (prostaglandin/Bile acid/broad catabolic processes) and diverse developmental/response processes (retina vasculature, tongue muscle differentiation, prostate growth, and responses to ions/nematodes), with no single unifying function evident.","confidence":"","size":14,"edges":56,"triangles":105,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":8},{"id":"GO:0061298","count":6},{"id":"GO:2001037","count":6},{"id":"GO:0019341","count":6},{"id":"GO:0009822","count":6}]},{"hash":"1977866869836445721","title":"Calcium-dependent vesicle trafficking and exocytosis","description":"The cluster centers on intracellular transport and exocytotic/secretion processes, including calcium-triggered neurotransmitter release, insulin secretion, and membrane fusion (myoblast fusion). These terms point to a cohesive theme of vesicle trafficking and secretory machinery, supported by Rho signaling regulating cytoskeletal dynamics. Some outlier terms (e.g., plant hormone signaling) are likely cross-species annotation noise but do not alter the dominant vesicle-traffic theme.","confidence":"Medium","size":14,"edges":62,"triangles":114,"max_degree":11,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":6},{"id":"GO:0007520","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0043065","count":6},{"id":"GO:0009395","count":5}]},{"hash":"744007865971762367","title":"Immune signaling and inflammatory response","description":"Based on the top GO terms, the cluster is enriched for immune-related signaling and activation (Fc-gamma receptor signaling, basophil activation, NK cell chemotaxis regulation) and inflammatory mediators (arachidonate secretion, NFAT signaling). Some kidney development terms and fungal-origin responses are present but do not dominate the set.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051533","count":3},{"id":"GO:0090238","count":3},{"id":"GO:0051873","count":3},{"id":"GO:2000502","count":3},{"id":"GO:0038094","count":3}]},{"hash":"203064392279418970","title":"Multiorgan development","description":"These proteins are enriched for GO terms describing development across multiple organs (female gonad, uterus, digestive tract, retina vasculature, prostate, tongue muscle), with a small subset related to xenobiotic and bile acid metabolism. The dominant theme is broad organ development and tissue differentiation rather than a single, unified pathway.","confidence":"Medium","size":14,"edges":16,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":9},{"id":"GO:0060065","count":9},{"id":"GO:0048565","count":9},{"id":"GO:0061298","count":8},{"id":"GO:2001037","count":8}]},{"hash":"141282903698682413","title":"Amino Acid and Cofactor Biosynthesis","description":"Most top GO terms are biosynthetic processes for amino acids (lysine, tyrosine) and cofactors (biotin, protoporphyrinogen IX). This points to a metabolic module focused on synthesis of essential nutrients, with multiple related pathways. Some terms (DNA-templated transcription, cellular responses to insulin, salicylic acid signaling) appear ancillary and may reflect broader cellular context or annotation noise, but do not override the core biosynthetic theme.","confidence":"Medium","size":14,"edges":32,"triangles":29,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006782","count":6},{"id":"GO:0019878","count":6},{"id":"GO:0009102","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0019550","count":4}]},{"hash":"1271807178296167120","title":"Ion transport and membrane excitability","description":"This cluster is dominated by GO terms related to ion transport (potassium and sodium), regulation of membrane potential, and cardiac-related electrical activity (resting potential, repolarization), indicating a core function in ion homeostasis and cellular excitability. Temperature-related terms are present but appear auxiliary to the primary theme of membrane transport and electrical signaling.","confidence":"High","size":14,"edges":17,"triangles":3,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":6},{"id":"GO:0030007","count":6},{"id":"GO:0097623","count":6},{"id":"GO:0098719","count":6},{"id":"GO:0043931","count":5}]},{"hash":"130670932841087685","title":"Developmental proliferation and differentiation signaling","description":"This cluster combines GO terms tied to the cell cycle (DNA replication), tissue growth (angiogenesis), and multiple differentiation programs (keratinocytes, brown fat cells, hippocampus development), all linked by signaling pathways such as integrin-mediated signaling and the ERK cascade that regulate proliferation, survival (negative regulation of anoikis, apoptotic regulation), and development. The mix suggests a cohesive theme of growth, differentiation, and cell-survival signaling during development and tissue remodeling, rather than a single specific pathway.","confidence":"Medium","size":14,"edges":10,"triangles":3,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0021766","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0007229","count":4},{"id":"GO:0090336","count":4}]},{"hash":"716954287398684105","title":"Unknown","description":"The represented GO terms span transcriptional regulation and chromatin-related modifications, protein oligomerization, immune signaling, autophagosome maturation, senescence, and metabolic regulation, with no single cohesive function tying all 14 proteins together. A concise, specific label is not apparent from these terms.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0006351","count":3},{"id":"GO:2001199","count":2},{"id":"GO:0038095","count":2},{"id":"GO:1903715","count":2}]},{"hash":"2218381461672061273","title":"Nuclear ribosome biogenesis and RNA transport","description":"This cluster is enriched for nuclear RNA processing and ribosome biogenesis steps\u2014rRNA maturation, tRNA processing, ribosomal protein import, mRNA export, and nuclear pore complex assembly\u2014points to a shared role in ribosome assembly and nucleo-cytoplasmic transport. ","confidence":"High","size":14,"edges":86,"triangles":314,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0006351","count":3},{"id":"GO:0008033","count":3},{"id":"GO:0000462","count":2},{"id":"GO:0000060","count":2}]},{"hash":"205843874111600933","title":"Brain development and neural signaling","description":"Based on the cluster\u2019s enrichment for neural-development related GO terms (cerebellar cortex formation, Bergmann glial cell differentiation, axon regeneration regulation, visual perception, sensory perception of pain) and for signaling pathways (insulin receptor signaling, T cell receptor signaling), the dominant theme appears to be brain development and neural signaling. Some terms like heart development or generic signaling are present but do not override the brain-centric pattern, so a brain development and neural signaling label is most representative.","confidence":"Medium","size":14,"edges":17,"triangles":5,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0007601","count":9},{"id":"GO:0021697","count":9},{"id":"GO:0008285","count":9},{"id":"GO:0060020","count":9}]},{"hash":"2283260631554181016","title":"Unknown","description":"These proteins show a mix of largely obsolete GO annotations (e.g., protein localization to mating-type region heterochromatin and other outdated regulatory terms) and a few metabolic/repair terms. There is no single, coherent biological process that unites all 14 proteins; dominant terms hint at metabolic regulation (thiamine biosynthesis, glycolytic fermentation to ethanol) but the presence of nucleotide-excision and base-excision repair terms, plus miscellaneous obsolete terms, prevents a clear shared function.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":4},{"id":"GO:0090180","count":4},{"id":"GO:2001172","count":4},{"id":"GO:0006289","count":1},{"id":"GO:0032074","count":1}]},{"hash":"1187291772156944060","title":"Plant meiosis and gametophyte development","description":"The top GO terms point to core meiotic processes (chiasma assembly, homologous chromosome pairing, reciprocal recombination, double-strand break repair) and plant gametophyte formation (pollen and embryo sac development). Supporting terms like cortical microtubule organization align with chromosome segregation during meiosis, while auxiliary terms (transcription elongation regulation, protein complex stability) may reflect broader developmental regulation. Together these suggest a cluster focused on meiosis and plant reproductive development.","confidence":"Medium","size":14,"edges":44,"triangles":62,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0051026","count":1},{"id":"GO:0007129","count":1},{"id":"GO:0007131","count":1},{"id":"GO:0006302","count":1},{"id":"GO:0009555","count":1}]},{"hash":"1804244366728648212","title":"Cell stress, apoptosis, and innate immunity","description":"The terms cluster around cellular stress responses (mitotic spindle issues, mechanical stimulus) and cell death pathways (apoptosis, pyroptosis, hepatocyte apoptosis) along with innate immune signaling and ubiquitination. Positive regulation of JNK links stress to inflammatory responses, indicating a cohesive theme of cellular stress response coordinating death and immunity.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0090307","count":8},{"id":"GO:0016567","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0071260","count":6},{"id":"GO:0070269","count":6}]},{"hash":"837533395925053246","title":"Cell Fate, Apoptosis, and Innate Immunity","description":"GO terms indicate developmental cell fate specification and morphogenesis, alongside apoptosis/pyroptosis and innate immune processes, with supporting roles for ubiquitination, adhesion, and mitotic spindle assembly. The mix points to a broader theme of how cells decide fate and respond to stress through death and immune signaling, rather than a single pathway. Therefore, the label reflects the dominant, coherent themes in the cluster, with moderate confidence.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072327","count":4},{"id":"GO:2000495","count":4},{"id":"GO:0007155","count":2},{"id":"GO:1990001","count":2},{"id":"GO:0070269","count":2}]},{"hash":"557128069229929392","title":"Clathrin-Dependent Vacuolar Endosomal Trafficking","description":"Reasoning: The GO terms cluster around clathrin-mediated endocytosis and trafficking between Golgi, endosomes, and vacuoles (endocytosis, clathrin-dependent endocytosis, regulation of clathrin-dependent endocytosis, Golgi to endosome transport, late endosome to vacuole transport). This points to a cohesive module of vesicle trafficking to the vacuole/lysosome. A few terms appear obsolete or unrelated (annotation noise). ","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006623","count":1},{"id":"GO:1901030","count":1},{"id":"GO:0072583","count":1},{"id":"GO:0032511","count":1},{"id":"GO:2000369","count":1}]},{"hash":"2234368840823095019","title":"Multi-Tissue Developmental Programs","description":"The terms cluster around DNA-templated transcription and development across numerous tissues (heart, thymus, cerebellum, inner ear, forebrain, thyroid, skeletal muscle, retina, etc.), suggesting a broad set of regulatory roles in organogenesis rather than a single pathway.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0048538","count":4},{"id":"GO:0021549","count":3},{"id":"GO:0048839","count":3}]},{"hash":"1667336906095748505","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097676","count":1},{"id":"GO:2000373","count":1},{"id":"GO:0015074","count":1},{"id":"GO:0090305","count":1},{"id":"GO:2001034","count":1}]},{"hash":"1018583294969919648","title":"GPCR Signaling and Morphine Response","description":"This cluster is dominated by GO terms for G-protein-coupled receptor (GPCR) signaling, including MAPK-activating adrenergic receptor signaling and adenylate cyclase-activating dopamine receptor signaling, as well as the response to morphine. Additional terms point to downstream phosphorylation and calcium channel regulation, and even heart-rate modulation via GPCR pathways and immune-related signaling (eosinophil chemotaxis, IL-8). Despite one broader term (electron transport chain), the shared theme is receptor-mediated signaling and its phosphorylation cascades, making GPCR signaling and morphine response a coherent, representative label.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071883","count":13},{"id":"GO:0043278","count":13},{"id":"GO:1901386","count":13},{"id":"GO:0007191","count":13},{"id":"GO:0048245","count":13}]},{"hash":"750305225930587586","title":"Kinetochore assembly and spindle organization","description":"This cluster is dominated by GO terms related to the kinetochore and mitotic spindle, including kinetochore assembly, mitotic spindle organization, spindle attachment to kinetochores, and meiosis I kinetochore attachment, indicating a core theme of chromosome segregation machinery. Less represented terms (lactation, aging, respiration) do not override this central function.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007595","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051315","count":2},{"id":"GO:0051382","count":2},{"id":"GO:0030472","count":2}]},{"hash":"1855424534231955525","title":"Unknown","description":"The GO terms are spread across RNA metabolism (editing, destabilization, methylation, cap-independent translation) and reproductive/mating-related processes (pheromone-regulated transcription, karyogamy, germline encapsulation, pseudohyphal growth). There isn\u2019t a single cohesive function or pathway linking all terms, so a specific, representative cluster label isn\u2019t clear.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046020","count":2},{"id":"GO:0061157","count":2},{"id":"GO:0019827","count":2},{"id":"GO:0080009","count":2},{"id":"GO:0006382","count":2}]},{"hash":"703207520767304621","title":"Light-Influenced Transcription and Metabolic Regulation","description":"The cluster centers on transcription regulation by RNA polymerase II and light-cued processes (far-red signaling, phototransduction, circadian rhythm), with occasional links to metabolism (thiamine biosynthesis, glycolytic fermentation), suggesting a module where transcription adapts to light/circadian cues while affecting metabolic pathways. Some outlier terms like mating-type heterochromatin and endothelial barrier regulation appear, but the core theme remains transcription-light-metabolism cross-talk.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:2001172","count":2},{"id":"GO:1903140","count":2},{"id":"GO:0042753","count":1}]},{"hash":"591641969017589257","title":"Leukocyte Signaling and Cytoskeletal Dynamics","description":"The terms strongly point to immune cell signaling (B cell receptor signaling, integrin-mediated signaling, B cell proliferation) and cytoskeletal remodeling/motility (lamellipodium assembly, microtubule anchoring, neutrophil chemotaxis). A few metabolism-related or neuron-related terms appear as outliers, but the dominant pattern ties immune activation to cytoskeletal dynamics and migration.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:2001172","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0007229","count":2}]},{"hash":"490954219800466288","title":"Coagulation, ECM remodeling, and cell adhesion","description":"The top terms point to blood coagulation, extracellular matrix disassembly, and cadherin-mediated cell-cell adhesion, along with plasma membrane remodeling (tubulation) and centrosome-associated localization, suggesting membrane dynamics and adhesion processes tied to coagulation and ECM remodeling. Immune signaling terms are present but secondary to the extracellular matrix/adhesion theme.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097320","count":2},{"id":"GO:0051044","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0022617","count":2},{"id":"GO:0071539","count":2}]},{"hash":"748341797111644128","title":"DNA Recombination and Repair","description":"Dominant GO terms cluster around DNA integration, recombination, repair (including nonhomologous end joining) and chromatin modification (histone H3-K36 dimethylation), suggesting proteins involved in genome maintenance and DNA processing. A few outliers exist but do not define the overall theme.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0097676","count":3},{"id":"GO:2000373","count":3},{"id":"GO:0090305","count":3}]},{"hash":"1545618062415000963","title":"Unknown","description":"The top GO terms span developmental patterning, cell division, apoptosis/ubiquitination, and immune signaling with no clear common function or tightly connected network (edges and triangles are zero). Because there isn\u2019t a cohesive theme linking these terms, a single concise label isn\u2019t supported.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072327","count":3},{"id":"GO:2000495","count":3},{"id":"GO:0090307","count":2},{"id":"GO:1990001","count":1},{"id":"GO:0070269","count":1}]},{"hash":"962663214661914506","title":"Neural development and stress-induced apoptosis","description":"This cluster centers on neural development terms (brain and forebrain development, neural tube closure) paired with apoptosis and stress-response pathways (intrinsic apoptotic signaling in ER stress, regulation/positive regulation of apoptotic signaling, apoptotic DNA fragmentation, DNA damage checkpoint signaling) and a cadmium ion response, suggesting coordinated neural development with stress-induced apoptosis mechanisms.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0072432","count":3},{"id":"GO:1902510","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0051301","count":3}]},{"hash":"908516776929627412","title":"Eye and epithelial morphogenesis","description":"This cluster centers on development and morphogenesis of sensory/epithelial tissues, highlighted by retina development, lens fiber cell differentiation, and compound eye morphogenesis, alongside skin development and epithelial differentiation. Additional terms point to related cellular processes (GTPase regulation, ubiquitination) that often accompany morphogenesis. A few terms come from other tissues, but the dominant signal is eye and epithelial tissue formation.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0060041","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0072327","count":1}]},{"hash":"2133683481237155917","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0060528","count":1},{"id":"GO:0060416","count":1},{"id":"GO:0070306","count":1},{"id":"GO:0000209","count":1}]},{"hash":"2107400035881938571","title":"Neural signaling and behavior","description":"The GO terms emphasize neural communication (ion transport, excitatory postsynaptic potentials, GABA signaling) and behavior (locomotion, conditioned taste aversion, memory) with responses to amphetamine and ethanol, suggesting a theme of neuronal signaling linked to learning and stimulus-driven actions; the defense response to bacterium may be an outlier or pleiotropic annotation.","confidence":"High","size":14,"edges":23,"triangles":8,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042742","count":6},{"id":"GO:0001975","count":6},{"id":"GO:0035725","count":6},{"id":"GO:0071805","count":6},{"id":"GO:0060079","count":6}]},{"hash":"1713523115797773634","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":3},{"id":"GO:0051016","count":3},{"id":"GO:0060528","count":2},{"id":"GO:0060416","count":2},{"id":"GO:0070306","count":2}]},{"hash":"1626648250925607710","title":"Steroid hormone signaling and chromatin remodeling","description":"This cluster centers on nuclear receptor\u2013mediated glucocorticoid signaling, with links to estradiol regulation and uterus morphogenesis, suggesting hormonal control of reproductive biology. The presence of nucleosome disassembly and histone modification terms (H3-K4 methylation/demethylation, chromatin regulation) indicates concurrent chromatin remodeling and gene expression regulation. Despite some obsolete terms, the dominant theme is steroid signaling intertwined with chromatin dynamics.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042921","count":2},{"id":"GO:0061038","count":2},{"id":"GO:2000864","count":2},{"id":"GO:1904388","count":2},{"id":"GO:1901726","count":2}]},{"hash":"1933845576568761123","title":"Developmental signaling and inflammatory responses","description":"This cluster centers on transcriptional regulation plus key developmental signaling pathways (Wnt and Hippo) and differentiation processes (keratinocyte, forebrain) while also including immune/inflammatory responses (LPS response, chemotaxis, GM-CSF stimulus) and apoptosis. The combination suggests proteins that coordinate growth signaling, development, and immune signaling, rather than a single linear process. Confidence: Medium","confidence":"","size":13,"edges":51,"triangles":96,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":11},{"id":"GO:0090263","count":10},{"id":"GO:0006915","count":10},{"id":"GO:0030216","count":10},{"id":"GO:0071222","count":10}]},{"hash":"116620759475914784","title":"Actin-driven synapse formation in neurons","description":"The cluster is dominated by GO terms tied to actin cytoskeleton remodeling (ruffle and lamellipodium assembly, actin depolymerization regulation) and to synapse assembly, with hippocampus development suggesting neuronal differentiation in the brain. This combination points to actin-dependent processes that drive synapse formation and neuronal maturation, particularly in hippocampal neurons.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000249","count":3},{"id":"GO:1904783","count":2},{"id":"GO:0097178","count":2},{"id":"GO:0030836","count":2},{"id":"GO:0010592","count":2}]},{"hash":"57963493614133955","title":"Spliceosome-mediated mRNA splicing regulation","description":"The cluster is dominated by GO terms tied to RNA processing and splicing via the spliceosome, including regulation of splicing (including alternative splicing), splice-site recognition, and cis-splicing. Additional terms involve mRNA stability in response to stress and regulatory ncRNA\u2013mediated silencing, suggesting a broader RNA regulatory role; overall it points to a cohesive set of proteins involved in RNA processing and splicing control.","confidence":"High","size":13,"edges":60,"triangles":136,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":8},{"id":"GO:0010610","count":8},{"id":"GO:0031047","count":7},{"id":"GO:0048025","count":7},{"id":"GO:0048026","count":7}]},{"hash":"850708210577049001","title":"Sugar and Ion Transmembrane Transporters","description":"The top GO terms cluster around transmembrane transport of sugars (fucose, galactose, arabinose, sialic acid), various ions (sodium, nitrite, phosphate), and xenobiotics, plus a vesicular neurotransmitter loading process, all indicating membrane transporter activity with a broad substrate range.","confidence":"High","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":4},{"id":"GO:0006004","count":4},{"id":"GO:0015707","count":4},{"id":"GO:0035435","count":4},{"id":"GO:0015739","count":4}]},{"hash":"1955669905562365314","title":"RNA processing and translation regulation","description":"The cluster shows strong signals for translation initiation/reinitiation and preinitiation complex formation, along with mRNA processing activities (splicing, splice site recognition, and poly(A) tail regulation). This suggests a cohesive role in post-transcriptional gene expression, bridging RNA processing in the nucleus with translation control in the cytoplasm.","confidence":"High","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0075525","count":2},{"id":"GO:0006376","count":2},{"id":"GO:0060211","count":2}]},{"hash":"360571080107870579","title":"Proteostasis and stress-response","description":"The proteins cluster around cellular stress responses and protein quality control: post-translational modifications (deubiquitination, sumoylation, deglycosylation), apoptosis, mitophagy, ER stress regulation, and related stress-linked processes (including DNA repair and transcription regulation). This suggests a proteostasis/stress-response module where maintenance of protein homeostasis and controlled cell fate intersect.","confidence":"Medium","size":13,"edges":41,"triangles":87,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0016579","count":3},{"id":"GO:0016925","count":3},{"id":"GO:0006284","count":3},{"id":"GO:0007568","count":3}]},{"hash":"1800679428930111347","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016575","count":3},{"id":"GO:0007369","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0000480","count":2}]},{"hash":"2008570076549157092","title":"Transmembrane Solute Transporters","description":"The proteins are enriched for GO terms related to transmembrane transport of diverse solutes, including ions (sodium, nitrite, phosphate), sugars (galactose, arabinose, sialic acid), and xenobiotics, indicating a cluster of membrane transporter proteins with broad substrate specificity. Some terms reference vesicle trafficking and cytoskeletal dynamics, but the dominant signal supports a transporter-focused grouping.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":3},{"id":"GO:2000394","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0006004","count":2},{"id":"GO:0015707","count":2}]},{"hash":"1047479023995709889","title":"Mitochondrial translation and respiratory assembly","description":"The top GO terms center on translation, import into the mitochondrial matrix, and assembly/regulation of oxidative phosphorylation and aerobic respiration, pointing to a cluster of proteins involved in mitochondrial protein synthesis and energy production. Additional terms about ER-Golgi transport and stress-related processes may reflect broader housekeeping or cross-compartment quality control, but the core signal is mitochondria-focused.","confidence":"Medium","size":13,"edges":76,"triangles":265,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0030150","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0010304","count":2},{"id":"GO:0006888","count":2}]},{"hash":"1012148434036800466","title":"Unknown","description":"The GO terms are highly diverse and span development (female gonad, retina vasculature, prostate growth, tongue muscle differentiation), xenobiotic and bile acid metabolism (dioxin, alkaloid, camphor catabolic processes, bile acid biosynthesis), and various stress/response categories (cesium ion, nematode). There is no clear, single biological function linking the majority of terms, suggesting the cluster may be heterogeneous or annotation-noise-driven rather than a cohesive functional module.","confidence":"","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":7},{"id":"GO:0061298","count":6},{"id":"GO:2001037","count":6},{"id":"GO:0019341","count":6},{"id":"GO:0009822","count":6}]},{"hash":"1845351900209290254","title":"Craniofacial and sensory organ development","description":"Explanation: The terms cluster around development of head and sensory structures\u2014antennal development, otic placode/ear formation, facial morphogenesis, bone morphogenesis, neural tube patterning, and muscle organ development\u2014indicating a shared theme of craniofacial and sensory organ morphogenesis. The DNA integration/transposition terms appear incidental and do not define the main theme.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:0006313","count":2},{"id":"GO:0007469","count":1},{"id":"GO:0071599","count":1},{"id":"GO:0021904","count":1}]},{"hash":"2240486203389205502","title":"BMP-dependent development and ECM remodeling","description":"The cluster is dominated by BMP signaling terms (GO:0030509) and multiple development-related terms spanning bone, eye, heart/vascular structures, and mesenchymal differentiation, as well as extracellular matrix interactions (e.g., BMP sequestration in ECM and elastic fiber assembly). This points to BMP-mediated developmental patterning coupled with ECM remodeling as the unifying theme, rather than a single tissue-specific process.","confidence":"High","size":13,"edges":16,"triangles":4,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030509","count":8},{"id":"GO:0060346","count":7},{"id":"GO:2000741","count":7},{"id":"GO:0035904","count":7},{"id":"GO:0043010","count":7}]},{"hash":"1515219592450472668","title":"Ubiquitin-Mediated Mitosis Regulation","description":"This cluster is dominated by ubiquitination-related terms (protein ubiquitination, K6- and K11-linked ubiquitination, autoubiquitination, ERAD-associated ubiquitin pathway) along with mitosis/cell cycle terms (cell division, mitotic cell cycle, APC/C-dependent catabolic process). Together, they point to proteins that regulate proteasomal degradation during mitosis and protein quality control, with innate immune signals present as a secondary facet. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0085020","count":5},{"id":"GO:0051865","count":5},{"id":"GO:0051607","count":4}]},{"hash":"1697039417266610738","title":"Ribosome biogenesis and translation","description":"The cluster is strongly enriched for ribosome-related GO terms: translation, ribosome biogenesis, maturation of SSU-rRNA, and small subunit assembly, indicating a cohesive group centered on ribosome production and protein synthesis. Some immune/virus-associated terms appear but likely reflect cellular stress responses or host-virus interactions that modulate translation. Overall, the dominant signal is ribosome-directed function.","confidence":"High","size":13,"edges":63,"triangles":183,"max_degree":11,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0042254","count":3},{"id":"GO:0000462","count":2},{"id":"GO:0000028","count":2},{"id":"GO:0045087","count":2}]},{"hash":"1634215164460113730","title":"Neurodevelopment and Pain Signaling","description":"Predominant terms point to neural/sensory development and nociception (inner ear development, sensory perception of pain, behavioral response to pain), with supporting roles in neuroendocrine signaling (vasopressin secretion, CO2 detection) and transcriptional regulation. This combination suggests a cluster of proteins involved in neural development linked to pain signaling and related gene regulation.","confidence":"Medium","size":13,"edges":7,"triangles":1,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0006351","count":6},{"id":"GO:0046827","count":6},{"id":"GO:0006349","count":5}]},{"hash":"213256971227519227","title":"ER Protein Quality Control & Innate Immunity","description":"The top GO terms center on endoplasmic reticulum processes: insertion of proteins into the ER membrane, retrograde transport between Golgi and ER, and ubiquitin-dependent ER-associated degradation, all core to ER protein quality control. Additional terms point to innate immune responses and defense against viruses, suggesting a link between ER stress/secretory pathway function and antiviral defense. Some annotations (e.g., lipopolysaccharide biosynthesis, histone methylation) seem noisy or less relevant, but the dominant theme supports an ER-centered protein handling role with immune connection.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":3},{"id":"GO:0051607","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0061087","count":2}]},{"hash":"2269692874969962610","title":"Unknown","description":"The top GO terms are very diverse, spanning immune signaling (T cell receptor signaling, LPS response, GM-CSF), plant hormonal signaling (ABA), muscle development and differentiation (myoblast fusion, cardiac proliferation), apoptosis, neural development (cerebellar cortex formation), and skin differentiation (keratinocytes). There is no single unified biological process tying these terms together, suggesting this cluster may be a mixed/ambiguous set rather than a cohesive functional module.","confidence":"","size":13,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":8},{"id":"GO:0071222","count":7},{"id":"GO:0097011","count":7},{"id":"GO:0009738","count":7},{"id":"GO:0014850","count":7}]},{"hash":"1733233929262087792","title":"Cofactor and Vitamin Biosynthesis","description":"Top GO terms cluster around biosynthesis of several cofactors and vitamins (menaquinone, thiamine, biotin, protoporphyrinogen IX/heme, PQQ, molybdopterin), plus related metabolic processes, suggesting a cohesive group of proteins dedicated to cofactor production rather than a single pathway.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":2},{"id":"GO:0009234","count":1},{"id":"GO:0018339","count":1},{"id":"GO:0006782","count":1},{"id":"GO:0009228","count":1}]},{"hash":"1615346883343136465","title":"NF-\u03baB/JNK Immune Signaling via Ubiquitination","description":"The top terms cluster around NF-\u03baB and JNK pathway regulation, TNF signaling, and ubiquitin-related processes (K63-linked ubiquitination, autoubiquitination). Several terms touch on antiviral host responses and T cell homeostasis, suggesting a coherent module of immune signaling controlled by ubiquitination.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":3},{"id":"GO:0032897","count":2},{"id":"GO:0070534","count":2},{"id":"GO:0007250","count":2},{"id":"GO:0043029","count":2}]},{"hash":"250936774231493988","title":"Apoptosis and Innate Immune Signaling","description":"The top GO terms are dominated by apoptotic processes (including pyroptosis) and innate immune response, with ubiquitination also highlighted, suggesting the cluster centers on regulated cell death and inflammatory signaling. A few terms relate to development or cell migration, which may reflect broader or indirect roles of some proteins but do not override the core theme. Confidence: Medium.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990001","count":7},{"id":"GO:0070269","count":7},{"id":"GO:0006915","count":7},{"id":"GO:0016567","count":7},{"id":"GO:0045087","count":7}]},{"hash":"249836356768307873","title":"Developmental signaling and immune pathways","description":"The top GO terms point to diverse developmental signaling roles (retinoic acid response, Wnt signaling, thymus and mammary gland branching) and immune signaling (B cell receptor signaling, T cell activation), along with neuron development and actin-binding regulation, suggesting a broad set of proteins involved in developmental signaling and immune regulation rather than a single, tightly defined function.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071300","count":4},{"id":"GO:0048666","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0048538","count":3},{"id":"GO:0050853","count":3}]},{"hash":"1059617938634346484","title":"ERAD/Ubiquitin-Dependent Protein Quality Control","description":"The cluster is dominated by GO terms related to ubiquitin-dependent protein degradation and ER-associated degradation (ERAD), including ubiquitin-dependent protein catabolic process, ubiquitin-dependent ERAD, protein autoubiquitination, and retrograde transport from the ER to the cytosol, as well as localization to the ER membrane. These together point to a shared role in ER quality control and ubiquitin-mediated proteolysis, with only a few peripheral terms that are less central to this theme.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0051301","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0050884","count":2}]},{"hash":"900628942958255561","title":"Nuclear gene expression & RNA processing","description":"GO terms center on transcription regulation and snoRNP/RNA processing, with supporting hints of chromatin-related activity and protein assembly in the nucleus. The mix suggests a cluster of proteins involved in nuclear gene expression and RNA maturation rather than a single cytosolic pathway.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0016576","count":3},{"id":"GO:0043278","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0035955","count":3},{"id":"GO:0036494","count":3}]},{"hash":"1292204168462584995","title":"Integrin signaling and osteoclast fusion","description":"The top GO terms emphasize integrin-mediated signaling, osteoclast fusion, and related membrane remodeling and signaling pathways (including Wnt and IL-2 production), suggesting a cluster of proteins involved in cell adhesion, fusion of bone-resorbing cells, and membrane-associated signaling in immune/bone contexts.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":4},{"id":"GO:0051044","count":4},{"id":"GO:1901076","count":3},{"id":"GO:0051835","count":3},{"id":"GO:0009395","count":3}]},{"hash":"2153836065441176363","title":"Unknown","description":"The top GO terms are highly diverse, including DNA recombination, xenobiotic response, redox homeostasis, cell cycle regulation, glycogen metabolism, phosphatidylinositol signaling, renal water transport, corneocyte development, mRNA stability, and hemolysis. There is no single cohesive biological process that ties these terms together, suggesting the cluster reflects a heterogeneous set of proteins or noise rather than a unified function.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":5},{"id":"GO:0042493","count":3},{"id":"GO:0045454","count":3},{"id":"GO:1900087","count":3},{"id":"GO:2000466","count":3}]},{"hash":"1040573754378592062","title":"Innate immune apoptosis and pyroptosis signaling","description":"The top GO terms cluster around innate immunity, pyroptotic and apoptotic pathways, and NF-kappaB signaling, with ubiquitination as a regulatory layer. This supports a coherent theme of innate immune sensing linking to inflammatory and apoptotic cell death, even though some terms like mitotic spindle assembly or behavioral responses may reflect broader or noisy annotations.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":8},{"id":"GO:0090307","count":7},{"id":"GO:0070269","count":7},{"id":"GO:0006915","count":7},{"id":"GO:0016567","count":7}]},{"hash":"2026494012907836000","title":"Brain development and apoptotic signaling","description":"These terms point to roles in brain/forebrain development and in apoptosis and DNA damage response pathways, implying a cluster of proteins involved in developmental programs coupled with cellular stress and ubiquitination regulation.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0003283","count":6},{"id":"GO:0072432","count":6},{"id":"GO:1902510","count":6},{"id":"GO:0007420","count":6},{"id":"GO:0051301","count":6}]},{"hash":"706393349932907344","title":"TLR Signaling and Immune Regulation","description":"The Top Terms show multiple Toll-like receptor signaling pathways (TLR2/4/7/9) and several negative regulatory processes (reduction of B cell activation, IL-6 production, translational initiation, and PI3K/AKT signaling), suggesting a theme of dampening or tuning innate immune responses via TLR pathways. The tracheal outgrowth term is an outlier and does not strongly shape the overall function. Overall, these proteins appear linked by immune signaling regulation rather than a single, cohesive enzymatic pathway.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051898","count":2},{"id":"GO:0034162","count":1},{"id":"GO:0014068","count":1},{"id":"GO:0034142","count":1},{"id":"GO:0034134","count":1}]},{"hash":"1239235510978471869","title":"Unknown","description":"The terms span metal ion transport/homeostasis (copper, zinc, cadmium; calcium), metabolism (L-serine biosynthesis, phospholipid remodeling), and other disparate processes (lipopolysaccharide biosynthesis, stilbene catabolism, testosterone response) with no evident shared pathway or interactions (no edges), so there is no cohesive function to label the cluster. ","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097755","count":4},{"id":"GO:0006564","count":4},{"id":"GO:0006874","count":4},{"id":"GO:0006825","count":4},{"id":"GO:0046839","count":4}]},{"hash":"1240070130123763789","title":"Pyrimidine nucleotide metabolism","description":"Top GO terms are dominated by dUTP/dITP/dUMP biosynthesis and catabolism, pointing to pyrimidine nucleotide metabolism and nucleotide pool maintenance as the shared function of this cluster. A few minor terms related to epigenetic regulation appear but do not override the central theme. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006229","count":2},{"id":"GO:0046081","count":2},{"id":"GO:0009220","count":2},{"id":"GO:0035863","count":2},{"id":"GO:0006226","count":2}]},{"hash":"1091582245567452143","title":"Immune cytokine regulation and T cell signaling","description":"Based on the top GO terms, the cluster centers on immune modulation, including regulation of IL-12 and IL-23 production, CXCL2 production, and immunoglobulin-mediated immune responses, as well as activation-induced T cell death. This suggests a functional theme of adaptive immune signaling and cytokine modulation, with a few outlier terms (e.g., a non-immune or obsolete entry) that do not shift the overall interpretation. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090502","count":2},{"id":"GO:0045083","count":1},{"id":"GO:0006924","count":1},{"id":"GO:2000341","count":1},{"id":"GO:0032747","count":1}]},{"hash":"2224776510425286409","title":"Viral genome integration and latency","description":"The top GO terms point to DNA integration, replication, recombination, and transposition, alongside viral/symbiont processes such as entry into the host, viral penetration into the host nucleus, and proviral latency, plus a note on negative regulation of siRNA processing. This combination strongly suggests a viral-like lifecycle involving genome integration into the host and established latency, with host RNAi interactions, rather than a generic DNA processing cluster. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0046718","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0039651","count":4},{"id":"GO:0015074","count":4}]},{"hash":"1519540922219532557","title":"Proviral Integration and Transposition","description":"GO terms predominantly describe DNA integration, retrotransposition, and DNA transposition, along with viral entry into the host nucleus and proviral latency, indicating a cohesive theme of retroviral/proviral integration and transposable element activity within the host genome.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0015074","count":1},{"id":"GO:0032197","count":1}]},{"hash":"750768112124578706","title":"Immune signaling and cytoskeletal remodeling","description":"These proteins show a coherent theme of immune signaling (B cell receptor signaling, B cell maturation, NK T cell differentiation, interleukin-7 response) together with actin-driven cytoskeletal dynamics (regulation of Rho signaling, lamellipodium and filopodium assembly, cell migration). This suggests a cluster of molecules coordinating immune cell activation with movement and shape change. Some terms like heart development or transcytosis may reflect broader roles, but the dominant pattern ties immune signaling to cytoskeletal remodeling.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0098761","count":2},{"id":"GO:0001865","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0045056","count":2}]},{"hash":"1414916139229743553","title":"Cardiac conduction and vascular signaling","description":"The GO terms point to calcium-related signaling (calcium ion import across the plasma membrane) with heart-specific communication (SA node to atrial cardiac muscle cell), vasopressin secretion, and vascular remodeling (endothelial delamination), suggesting a cardiovascular signaling theme. Some terms (immune regulation, telomere maintenance) appear more peripheral/noise. Confidence in the overall cardiovascular interpretation is moderate.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098703","count":3},{"id":"GO:0006621","count":3},{"id":"GO:0045083","count":2},{"id":"GO:0030103","count":2},{"id":"GO:0070213","count":2}]},{"hash":"30129469501933770","title":"Retroviral life cycle: entry, integration, latency","description":"Top GO terms indicate viral entry into host cells, nuclear penetration, reverse transcription (RNA-templated DNA synthesis), DNA integration and recombination, and proviral latency, with related host-virus interaction terms. This combination strongly suggests a cluster of proteins tied to retroviral infection and genome integration, hence the chosen label. High","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0039651","count":2},{"id":"GO:0015074","count":2}]},{"hash":"299032482650794777","title":"Adrenergic and Dopaminergic GPCR Signaling","description":"This cluster is centered on GPCR-mediated signaling pathways, especially adrenergic and dopaminergic receptor signaling that activate adenylate cyclase and downstream cAMP pathways, with MAPK activation and calcium channel modulation. The presence of morphine response and eosinophil chemotaxis terms suggests broader GPCR-related signaling and chemotactic processes, while an outlier GO term for electron transport chain likely reflects annotation noise. Overall, the proteins appear to participate in GPCR signaling cascades and their downstream phosphorylation and calcium-regulatory events.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":11},{"id":"GO:0010579","count":11},{"id":"GO:0045777","count":11},{"id":"GO:0035025","count":11},{"id":"GO:0071883","count":10}]},{"hash":"661117386126509382","title":"Ubiquitin-regulated NF-\u03baB signaling","description":"Top terms emphasize ubiquitin-dependent proteolysis, polyubiquitination and autoubiquitination, and TNF- and NF-kappaB signaling including I-kappaB phosphorylation. Together these indicate a cluster of proteins that regulate NF-\u03baB pathway activity through ubiquitination and proteasomal turnover, with some links to transcription regulation and cell cycle control.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0007250","count":6},{"id":"GO:1903721","count":6},{"id":"GO:1903265","count":6},{"id":"GO:0033209","count":6}]},{"hash":"669100167631494621","title":"Unknown","description":"The listed GO terms span diverse processes across animals and plants (renin-angiotensin signaling, brain RAS, renin secretion, cilium assembly, spermatogenesis, spindle regulation, asymmetric protein localization, plant histogenesis, calcium release, and miRNA processing). With no connecting pathway or cohesive function and no edges among proteins, there is no single unifying theme to label the cluster beyond Unknown.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002019","count":1},{"id":"GO:0002035","count":1},{"id":"GO:0002001","count":1},{"id":"GO:0044458","count":1},{"id":"GO:0007283","count":1}]},{"hash":"353443440242230649","title":"Unknown","description":"The GO terms are highly diverse, spanning metabolism (thiamine biosynthesis, glycolytic fermentation to ethanol), iron response, signaling cascades (CAMKK-AMPK, Wnt), development (hippocampus, mast cell differentiation), angiogenesis, and chromatin localization, with no clear single theme and no interactions among proteins. This lack of a cohesive functional thread makes a specific, coherent label unlikely.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:2001172","count":2},{"id":"GO:0010039","count":1},{"id":"GO:0055114","count":1}]},{"hash":"298975025285337543","title":"Unknown","description":"The top GO terms cover mitochondrial respiration and complex II assembly, Rho signaling, Wnt signaling, osteoclast fusion, B cell and T cell signaling, membrane invagination, and lipid catabolism. This broad mixture spans metabolism, cytoskeletal signaling, and immune/bone biology with no clear unifying function, and there are no edges connecting proteins in the cluster. Therefore a coherent, specific label cannot be assigned.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0034553","count":1},{"id":"GO:0006120","count":1},{"id":"GO:0009395","count":1},{"id":"GO:0045083","count":1}]},{"hash":"1366501702895784965","title":"Developmental signaling and cytoskeletal remodeling","description":"The terms cluster around developmental processes (multicellular organism development, skeletal system development, meristem transition) and cytoskeletal dynamics (ruffle assembly, stress fiber assembly, fibroblast migration), with calcium signaling and regulation of nuclear export also tying into signaling. Together they point to proteins involved in signaling pathways that guide development and coordinate cytoskeletal remodeling for morphogenesis and cell movement. Confidence: Medium","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904469","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0035584","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0097178","count":1}]},{"hash":"1046898139359749877","title":"Phototransduction and Visual Signaling Regulators","description":"This cluster shows GO terms centered on regulating signaling pathways, especially phototransduction and visual perception, suggesting a set of proteins that modulate visual signaling. The presence of additional regulatory terms (e.g., kinase and transcription regulation) indicates broader regulatory roles, but the strongest theme ties to photoreceptor signaling and vision. Confidence in this label is Medium.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0071902","count":3},{"id":"GO:0045944","count":3},{"id":"GO:0031954","count":3},{"id":"GO:0007602","count":3}]},{"hash":"1746447163501513497","title":"Unfolded protein response and proteostasis","description":"This cluster centers on ER stress\u2013related proteostasis: unfolded protein response, regulation of translation during ER stress, and ubiquitin-dependent degradation (ERAD). While several terms point to broader stress signaling (hydrogen peroxide, TGF-beta) and development, the core theme is ER stress\u2013driven protein quality control and turnover. Confidence: Medium","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036494","count":3},{"id":"GO:0006986","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0045087","count":3}]},{"hash":"471788291057290781","title":"Vertebrate development and Wnt signaling","description":"Because the proteins are enriched for multiple vertebrate developmental processes (retina development, neural tube closure, skeletal system development, keratinocyte differentiation) and signaling-related terms (positive regulation of canonical Wnt signaling, regulation of GTPase activity), with accompanying apoptosis and ER-stress responses, the cluster seems driven by developmental differentiation coordinated by Wnt signaling rather than a single specific process.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0060041","count":4},{"id":"GO:0006813","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0006915","count":4}]},{"hash":"318117716523590593","title":"Embryonic organogenesis and transcription regulation","description":"The terms point to organ development across multiple systems (otic placode/ear, lacrimal gland, metanephric nephron/ureteric bud), coupled with transcriptional control (DNA-templated transcription and regulation by RNA polymerase II). This suggests a cohesive theme of developmental gene regulation guiding organogenesis, even though some terms (like DNA transposition) are less central. Overall, the cluster seems to reflect embryonic organ formation coordinated by transcriptional processes.","confidence":"High","size":12,"edges":59,"triangles":158,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043049","count":5},{"id":"GO:0032808","count":5},{"id":"GO:0090190","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0072289","count":5}]},{"hash":"980928633296778154","title":"Unknown","description":"The top GO terms cover a wide range of unrelated processes (lipopolysaccharide biosynthesis, phospholipid dephosphorylation, metal ion transport, testosterone response, P450 epoxygenase pathway, calcium homeostasis, serine biosynthesis, stilbene catabolism). There is no coherent, single theme tying these functions together, so a precise, representative label cannot be assigned.","confidence":"","size":12,"edges":6,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":6},{"id":"GO:0046839","count":4},{"id":"GO:0071577","count":4},{"id":"GO:0097755","count":4},{"id":"GO:0046272","count":4}]},{"hash":"1787741471219903329","title":"Hydroxyproline-rich plant cell-wall glycoprotein glycosylation","description":"The GO terms cluster around Hyp-O-glycosylation, arabinogalactan protein metabolism, and related polysaccharide biosynthesis, all characteristic of plant cell-wall glycoproteins (especially AGPs). While a few terms refer to other developmental contexts, the dominant theme is hydroxyproline-rich protein glycosylation and Arabinogalactan Protein\u2013type glycan assembly.","confidence":"Medium","size":12,"edges":9,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0018258","count":3},{"id":"GO:0030311","count":3},{"id":"GO:0010405","count":3},{"id":"GO:0010493","count":3},{"id":"GO:0080147","count":3}]},{"hash":"90014504724286781","title":"ERAD and Ubiquitination Stress Response","description":"This cluster shows enrichment for ER-associated degradation via ubiquitin tagging and protein sumoylation, along with signals linked to inflammatory and hormonal stress pathways (TNF signaling, glucocorticoid signaling) and transcriptional regulation, suggesting a functional module coordinating ER protein quality control with stress-responsive signaling and gene expression.","confidence":"Medium","size":12,"edges":10,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1903071","count":4},{"id":"GO:0016925","count":4},{"id":"GO:1903265","count":4},{"id":"GO:0051865","count":4},{"id":"GO:0030433","count":4}]},{"hash":"159660573946185961","title":"Golgi\u2013ER Secretory Vesicle Trafficking","description":"The top GO terms point to vesicle transport through the secretory pathway, with focus on ER\u2013Golgi and Golgi\u2013to\u2013plasma membrane trafficking, as well as general protein transmembrane transport. Filopodium assembly aligns with membrane remodeling in trafficking, while kidney development may reflect tissue context rather than core function. Together, these terms indicate a coherent role in secretory/vesicular transport along the Golgi\u2013ER\u2013PM axis.","confidence":"High","size":12,"edges":8,"triangles":1,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071806","count":7},{"id":"GO:0001822","count":7},{"id":"GO:0000060","count":7},{"id":"GO:0006890","count":6},{"id":"GO:0090316","count":6}]},{"hash":"654792576727477374","title":"Neural and Sensory System Development","description":"The top GO terms are dominated by brain/forebrain and retina development, as well as visual perception and inner ear morphogenesis, pointing to a shared theme of neural and sensory organ formation and function. While there are a few terms related to general development (e.g., heart and liver), the strongest signals center on neuro-sensory development, supporting this label with some contextual noise.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0043278","count":3},{"id":"GO:0070301","count":3},{"id":"GO:0007420","count":2},{"id":"GO:0000122","count":2}]},{"hash":"1565269482561395484","title":"Developmental Regulation and Transcription","description":"The top GO terms cluster around developmental processes (multicellular organism development, forebrain development) and transcription-related activities (RNA polymerase II transcription initiation and regulation), suggesting a theme of genes involved in controlling development through transcriptional regulation. Additional terms related to carbohydrate metabolism and inflammatory mediators indicate some functional diversity, but the dominant signal is developmental regulation via transcription. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006032","count":2},{"id":"GO:0060528","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0042795","count":1}]},{"hash":"329711565302482228","title":"Neuronal differentiation and axon guidance","description":"These proteins cluster around neuronal development signals, including spinal cord motor neuron fate specification, lateral motor column neuron migration, cerebellar Purkinje cell differentiation, and motor neuron axon guidance, together with actin filament bundle assembly, suggesting a role in neuronal differentiation and cytoskeletal remodeling during axon pathfinding. A few terms (sulfur oxidation, beta-glucan regulation, miRNA silencing, hepatocyte proliferation) may be less directly connected and could reflect annotation noise.","confidence":"Medium","size":12,"edges":46,"triangles":82,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":6},{"id":"GO:0021520","count":5},{"id":"GO:0035847","count":5},{"id":"GO:0019417","count":5},{"id":"GO:0097477","count":5}]},{"hash":"1440979260409254908","title":"Metal ion transport and homeostasis","description":"This cluster centers on transport and regulation of metal ions across membranes, including manganese, sodium, potassium, zinc, copper, and calcium, reflected by terms on transmembrane transport and metal ion homeostasis. An outlier term on vestibulocochlear nerve formation appears unrelated to the core theme, likely annotation noise, but the dominant signal remains metal ion transport and homeostasis.","confidence":"High","size":12,"edges":9,"triangles":4,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0030026","count":6},{"id":"GO:0010107","count":6},{"id":"GO:0046839","count":6},{"id":"GO:1900082","count":6},{"id":"GO:0099132","count":6}]},{"hash":"1426981783562957854","title":"DNA Replication and Cell Cycle","description":"This cluster is dominated by GO terms related to the mitotic cell cycle, DNA-templated transcription, DNA replication, and cell division, with DNA repair also represented. Together these terms point to a core theme of genome maintenance and progression through the cell division cycle. A few additional terms (ER-Golgi transport, SNARE disassembly, and Wnt signaling regulation) may reflect multifunctional proteins or contextual roles but are less central to the cluster\u2019s primary function. Overall, the label captures the predominant biological focus of the proteins in this group.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":9},{"id":"GO:0006351","count":8},{"id":"GO:0006260","count":8},{"id":"GO:0051301","count":7},{"id":"GO:0006888","count":6}]},{"hash":"287994231900699928","title":"Acetylation and Polyamine Metabolism","description":"Several top GO terms center on acetylation and related modifications (N-terminal peptidyl-methionine acetylation, N-terminal protein amino acid propionylation, spermidine/spermine acetylation) and on polyamine catabolism (putrescine catabolic process). This points to a functional cluster around post-translational modifications via acetylation and polyamine metabolism. The other terms touch on related metabolic processes like glucosamine/N-acetylglucosamine metabolism and, less directly, on angiogenesis or chromatid cohesion, but the acetylation/polyamine theme is the strongest unifying signal. Confidence reflects this as a coherent, but not exclusively defined, theme. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006598","count":1},{"id":"GO:0001525","count":1},{"id":"GO:0009447","count":1},{"id":"GO:0017196","count":1},{"id":"GO:0032919","count":1}]},{"hash":"403044527035068403","title":"Dopamine and Adrenergic GPCR Signaling with Drug Response","description":"This cluster centers on GO terms for dopamine and adrenergic receptor signaling, morphine response, and calcium channel regulation, all pointing to GPCR-mediated signal transduction and cellular responses to xenobiotics/drugs; downstream phosphorylation and immune-related chemotaxis terms support a broad signaling/cooperative theme, though a few terms (e.g., electron transport) are less connected, giving a moderate overall cohesion.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042493","count":4},{"id":"GO:0071883","count":3},{"id":"GO:0043278","count":3},{"id":"GO:1901386","count":3},{"id":"GO:0007191","count":3}]},{"hash":"926863549869432305","title":"Neuronal vesicle trafficking and neurotrophin signaling","description":"The cluster shows GO terms centered on intracellular vesicle transport (endosome-lysosome, Golgi to secretory granule, vesicle transport along microtubules) and neuronal-specific processes (anterograde transport of mitochondria in axons/dendrites, neurotrophin production and signaling). This suggests a coherent theme of vesicle movement and neurotrophin-related signaling in neurons, with a couple of regulatory terms that fit into broader neuronal regulation contexts. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008333","count":1},{"id":"GO:1902857","count":1},{"id":"GO:0055107","count":1},{"id":"GO:0032901","count":1},{"id":"GO:0098957","count":1}]},{"hash":"420039476522040520","title":"Innate immune apoptosis and pyroptosis","description":"Based on the top GO terms, the cluster is strongly enriched for apoptotic and pyroptotic pathways (GO:0006915 apoptotic process; GO:0070269 pyroptotic inflammatory response), together with innate immune signaling (GO:1990001; GO:0045087). The presence of ubiquitination (GO:0016567) suggests regulation of protein turnover and signaling; regulation and production of inflammatory mediators (GO:0045083, GO:2000341, GO:0032747), and activation-induced T cell death (GO:0006924). Although one term references mitotic spindle assembly, the dominant theme across the cluster is immune cell death and inflammatory regulation rather than cell division, indicating a coherent group of proteins involved in innate immunity, apoptosis, and cytokine/chemokine control.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0006915","count":11},{"id":"GO:1990001","count":10},{"id":"GO:0070269","count":10},{"id":"GO:0016567","count":10},{"id":"GO:0045087","count":10}]},{"hash":"1647459500190537096","title":"Hippocampal neuron development and cytoskeletal organization","description":"The top GO terms strongly point to hippocampus development and neuronal differentiation, with related processes in cytoskeleton remodeling, cell polarity, and organelle distribution, all of which are central to neuronal maturation during development. The presence of mitotic/division terms aligns with progenitor activity in developing hippocampal tissue, supporting a cohesive theme of hippocampal neuron formation and morphological maturation.","confidence":"High","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021766","count":4},{"id":"GO:0043525","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0051291","count":3},{"id":"GO:0048312","count":3}]},{"hash":"544034756081239680","title":"Nuclear transport and protein modification","description":"The cluster\u2019s top GO terms predominantly involve import into the nucleus and nuclear transport processes: NLS-bearing protein import into nucleus, nuclear pore complex assembly, ribosomal protein import into nucleus, and related translocation terms, suggesting a core theme of nuclear transport. Additional terms on desumoylation regulation and GTPase activity regulation point to broader control of nuclear protein processing and activity. Some terms (intraciliary transport, viral process, apoptotic signaling) are peripheral but do not negate the central theme. ","confidence":"High","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0060188","count":5},{"id":"GO:0006607","count":5},{"id":"GO:0051292","count":5},{"id":"GO:0006610","count":5}]},{"hash":"813013250016942768","title":"Embryonic Development and Stress Response","description":"The terms point to developmental regulation (skeletal, forebrain, neural tube, multicellular development) with transcriptional control (DNA-templated transcription) and linked cellular stress signals (cadmium response, ER stress\u2013related apoptosis). An immune defense term appears, suggesting broader stress signaling. Overall, these proteins seem to function in embryonic/developmental processes modulated by cellular stress pathways, making a cohesive, development-focused cluster with stress regulation. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0071276","count":4},{"id":"GO:0001501","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0050830","count":4}]},{"hash":"1614208640478833450","title":"P450 Epoxygenase Xenobiotic Metabolism","description":"This cluster is dominated by GO terms connecting cytochrome P450 epoxygenases and metabolism of xenobiotics (epoxygenase P450 pathway; dibenzo-p-dioxin, alkaloid, camphor catabolic processes; bile acid biosynthesis). Although a few terms touch development or tissue growth (retina vasculature, prostate gland), the strongest shared theme is detoxification/metabolism of foreign compounds via P450 enzymes. ","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019373","count":4},{"id":"GO:0061298","count":3},{"id":"GO:2001037","count":3},{"id":"GO:0019341","count":3},{"id":"GO:0009822","count":3}]},{"hash":"452735634815580028","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0045617","count":2}]},{"hash":"587983473858467606","title":"Immune cell differentiation and growth factor signaling","description":"The top GO terms point to hematopoietic/immune differentiation (mast cell differentiation; myeloid progenitor differentiation) and immune signaling (GM-CSF production; VEGF/PDGF receptor\u2013related pathways). While there are a few developmental/metabolic terms (lung mesenchyme development; melanocyte migration; vitamin D3 metabolism), the strongest signal is immune/hematopoietic differentiation together with growth factor\u2013mediated signaling, suggesting this cluster centers on immune cell development and its regulation.","confidence":"Medium","size":12,"edges":5,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":7},{"id":"GO:0014068","count":6},{"id":"GO:0060374","count":5},{"id":"GO:0045425","count":5},{"id":"GO:0038091","count":5}]},{"hash":"939006317832923567","title":"Unknown","description":"Top terms are diverse: transcription regulation, translation-related processes (including ER stress), snoRNP assembly, cell division, development, and even viral translation. With many obsolete terms and no connecting edges, there is no clear shared function uniting these proteins. Thus Unknown with None confidence.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016576","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0043278","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0035955","count":2}]},{"hash":"1492122195052884177","title":"Unknown","description":"The terms cover mitochondrial complex I assembly, thiamine biosynthesis regulation, glycolytic fermentation to ethanol, and DNA transposition/integration, plus an obsolete localization term. There are no shared pathways or functions linking the proteins, and the cluster has no edges, so there isn't a coherent theme to name.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032981","count":1},{"id":"GO:1903212","count":1},{"id":"GO:0090180","count":1},{"id":"GO:2001172","count":1},{"id":"GO:0015074","count":1}]},{"hash":"1453549314621850926","title":"Developmental signaling and morphogenesis","description":"The top GO terms cluster around development (multicellular organism development, hippocampus development, cell morphogenesis) and signaling pathways (CAMKK-AMPK, Wnt) with supporting calcium signaling and angiogenesis, suggesting a theme of developmental signaling and tissue remodeling across different systems. While some terms are orthogonal, the overall pattern supports a label focused on developmental signaling and morphogenesis.","confidence":"Medium","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0061762","count":1},{"id":"GO:0060374","count":1},{"id":"GO:0045766","count":1}]},{"hash":"598133138870426481","title":"Neural development and synaptic signaling","description":"Based on the GO terms, the cluster is dominated by neural and visual system processes: axonogenesis, retina layer formation, visual perception, excitatory postsynaptic potentials, long-term synaptic potentiation, and regulation of synaptic vesicle endocytosis, indicating a cohesive neural/retinal signaling module. Some terms like heart development and ABA signaling are outliers but do not override the central theme.","confidence":"Medium","size":12,"edges":9,"triangles":4,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007409","count":7},{"id":"GO:1900242","count":7},{"id":"GO:0010842","count":7},{"id":"GO:0010800","count":6},{"id":"GO:0007507","count":6}]},{"hash":"142522896894121644","title":"Unknown","description":"The GO terms span immune signaling, hormone/steroid response, insulin secretion, sex differentiation, and basic metabolic biosynthesis, with only a couple of weak connections. There is no single unifying function that clearly ties these proteins together, and the network is sparse, so a specific, representative label cannot be reliably assigned.","confidence":"","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035971","count":1},{"id":"GO:0050860","count":1},{"id":"GO:0051350","count":1},{"id":"GO:2000984","count":1},{"id":"GO:0035774","count":1}]},{"hash":"1866023654296288855","title":"Synaptic vesicle priming and glutamatergic transmission","description":"The cluster is most strongly characterized by GO terms related to synaptic vesicle maturation and priming, and a term for glutamatergic synaptic transmission, pointing to a role in vesicle trafficking and excitatory neurotransmission. While other signaling terms (e.g., insulin signaling, phagocytosis regulation) appear, the vesicle/neuronal communication terms best capture the dominant theme of this cluster. ","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009395","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0035773","count":2},{"id":"GO:0038028","count":2},{"id":"GO:0050764","count":2}]},{"hash":"1435940329889185731","title":"Unknown","description":"Top GO terms are highly diverse and do not reveal a single coherent function for the cluster. Terms span neural-related processes (visual learning, regulation of forward locomotion, octopamine biosynthesis), stress and cell fate (peptidyl-serine autophosphorylation, cellular response to glucose starvation, extrinsic apoptotic signaling, oligodendrocyte apoptotic process, replicative senescence), immune signaling (cytokine production), and even insect cuticle biosynthesis (obsolete). With no interactions (Edges: 0; Triangles: 0) and no convergent pathway, it is not possible to assign a meaningful label. Therefore Unknown.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008542","count":2},{"id":"GO:0036289","count":2},{"id":"GO:0097252","count":2},{"id":"GO:0090399","count":2},{"id":"GO:0042149","count":2}]},{"hash":"554442436334682803","title":"Retroviral Entry and Genome Integration","description":"The GO terms point to stages of the retroviral life cycle: entry into the host cell, reverse transcription (RNA-templated DNA synthesis), integration of viral DNA into the host genome, and proviral latency, along with viral nuclear entry. Additional terms reflect intracellular transport along microtubules and host defense manipulation (e.g., RNAi suppression). While some terms may be general cellular processes, the cluster is best represented by a retroviral replication/latency theme.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007018","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0006260","count":2}]},{"hash":"947629924813460132","title":"Developmental signaling and morphogenesis","description":"The cluster\u2019s GO terms point to signaling pathways that drive development and tissue remodeling, including PI3K signaling, VEGF/PDGF receptor\u2013mediated growth, synapse formation, excitatory neuronal activity, and morphogenetic processes like gland branching and hormonal responses. Although some terms are neural-specific, the shared theme is growth-factor\u2013driven development and morphogenesis across tissues. ","confidence":"Medium","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0000186","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0051965","count":3}]},{"hash":"482809405859889334","title":"Calcium-Driven Signaling and Hormonal Secretion","description":"The top GO terms suggest a set of proteins involved in calcium-mediated signaling that governs diverse physiological processes, including stress/temperature responses, neuroendocrine secretion (vasopressin), and downstream signaling events (e.g., pain perception, immune regulation). While the functions are broad, calcium signaling appears as a unifying mechanism tying these processes together across tissues such as nervous, endocrine, and cardiac systems.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051209","count":9},{"id":"GO:0002024","count":8},{"id":"GO:0071502","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0045083","count":5}]},{"hash":"1380326568203662408","title":"Unknown","description":"The terms mix mitochondrial lipid biosynthesis and dynamics with unrelated processes (P granule organization, DNA/RNA turnover), giving no clear single function to tie the cluster together. ","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006654","count":1},{"id":"GO:0030719","count":1},{"id":"GO:0048017","count":1},{"id":"GO:0010636","count":1},{"id":"GO:0016042","count":1}]},{"hash":"538445895611734415","title":"Developmental signaling and cytoskeletal remodeling","description":"The set includes GO terms tied to signaling responses (IGF and TGF-beta) that influence growth and development, plus roles in innate immunity and heart and synaptic plasticity. Shared themes are signaling-driven regulation of the cytoskeleton (actin crosslinking and GTPase activity) and structural remodeling during development and immune processes.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1990314","count":4},{"id":"GO:0071560","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0060291","count":3}]},{"hash":"1754634505284500655","title":"Bacterial cell wall biosynthesis and division","description":"This cluster is dominated by GO terms related to bacterial cell envelope biosynthesis and division: peptidoglycan biosynthesis, Gram-negative-type cell wall biogenesis, cell wall organization, regulation of cell shape, and cell cycle/cell division. Some obsolete terms appear but do not override the central theme of bacterial cell wall synthesis and division.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019408","count":1},{"id":"GO:0071555","count":1},{"id":"GO:0043164","count":1},{"id":"GO:0008360","count":1},{"id":"GO:0006486","count":1}]},{"hash":"1794982816870102027","title":"Innate Immune Cell Differentiation and Regulation","description":"The GO terms cluster around development and control of innate immune cells\u2014natural killer cells, NK T cells, mast cells, and myeloid progenitors\u2014with signals that dampen activation and inflammatory cytokine production (e.g., negative regulation of NK T cell activation, Fc-epsilon receptor signaling). A few terms like angiogenesis and melanocyte adhesion reflect the broader inflammatory milieu linked to immunity. Together they point to maturation and regulated activation of innate immune lineages.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002519","count":1},{"id":"GO:0046814","count":1},{"id":"GO:0001525","count":1},{"id":"GO:0032026","count":1},{"id":"GO:0051134","count":1}]},{"hash":"1480337952479976970","title":"Neural development and synapse formation","description":"The top GO terms emphasize brain development, dendrite regulation, and synapse assembly, along with cell adhesion and neural GPCR signaling, suggesting a cluster enriched for neural development and connectivity. Some terms relate to angiogenesis and gonadal development, but they appear ancillary to the main neural theme.","confidence":"Medium","size":11,"edges":13,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":2},{"id":"GO:0050773","count":2},{"id":"GO:0008284","count":2},{"id":"GO:0007156","count":2},{"id":"GO:0051965","count":2}]},{"hash":"252396843432798023","title":"Rac/Cdc42-driven actin cytoskeleton remodeling","description":"The cluster centers on Cdc42 and Rac signaling, including positive regulation of pseudopodium and lamellipodium assembly and actin polymerization, indicating actin cytoskeleton remodeling governed by Rho family GTPases. EMT-related epithelial-mesenchymal signaling and Wnt pathway regulation align with migratory and developmental contexts that rely on cytoskeletal changes. A couple of terms (glucan biosynthesis regulation, hippocampus development) appear less directly tied, likely serving as peripheral annotations.","confidence":"High","size":11,"edges":33,"triangles":38,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032488","count":6},{"id":"GO:0031274","count":6},{"id":"GO:0010592","count":6},{"id":"GO:0030838","count":6},{"id":"GO:0016601","count":6}]},{"hash":"2267773182373983195","title":"Muscle and Neural Development and Signaling","description":"The cluster centers on heart development, muscle-related processes (myoblast fusion, response to muscle activity, regulation of heart rate), and vascular growth (angiogenesis), with neural signaling themes (excitatory postsynaptic potential, long-term synaptic potentiation, visual perception). Although a plant-specific term (abscisic acid-activated signaling) appears, the dominant GO terms point to musculoskeletal and nervous system development and function, suggesting proteins involved in muscle/heart biology and neural signaling. ","confidence":"Medium","size":11,"edges":32,"triangles":45,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001525","count":6},{"id":"GO:0009738","count":6},{"id":"GO:0014850","count":6},{"id":"GO:0007520","count":6},{"id":"GO:0001975","count":6}]},{"hash":"1281360407133677119","title":"Developmental transcription regulators","description":"The cluster\u2019s top GO terms indicate regulation of DNA-templated transcription along with broad developmental processes (forebrain development, multicellular organism development, cell differentiation), pointing to proteins that govern development through transcriptional control. While a few terms (response to morphine, EMT in the endocardial cushion) seem tangential or obsolete, the common thread is transcriptional regulation during development.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0003323","count":3}]},{"hash":"2236389805426249912","title":"mRNA Splicing, Processing, and Export","description":"The top GO terms cluster around post-transcriptional mRNA maturation: spliceosome-mediated splicing and splice-site recognition, regulation of poly(A) tail shortening, mRNA polyadenylation, mRNA export from the nucleus, and mRNA stability under stress, as well as miRNA-mediated translational repression. This pattern suggests proteins involved in mRNA processing, trafficking, and regulation after transcription, rather than upstream transcriptional functions.","confidence":"High","size":11,"edges":53,"triangles":148,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":11},{"id":"GO:0075525","count":10},{"id":"GO:0006376","count":10},{"id":"GO:0060211","count":10},{"id":"GO:0045292","count":10}]},{"hash":"1986903644443083664","title":"RNA Cap Methylation and Translation; Viral Entry/Replication","description":"The top GO terms point to RNA processing and protein synthesis, including translation (cytoplasmic and general), 7-methylguanosine mRNA capping, cap1 methylation, and various RNA methylations (rRNA and guanine-N7). This indicates a theme around RNA maturation and translation. The presence of virion attachment, membrane fusion with host endosome, and viral RNA genome replication suggests a viral life-cycle context, where these RNA-processing/translation mechanisms may be co-opted or involved in viral entry and replication. Confidence reflects a coherent, but mixed, RNA-processing/translation plus viral lifecycle theme.","confidence":"Medium","size":11,"edges":47,"triangles":121,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0031167","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0097309","count":2},{"id":"GO:0019062","count":2}]},{"hash":"1705843083557319148","title":"Unknown","description":"The GO terms span pain perception, skin differentiation, growth factor responses, and broad signaling/apoptosis processes with no clear single theme tying them together, suggesting pleiotropic roles rather than a cohesive function.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0019233","count":7},{"id":"GO:0071372","count":6},{"id":"GO:0030216","count":6},{"id":"GO:0043113","count":6},{"id":"GO:0051897","count":6}]},{"hash":"1318080627982191848","title":"Cross-tissue Development and Immune Signaling","description":"The top GO terms point to developmental processes in multiple tissues (cartilage, midbrain, lung, and chitin-based cuticle) spanning vertebrate and invertebrate contexts, plus a few immune-related and transcriptional regulation processes (NF-kappaB activation, IL-8 production, apoptosis). This pattern suggests a cluster centered on broad developmental activities with incidental immune signaling components, rather than a single, cohesive pathway. ","confidence":"Low","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051216","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0030901","count":2},{"id":"GO:0040003","count":1},{"id":"GO:0006032","count":1}]},{"hash":"1042792057733425157","title":"Ubiquitin-Dependent Proteostasis and Stress Signaling","description":"The top terms are dominated by ubiquitin-related processes (ERAD, protein catabolic process, autoubiquitination) and a nearby stress signaling axis (regulation of the JNK cascade), suggesting the cluster centers on ubiquitin-mediated protein turnover and associated stress responses. Some terms (transcriptional regulation, pattern formation) are less central but do not override the main theme.","confidence":"High","size":11,"edges":5,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0051865","count":3},{"id":"GO:0046328","count":3}]},{"hash":"1390601191235788057","title":"Chromatin Remodeling and Transcription Regulation","description":"This cluster centers on nuclear processes: chromatin remodeling, histone modification, and transcription regulation, including RNA polymerase I termination, RNA Pol II start-site regulation, and nucleosome positioning, plus RNA export\u2014collectively indicating a role in chromatin dynamics governing transcription and gene expression.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0006363","count":2},{"id":"GO:0043044","count":2},{"id":"GO:0001178","count":2},{"id":"GO:0071441","count":2}]},{"hash":"2097122716291846882","title":"Unknown","description":"The top terms span DNA replication and DNA damage response alongside cardiac conduction, renal and germline development, and calcium signaling, with only 2 edges and no triangles, indicating very weak, scattered connections. There isn\u2019t a single coherent biological theme tying these proteins together, so a concise, unified label isn\u2019t justifiable.","confidence":"","size":11,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0008015","count":2},{"id":"GO:0001824","count":2},{"id":"GO:0086073","count":2},{"id":"GO:1904793","count":2}]},{"hash":"1959677635217328841","title":"Unknown","description":"The top GO terms span disparate areas (bacterial LPS biosynthesis, antibiotic response, retinoid metabolism, developmental patterning, neuronal guidance, and cell adhesion) with no single unifying function, so there isn\u2019t a coherent label to assign beyond Unknown.","confidence":"","size":11,"edges":35,"triangles":47,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:1902987","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0009103","count":2},{"id":"GO:0009954","count":2}]},{"hash":"1451882394482134026","title":"Unknown","description":"The top terms span DNA integration/transposition, plant cytokinin signaling, responses to morphine and type I interferon, and mitotic cell cycle regulation, with several obsolete annotations. This mix lacks a clear, unified biological theme for the cluster, so a cohesive functional label cannot be assigned.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:0006313","count":2},{"id":"GO:0016576","count":2},{"id":"GO:0009736","count":2},{"id":"GO:0043278","count":2}]},{"hash":"472192429149262927","title":"Gene Expression and Mitochondrial Respiration","description":"The cluster combines transcriptional activity and RNA handling (DNA-templated transcription, mRNA export) with cellular trafficking (ER to Golgi transport) and mitochondrial energy functions (complex III assembly, oxidative phosphorylation, aerobic respiration). This suggests a module where gene expression processes are linked to energy production and mitochondrial function. Some terms like cell division or development may reflect broader growth contexts but do not override the core link between expression and metabolism.","confidence":"Medium","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0006888","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0034551","count":2}]},{"hash":"895729234424560433","title":"Mitotic cell cycle and vesicle trafficking","description":"Top GO terms indicate a strong focus on mitosis and cell division (mitotic spindle assembly, mitotic cell cycle, cell division, cell population proliferation), complemented by vesicle trafficking processes (COPII-coated vesicle budding, retrograde Golgi-ER transport) and related regulation (GTPase activity). The inclusion of brain development and multicellular growth suggests developmental context, consistent with proliferation-linked mitotic activity coupled to trafficking. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0035264","count":5},{"id":"GO:0007420","count":5},{"id":"GO:0051301","count":5}]},{"hash":"1894076373026416221","title":"Histone H4 acetylation and transcription regulation","description":"The top GO terms are dominated by histone H4 acetylation at K5, K8, and K16, pointing to chromatin modification. This is complemented by terms for DNA-templated transcription and regulatory signaling, suggesting a general theme of epigenetic control of transcription. Some secondary terms (ubiquitin-dependent proteolysis, phagolysosome assembly) appear less central, but the core signal supports a chromatin modification and transcription regulation cluster.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043982","count":2},{"id":"GO:0043984","count":2},{"id":"GO:0043981","count":2},{"id":"GO:0070306","count":2},{"id":"GO:2000060","count":2}]},{"hash":"1093041434043783919","title":"ER protein folding and stress response","description":"The presence of ER-related terms such as protein folding in the endoplasmic reticulum and response to ER stress suggests a focus on ER-associated protein quality control. Redox homeostasis and prolyl hydroxylation in the ER further support a secretory-pathway/oxidative folding theme. Some transcription and reproductive terms may reflect broader cross-talk or annotations, but the core signal is ER folding and stress response.","confidence":"Medium","size":11,"edges":17,"triangles":11,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0045454","count":5},{"id":"GO:0034975","count":5},{"id":"GO:0043388","count":5},{"id":"GO:0016032","count":5}]},{"hash":"754105755843687908","title":"Developmental signaling and transcription regulation","description":"These proteins appear enriched for processes that coordinate development through regulation of transcription and signaling pathways, including mitotic cell cycle control, DNA-templated transcription, and modulators of kinase and GTPase activity, with a tissue-context hint from skin development. The mix of developmental, transcriptional, and signaling regulators suggests a coherent theme of developmental signaling and transcription regulation.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0006469","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0043547","count":4}]},{"hash":"991677625737736554","title":"Cytoskeleton dynamics and cell polarity in development","description":"The terms cluster around cytoskeleton organization (actin reorganization, crosslinking), spindle assembly, and cell shape/polarity processes, with links to developmental signaling (Wnt) and morphogenesis (cochlea, cortex) across different organisms. This points to a common theme of cytoskeletal regulation guiding cell polarity and morphogenesis rather than a single pathway.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0090263","count":2},{"id":"GO:0030437","count":2},{"id":"GO:0090103","count":2}]},{"hash":"2143253103237337086","title":"Muscle Cytoskeleton Remodeling and Adhesion","description":"The cluster is enriched for Rho GTPase signaling and actin dynamics (activation of GTPase activity; regulation of Rho signaling; filopodium and microspike assembly), plus sarcomere organization and integrin activation, and even heart development. This combination points to coordinated actin cytoskeleton remodeling and cell\u2013ECM adhesion in muscle, particularly cardiac muscle, rather than a general non-muscle process.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0033622","count":2},{"id":"GO:0007507","count":2}]},{"hash":"56233224719814096","title":"GPCR Endocytosis and Signaling Regulation","description":"The GO terms cluster around clathrin-dependent endocytosis, GPCR internalization, GTPase regulation, microtubule-based movement, and ERK cascade modulation, pointing to GPCR trafficking coupled to signaling; a few terms like spinal cord development and androgen receptor signaling may reflect broader or pleiotropic roles of the proteins.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0072583","count":2},{"id":"GO:0002031","count":2},{"id":"GO:0007018","count":2},{"id":"GO:0021510","count":2}]},{"hash":"1370600916998102005","title":"Immune Activation and Inflammatory Signaling","description":"This cluster is dominated by GO terms tied to immune responses and signaling, including responses to lipopolysaccharide, GM-CSF stimulation, T cell receptor signaling, and mast cell differentiation, which together point to immune activation and inflammatory processes. The presence of angiogenesis regulation fits the inflammatory context, while CAMKK-AMPK signaling suggests metabolic support for immune activity. Some terms like dendrite morphogenesis and potassium ion transport are broader or peripheral to the core theme, but the strongest signal is immune signaling. ","confidence":"Medium","size":11,"edges":6,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071222","count":9},{"id":"GO:0006351","count":9},{"id":"GO:0043552","count":9},{"id":"GO:0097011","count":9},{"id":"GO:0006813","count":9}]},{"hash":"1636810878700674782","title":"Transcriptional Regulation and Chromatin Processes","description":"The top terms include DNA-templated transcription and RNA polymerase II preinitiation complex assembly, with meiotic sister chromatid cohesion pointing to chromatin-related regulation. While other terms (viral process, IL-2 production, dopaminergic signaling, membrane raft localization) are more peripheral, they can reflect broader regulatory roles or multifunctional proteins, making transcriptional and chromatin regulation the most coherent core of this cluster.","confidence":"Medium","size":11,"edges":23,"triangles":18,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0045899","count":3},{"id":"GO:1903715","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0051754","count":2}]},{"hash":"96625024998623973","title":"DNA replication and genome maintenance","description":"This cluster is dominated by GO terms related to mitochondrial DNA repair, telomere maintenance, replication fork reversal, and RNA processing, pointing to a unifying theme of nucleic acid replication and genome integrity across organellar and nuclear contexts; viral-related terms appear but do not override the core pattern.","confidence":"High","size":11,"edges":4,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043504","count":5},{"id":"GO:0019082","count":5},{"id":"GO:0044806","count":5},{"id":"GO:0051974","count":5},{"id":"GO:0006396","count":5}]},{"hash":"909701840243983385","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006229","count":4},{"id":"GO:0046081","count":4},{"id":"GO:0009220","count":4},{"id":"GO:0035863","count":4},{"id":"GO:0006226","count":4}]},{"hash":"873230139205985044","title":"Cytoskeletal Dynamics and Signaling","description":"This cluster centers on cytoskeletal processes (microtubule nucleation, spindle pole body duplication, and cytoskeleton-dependent transport) and broad signaling and regulatory activities (cAMP/epinephrine responses, plant ABA signaling, Fc-epsilon receptor signaling, calcium channel regulation, and protein phosphorylation/methylation), suggesting coordinated regulation of cytoskeletal dynamics with signaling. ","confidence":"Medium","size":11,"edges":35,"triangles":50,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007020","count":8},{"id":"GO:1903087","count":8},{"id":"GO:0051591","count":7},{"id":"GO:0071872","count":6},{"id":"GO:0019749","count":5}]},{"hash":"1365654929185581955","title":"Cerebellar development and Bergmann glia differentiation","description":"The top terms are dominated by cerebellar-specific processes (cerebellar cortex formation, Bergmann glial cell differentiation, and regulation of axon regeneration), pointing to a cohesive theme around cerebellar neural development and glial involvement. Other terms reference broader signaling or cell-cycle aspects, but the strongest signal centers on cerebellar development and Bergmann glia differentiation.","confidence":"Medium","size":11,"edges":20,"triangles":11,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021697","count":8},{"id":"GO:0045736","count":8},{"id":"GO:0060020","count":8},{"id":"GO:0034501","count":8},{"id":"GO:0048679","count":8}]},{"hash":"2188998204849749977","title":"Osteoblast Differentiation and Integrin Signaling","description":"This cluster centers on osteoblast differentiation and its regulation (GO:0001649, GO:0045667), with strong signals for integrin-mediated signaling and cell-matrix adhesion (GO:0007229, GO:0007161). The combination suggests a bone formation program driven by extracellular matrix interactions and adhesion receptors, complemented by stem cell differentiation and matrix remodeling via metallopeptidases. Some endodermal differentiation terms appear but do not override the dominant osteogenic theme.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":4},{"id":"GO:0043569","count":3},{"id":"GO:0007161","count":3},{"id":"GO:0035987","count":3},{"id":"GO:0001558","count":3}]},{"hash":"135894459263641262","title":"mRNA Splicing and Processing Regulation","description":"The top GO terms are centered on mRNA processing\u2014especially spliceosome-mediated splicing, splice site recognition, and polyadenylation\u2014with several entries highlighting regulatory roles in splicing and mRNA stability (including stress responses and ncRNA-mediated silencing). These collectively point to a cluster of proteins involved in regulating pre-mRNA processing and mRNA turnover rather than a single, narrow function.","confidence":"High","size":11,"edges":21,"triangles":10,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":7},{"id":"GO:0006378","count":7},{"id":"GO:0031047","count":7},{"id":"GO:0048026","count":7},{"id":"GO:1901407","count":6}]},{"hash":"744695185719401153","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050936","count":1},{"id":"GO:0035206","count":1},{"id":"GO:0001711","count":1},{"id":"GO:0019827","count":1},{"id":"GO:0032968","count":1}]},{"hash":"381415767069210771","title":"Ion transport and calcium homeostasis","description":"This cluster is dominated by GO terms related to ion transport and calcium handling, including intracellular manganese ion homeostasis, monoatomic cation transmembrane transport, calcium ion import into the sarcoplasmic reticulum, and Golgi calcium ion homeostasis. These together suggest a shared role in maintaining cellular ion balance and membrane transport. A few terms (lipopolysaccharide biosynthesis, prostaglandin metabolism) are less connected, but the dominant pattern supports ion transport/homeostasis as the label.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":2},{"id":"GO:0006693","count":2},{"id":"GO:0030026","count":1},{"id":"GO:0010107","count":1},{"id":"GO:0046839","count":1}]},{"hash":"832332819530515899","title":"RNA Processing, Editing, and Translational Regulation","description":"The terms cluster around RNA maturation and modification (pre-miRNA, siRNA, tRNA, mRNA processing, RNA splicing, A-to-I editing) and also include translational control via eIF2\u03b1 phosphorylation, indicating a cohesive RNA metabolism and translation-regulation group. Some terms are tangential, but the core theme is RNA processing and regulation.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009047","count":1},{"id":"GO:0031054","count":1},{"id":"GO:0070934","count":1},{"id":"GO:0008380","count":1},{"id":"GO:0008033","count":1}]},{"hash":"245023139745454077","title":"GPCR-Mediated Neurotransmitter Signaling","description":"The Top Terms are dominated by GPCR pathways: adrenergic and dopamine receptor signaling, adenylate cyclase activation, MAPK activation, morphine response, and calcium channel regulation, all pointing to GPCR-driven intracellular cascades (cAMP, Ca2+, phosphorylation). The presence of eosinophil chemotaxis and IL-8 production suggests some immune-related downstream effects, but the central theme remains GPCR-mediated signal transduction and downstream phosphorylation events.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071883","count":10},{"id":"GO:0043278","count":10},{"id":"GO:1901386","count":10},{"id":"GO:0007191","count":10},{"id":"GO:0048245","count":10}]},{"hash":"257513404907175105","title":"Unknown","description":"This cluster shows a mix of GO terms across defense, metabolism, neural signaling, and energy production, with no clear shared function tying all proteins together, so a cohesive label is not supported.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007626","count":7},{"id":"GO:0009253","count":5},{"id":"GO:0016998","count":5},{"id":"GO:0019076","count":5},{"id":"GO:0043278","count":4}]},{"hash":"1273884340142881553","title":"Light-Regulated Transcription and Circadian Control","description":"Most terms point to transcriptional regulation in response to light, especially far-red signaling and phototransduction, plus circadian rhythm regulation, consistent with plant light signaling. A few terms (DNA transposition, histone dephosphorylation, asymmetric neuroblast division) seem less related and may reflect annotation noise.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090305","count":1},{"id":"GO:0006313","count":1},{"id":"GO:0061400","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0042753","count":1}]},{"hash":"916907936495622934","title":"Light-regulated chromatin modification and DNA repair","description":"This cluster centers on chromatin state and genome maintenance, including histone H3-K36 dimethylation, DNA repair and recombination activities, and regulation of DNA-templated transcription, with additional links to circadian rhythm and red/far-red light signaling\u2014consistent with plant, light-regulated gene expression networks.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097676","count":2},{"id":"GO:2000373","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0090305","count":2},{"id":"GO:2001034","count":2}]},{"hash":"1710172846607679760","title":"Golgi-ER vesicle transport","description":"The top GO terms point to transport from the endoplasmic reticulum to the Golgi and from early endosomes to the Golgi, indicating a secretory/vesicle- trafficking focus. Some neural development and signaling terms appear, but they seem less central to the core function of the cluster. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034498","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0016358","count":3},{"id":"GO:0060684","count":2},{"id":"GO:0032949","count":2}]},{"hash":"429056555200294256","title":"Unknown","description":"The top GO terms span diverse processes (DNA transposition, xenobiotic response, redox homeostasis, cell cycle regulation, lipid signaling, glyogen synthase regulation, skin development, renal water transport, and mRNA stability). With no clear single function or pathway linking them and no edges in the network, these genes appear functionally heterogeneous rather than forming a cohesive cluster. ","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090305","count":1},{"id":"GO:0006313","count":1},{"id":"GO:0042493","count":1},{"id":"GO:0045454","count":1},{"id":"GO:1900087","count":1}]},{"hash":"1021360988923786345","title":"Developmental signaling and cell migration","description":"This cluster centers on integrin signaling, angiogenesis, and fibroblast migration, with neural development (cerebellar cortex development) as a theme, suggesting roles in developmental signaling and tissue remodeling. The presence of DNA replication/repair, metabolism, and innate immune terms indicates additional, broader cellular processes, but the strongest signal ties to development-associated signaling and cell movement.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":3},{"id":"GO:0021695","count":2},{"id":"GO:0006006","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0045766","count":2}]},{"hash":"1758417741953301091","title":"Chromatin Regulation and Transcription in Development","description":"The cluster\u2019s GO terms cluster around chromatin-level control of gene expression (nucleosome remodeling, histone modifications, heterochromatin formation) and transcription initiation, paired with developmental processes (segment specification, vegetative-to-reproductive timing, Wnt signaling). A regulatory ncRNA\u2013mediated silencing term also fits the gene-expression regulation theme. Although a preribosome assembly term appears, the dominant signal is epigenetic transcriptional regulation within developmental contexts.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016246","count":1},{"id":"GO:0048510","count":1},{"id":"GO:2000096","count":1},{"id":"GO:0006367","count":1},{"id":"GO:0007379","count":1}]},{"hash":"914359894041974455","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001711","count":1},{"id":"GO:0006368","count":1},{"id":"GO:0009910","count":1},{"id":"GO:0032968","count":1},{"id":"GO:2001209","count":1}]},{"hash":"121462194771416758","title":"Pyrimidine Nucleotide Metabolism","description":"Most of the top GO terms cluster around dUTP/dITP/dUMP biosynthesis and pyrimidine ribonucleotide biosynthesis, pointing to a cohesive theme of pyrimidine nucleotide metabolism. A few RNA processing terms appear at low frequency, likely incidental annotations rather than defining the cluster.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006229","count":7},{"id":"GO:0046081","count":7},{"id":"GO:0009220","count":7},{"id":"GO:0035863","count":7},{"id":"GO:0006226","count":7}]},{"hash":"362420219165601478","title":"Ubiquitin-Dependent Proteolysis and Cell Cycle","description":"This cluster centers on ubiquitin-dependent protein catabolic processes and the mitotic cell cycle, indicating proteins involved in regulating cell division via targeted protein degradation. While a few terms are plant- or drug-related or obsolete, the dominant signals point to proteostasis coupled with cell-cycle control, with chromatin/chromosome-related processes contributing to division. Overall, a concise label focusing on proteolysis and cell-cycle regulation best captures the shared themes.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0016576","count":2},{"id":"GO:0009736","count":2}]},{"hash":"721951077410585738","title":"T cell cytokine signaling and immunoregulation","description":"This set shows enrichment for immune-regulatory processes, especially T cell cytokine signaling: regulated IL-12/IL-23 production, chemokine regulation (CXCL2), and immunoglobulin-mediated responses, along with T cell activation-induced cell death. These together define a theme of T cell\u2013driven immune regulation.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045083","count":1},{"id":"GO:0006924","count":1},{"id":"GO:2000341","count":1},{"id":"GO:0032747","count":1},{"id":"GO:0016064","count":1}]},{"hash":"2168876433507956721","title":"Unknown","description":"The top GO terms span very diverse processes: Golgi to vacuole transport, menaquinone biosynthesis, rRNA methylation, cellular senescence and aging, immune-related responses (response to tumor cell, interleukin-1), post-translational modifications (peptidyl-lysine dimethylation), vitamin E biosynthesis, and stress responses (immobilization stress). There is no clear, cohesive function uniting these terms across the cluster, so a single interpretable label is not apparent; thus Unknown with no confident functional grouping.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006896","count":2},{"id":"GO:0009234","count":1},{"id":"GO:0070476","count":1},{"id":"GO:0090398","count":1},{"id":"GO:0002347","count":1}]},{"hash":"789820359026152186","title":"Neural development: axon guidance and synapse formation","description":"The cluster\u2019s top GO terms cluster around neural connectivity and development: axon guidance (retinal ganglion cell axon guidance, axon extension in guidance), synapse assembly, and neural signaling (G protein-coupled acetylcholine receptor signaling). Additional terms point to neuronal development in specific brain regions and extracellular interactions relevant to guidance and synaptogenesis, supporting a cohesive theme of establishing neural connectivity.","confidence":"High","size":11,"edges":43,"triangles":80,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0002042","count":3},{"id":"GO:0031290","count":3},{"id":"GO:0043113","count":3},{"id":"GO:0019800","count":3},{"id":"GO:0051965","count":3}]},{"hash":"573526243085129555","title":"Epigenetic Regulation of Development","description":"The top GO terms point to developmental differentiation (intestinal epithelial differentiation, myotube development, placental morphogenesis, hematopoietic progenitor differentiation) and chromatin/modification processes (peptidyl-lysine dimethylation, histone acetylation/methylation, DNA methylation). This suggests a cohesive theme where epigenetic regulation of gene expression influences developmental pathways, with additional context around hypoxia and respiration. Confidence in this link is Moderate, given the mix of related and more distant terms.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060575","count":1},{"id":"GO:1903715","count":1},{"id":"GO:1901674","count":1},{"id":"GO:0014904","count":1},{"id":"GO:0098532","count":1}]},{"hash":"620784044169115739","title":"Nuclear RNA Processing & Transcription Regulation","description":"Dominant terms center on RNA processing and transcription control in the nucleus (splicing, mRNA capping, and negative regulation of RNA Pol II), with supporting signals for nucleolar localization. An outlier term on autophagosome maturation suggests some functional diversity, but the core theme is RNA processing/transcription regulation.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0097352","count":2},{"id":"GO:0051096","count":1},{"id":"GO:0032211","count":1}]},{"hash":"1799367989421876265","title":"Regulators of Rho/Rac/Ras GTPase Signaling","description":"Based on the strongly enriched GO terms for regulation of Rho, Ras, and Rac GTPase signaling and the general small GTPase\u2013mediated signal transduction term, these proteins appear to function as regulators/modulators of small GTPase pathways. While some heart development and secretion terms are present, they may reflect broader roles of these signaling proteins rather than cluster-specific function.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0046580","count":3},{"id":"GO:0016082","count":3}]},{"hash":"51014877594912333","title":"Calcium-Dependent Secretion and Signaling Regulation","description":"The top GO terms emphasize negative regulation of angiogenesis and VEGF signaling, calcium-triggered neurotransmitter exocytosis, insulin secretion, and intracellular transport, pointing to a module that links vesicle-mediated secretion with broader signaling and developmental programs. ABA signaling and lipid catabolism appear as broader membrane- and stress-related aspects, but the core theme remains regulation of secretion and signaling.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0030948","count":6},{"id":"GO:0016525","count":6},{"id":"GO:0009395","count":5},{"id":"GO:0009738","count":5},{"id":"GO:0010793","count":5}]},{"hash":"1010207250686934210","title":"ER Stress Proteostasis and Trafficking","description":"The top GO terms cluster around managing protein quality under stress: ER stress\u2013related translation initiation regulation, misfolded protein transport, and post-translational targeting/trafficking, along with redox homeostasis and nuclear export regulation. This points to a cohesive theme of proteostasis and protein localization during stress, with emphasis on ER-associated processes and trafficking. ","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1901621","count":2},{"id":"GO:0031204","count":2},{"id":"GO:0051259","count":2},{"id":"GO:0006626","count":2},{"id":"GO:0045454","count":2}]},{"hash":"844230957452179343","title":"Rho GTPase Signaling and Axon Guidance","description":"These terms converge on Rho GTPase signaling controlling cytoskeleton and cell movement, with semaphorin-plexin signaling and promotion of axonogenesis indicating neuronal guidance. The remaining terms are ancillary but compatible with signaling dynamics during migration and mechanotransduction. Therefore the label captures the core function of this cluster.","confidence":"High","size":10,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":1},{"id":"GO:0032889","count":1},{"id":"GO:0007266","count":1},{"id":"GO:1901164","count":1},{"id":"GO:0071461","count":1}]},{"hash":"1238548984580569809","title":"Broad Metabolic Biosynthesis and Degradation","description":"The top GO terms point to a mix of biosynthetic processes (fatty acid, menaquinone, phylloquinone, lipopolysaccharide, pyridoxine, serine) and catabolic pathways (phenylacetate, L-valine), including antibiotic biosynthesis. This suggests proteins in the cluster participate in diverse metabolic pathways rather than a single specific function, warranting a broad \u201cmetabolic biosynthesis and degradation\u201d label.","confidence":"Medium","size":10,"edges":31,"triangles":49,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006635","count":4},{"id":"GO:0017000","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0009234","count":3},{"id":"GO:0010124","count":3}]},{"hash":"1182152988038389419","title":"Dendritic Spine Morphogenesis and Synaptic Development","description":"Top GO terms indicate neuronal development and synapse formation/maturation, especially dendritic spine morphogenesis and synaptic plasticity (long-term depression), with supporting signals for axonogenesis and innervation. A few terms are obsolete or unrelated (vascular/fertilization), but the core pattern points to neural development rather than other processes.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0060997","count":2},{"id":"GO:0060292","count":2},{"id":"GO:0051660","count":2},{"id":"GO:0070940","count":2}]},{"hash":"2215895104965227830","title":"Embryonic development and tissue differentiation","description":"The top GO terms point to diverse embryonic and developmental processes across multiple tissues\u2014cranial skeleton morphogenesis, pituitary and cerebral cortex development, floor plate formation, left/right patterning, in utero development, and differentiation of muscle and retinal amacrine cells, as well as lung vasculature\u2014indicating a broad development/differentiation program rather than a single pathway.","confidence":"High","size":10,"edges":36,"triangles":59,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0048701","count":3},{"id":"GO:0051573","count":3},{"id":"GO:0021983","count":3},{"id":"GO:0021987","count":3},{"id":"GO:0035914","count":3}]},{"hash":"1646690719694107282","title":"DNA Transposition and Morphogenesis","description":"Top GO terms are dominated by DNA integration and DNA transposition, indicating transposon-related activity among cluster members. Alongside, several morphogenesis terms (antennae, otic vesicle, neural tube patterning, bone/face/muscle morphogenesis) suggest involvement in developmental patterning. The cluster thus appears to connect transposon-related processes with morphological development, justifying a label that reflects both aspects, though transposition terms are more prominent.","confidence":"Medium","size":10,"edges":31,"triangles":55,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0015074","count":5},{"id":"GO:0006313","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0007469","count":2},{"id":"GO:0071599","count":2}]},{"hash":"1067195128033665843","title":"DNA transposition and recombination","description":"The top GO terms are dominated by DNA integration, DNA recombination, and DNA transposition, suggesting these proteins participate in mobile genetic elements or genome rearrangement. Some other terms (chromatin modification, antibacterial response, fertilization) appear infrequently and may reflect broader annotation or secondary roles, but they are not strongly representative. Overall, the cluster appears to group DNA mobility/recombination-related proteins.","confidence":"Medium","size":10,"edges":9,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0006313","count":1},{"id":"GO:0031639","count":1},{"id":"GO:0034184","count":1}]},{"hash":"1175529105333823709","title":"Transcription Regulation & Chromatin Remodeling","description":"The top GO terms are dominated by negative regulation of transcription by RNA polymerase II and chromatin remodeling, pointing to a core function in controlling gene expression. Additional terms involve signaling and differentiation pathways (Wnt signaling, cAMP response, megakaryocyte differentiation) and inflammation, which commonly act through transcriptional programs and chromatin changes. Together these terms suggest a cohesive theme around transcriptional regulation and chromatin dynamics, with broader regulatory roles in signaling and development.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0045654","count":2},{"id":"GO:0043044","count":2},{"id":"GO:0043046","count":2},{"id":"GO:0071320","count":2}]},{"hash":"1225056089388084002","title":"Central carbon and folate metabolism","description":"The top GO terms cluster around core metabolic pathways: glycolysis, 2-oxoglutarate metabolism, dihydrolipoamide-related processes, tetrahydrofolate metabolism, and beta-alanine biosynthesis, suggesting involvement in central carbon flow and folate-associated reactions. Some terms are obsolete or peripheral (embryonic development, camphor catabolism), but the dominant signal is metabolism-related, supporting a coherent metabolic cluster.","confidence":"Medium","size":10,"edges":36,"triangles":65,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0046653","count":3},{"id":"GO:0019483","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0006096","count":2},{"id":"GO:0051068","count":2}]},{"hash":"793582647146401332","title":"Broad-range membrane transporters","description":"The top GO terms are dominated by transmembrane transport across many substrates (nitrate, galactose, arabinose, fucose, vitamins, Na+/K+ ions, xenobiotic), indicating a collection of transporter proteins with diverse substrates rather than a single metabolic pathway. This pattern points to a cluster of membrane transporters facilitating uptake and export of multiple nutrients and ions. Confidence: High","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":3},{"id":"GO:0006855","count":2},{"id":"GO:0015706","count":2},{"id":"GO:0042891","count":2},{"id":"GO:0015757","count":2}]},{"hash":"976046441897296817","title":"Transcriptional Regulation and Differentiation","description":"The cluster shows enrichment for GO terms related to controlling gene expression (regulation of transcription) and cell fate (cell differentiation), with additional signals tied to development (asymmetric neuroblast division) and broad regulatory processes like ubiquitin-dependent protein catabolism. Although other terms touch on stress responses and signaling, the dominant theme is regulatory control of transcription and differentiation, suggesting a broad but coherent regulatory/developmental cluster rather than a single pathway.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0051291","count":4},{"id":"GO:0001666","count":4},{"id":"GO:0016576","count":3},{"id":"GO:0055059","count":3}]},{"hash":"1197302865361981997","title":"Protein ubiquitination and proteolysis","description":"Top GO terms indicate a core theme of protein turnover through ubiquitination and proteolysis, with two hits for each, suggesting these processes are a common function among the proteins. The presence of signaling and development terms (Wnt signaling, EMT, Fc receptor\u2013mediated phagocytosis, hippocampus development) implies broader roles in cellular signaling. Given the strongest shared functions are ubiquitination and proteolysis, this label captures the principal motif in the cluster.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071230","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0060684","count":1},{"id":"GO:0032949","count":1}]},{"hash":"506654506578526287","title":"Innate Immune Trafficking and Turnover","description":"This cluster combines innate immune functions (defense response to virus; innate immune response) with protein handling processes (Golgi localization, protein targeting, nuclear export, ubiquitin-dependent degradation), suggesting proteins that link antiviral defense to intracellular trafficking and turnover rather than a single enzymatic activity.","confidence":"Medium","size":10,"edges":11,"triangles":2,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0046827","count":2},{"id":"GO:0051683","count":2},{"id":"GO:0051291","count":2},{"id":"GO:0045842","count":2},{"id":"GO:0051607","count":2}]},{"hash":"1130227351580661591","title":"Cellular Stress Response and Transcription Control","description":"This cluster centers on processes that link cellular stress responses (ER stress, mitophagy, ubiquitin/proteasome regulation) with transcriptional and chromatin regulation (RNA Pol II, histone methylation, PML bodies), suggesting proteins coordinate gene expression and protein quality control under stress.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006357","count":10},{"id":"GO:0097237","count":10},{"id":"GO:0051572","count":10},{"id":"GO:1902236","count":10},{"id":"GO:0006517","count":10}]},{"hash":"1024136019364619846","title":"Ubiquitin-dependent proteolysis and stress/immune responses","description":"The dominant GO term is ubiquitin-dependent protein catabolic process, with supporting terms for ERAD, unfolded protein response, and cadmium-induced cellular stress, which together point to proteostasis mechanisms. In addition, innate immune response and defense against virus terms suggest immune signaling linked to stress responses. A few terms are obsolete or less directly connected (e.g., morphine response, histone dephosphorylation), but the core set centers on protein turnover and cellular stress responses, which often accompany antiviral defenses. Despite no network edges, the cluster appears to collect proteostasis and innate immune\u2013related functions.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0045087","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0051607","count":4},{"id":"GO:0016576","count":4}]},{"hash":"1343781798122958607","title":"Core cellular growth and metabolism","description":"Reason: The top GO terms point to a broad set of foundational cellular processes\u2014cell division, transcription, chromatin formation, sporulation, nutrient response, and multiple metabolic pathways (methionine cycle, selenium metabolism, photosynthetic carbon pathway, SAH catabolism). This mix suggests a general housekeeping cluster reflecting core growth and metabolic activity rather than a single, cohesive pathway. Confidence is moderate due to the diversity of terms spanning multiple contexts.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0000183","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0030435","count":2},{"id":"GO:0035635","count":2}]},{"hash":"2194747674808404593","title":"RNA processing and translational control","description":"The GO terms cluster around mRNA processing steps (splicing, splice site recognition, polyadenylation) and post-transcriptional regulation of translation (initiation, miRNA-mediated silencing), including stress-related mRNA stability, suggesting a coordinated role in mRNA fate from splicing to translation.","confidence":"High","size":10,"edges":22,"triangles":24,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":5},{"id":"GO:0006378","count":5},{"id":"GO:0010610","count":5},{"id":"GO:0075525","count":4},{"id":"GO:0006376","count":4}]},{"hash":"1265610230522883565","title":"DNA replication and genome maintenance","description":"This cluster centers on processes involved in copying and repairing DNA, maintaining genome integrity, and managing replication dynamics, including mitochondrial genome maintenance, telomere maintenance, replication fork reversal, and RNA primer removal during replication. The mix of nuclear and mitochondrial genome maintenance terms suggests a cohesive function in guarding genome stability during replication.","confidence":"High","size":10,"edges":16,"triangles":5,"max_degree":5,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":3},{"id":"GO:0006355","count":2},{"id":"GO:0043504","count":2},{"id":"GO:0044806","count":2},{"id":"GO:0051974","count":2}]},{"hash":"1156106843334262178","title":"Mitotic spindle and microtubule organization","description":"The top GO terms cluster around cell division, cell cycle progression, mitotic spindle midzone assembly, cytokinesis, and cytoplasmic microtubule organization, which point to mitosis and cytoskeletal dynamics as the shared function of the proteins. A couple of terms like liver development and potassium transport appear as less central annotations, but they do not override the primary mitotic/cytoskeletal theme.","confidence":"High","size":10,"edges":13,"triangles":8,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0001889","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0060081","count":2}]},{"hash":"54760438075780396","title":"Diverse Metabolic and Organ Development","description":"This cluster includes metabolism-related GO terms (androgen metabolic process, L-arginine biosynthetic process, response to starvation/food) and organ-development terms (liver development, hepatocyte differentiation, retina vasculature development, tongue muscle differentiation). The mixture suggests proteins with roles in both metabolic regulation and tissue differentiation across multiple organs, though the low connectivity indicates a heterogeneous group rather than a single cohesive pathway.","confidence":"Low","size":10,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":3},{"id":"GO:0070365","count":3},{"id":"GO:0032094","count":3},{"id":"GO:0030435","count":2},{"id":"GO:0006526","count":2}]},{"hash":"2108460885459238280","title":"Brain development and synaptic signaling","description":"The top GO terms are centered on neural development (hippocampus and brain development) and neuronal communication (regulation of synaptic vesicle exocytosis, Wnt signaling), suggesting the proteins function in neural development and synaptic signaling pathways. A couple of outliers (mating projection growth, glucan biosynthesis) may be noise or broader signaling links, but the neural/theme terms dominate. ","confidence":"High","size":10,"edges":5,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021766","count":6},{"id":"GO:0010796","count":6},{"id":"GO:2000300","count":6},{"id":"GO:0007420","count":6},{"id":"GO:0043525","count":6}]},{"hash":"263428110109113071","title":"DNA transposition and recombination proteins","description":"This cluster is driven by GO terms for DNA transposition and DNA recombination, pointing to genome-mobility activities such as transposases or recombinases. Auxiliary terms like brain development or xenobiotic response are low-frequency and do not define the cluster, so the main theme is transposition/recombination. Overall, the connection is plausible but not exclusively cohesive, hence a Medium confidence.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006313","count":3},{"id":"GO:0006310","count":3},{"id":"GO:0075713","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0042493","count":1}]},{"hash":"266012237354940910","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0006096","count":2},{"id":"GO:0006094","count":2},{"id":"GO:0006412","count":2}]},{"hash":"1083916994071947929","title":"ER protein quality control and UPR","description":"The cluster shows enrichment for ER-associated processes: ER unfold protein response, ER-to-Golgi transport, and chaperone-mediated protein complex assembly, indicating a focus on ER protein folding and quality control. Some terms touch mitochondrial respiration and mRNA export, which may reflect broader cellular context, but the dominant theme is ER stress response and protein quality control.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":2},{"id":"GO:0006888","count":1},{"id":"GO:0034551","count":1},{"id":"GO:1903862","count":1},{"id":"GO:0090261","count":1}]},{"hash":"2172002016340383555","title":"Kinase-driven cell cycle signaling","description":"The top GO terms cluster around mitotic cell cycle processes and phosphorylation dynamics\u2014protein dephosphorylation, positive regulation of serine/threonine kinase activity, and autophosphorylation\u2014pointing to kinase-mediated control of cell cycle progression. Supporting terms like GTPase activity regulation and stress/hormone signaling add context but the core theme remains phosphorylation-based signaling linked to cell cycle control.","confidence":"Medium","size":10,"edges":9,"triangles":3,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0006470","count":5},{"id":"GO:0071902","count":4},{"id":"GO:0031954","count":4},{"id":"GO:0051028","count":4}]},{"hash":"962290710059823515","title":"Unknown","description":"This cluster includes terms for cell cycle, DNA replication, and cell division, but also development, heart and visual system terms, and innate immunity, with no single clear shared function linking them. Given the heterogeneous set of processes and minimal connectivity, there isn\u2019t a cohesive theme to name the cluster, so Unknown is appropriate.","confidence":"","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0001824","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0070389","count":2}]},{"hash":"1848776896318450358","title":"DNA Replication and Telomere Maintenance","description":"Consolidated GO terms center on DNA replication processes (DNA strand elongation in mitotic replication, replication fork reversal/progression) and telomere maintenance (telomere maintenance, regulation by telomerase). The inclusion of mitochondrial genome maintenance/repair terms suggests a broader genome integrity theme. Overall, the cluster is best described as DNA replication and telomere maintenance.","confidence":"High","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":8},{"id":"GO:0000723","count":7},{"id":"GO:1902983","count":7},{"id":"GO:0000002","count":7},{"id":"GO:0071932","count":7}]},{"hash":"1411952141368069016","title":"Dopamine/Adrenergic GPCR Signaling and Inflammation","description":"This cluster is dominated by GPCR signaling terms (dopamine, adrenergic, morphine) with associated downstream phosphorylation and ion-channel regulation, plus heart-rate or baroreceptor-related signaling, and immune-related terms (eosinophil chemotaxis, IL-8 production), suggesting a neural-immune signaling theme centered on GPCR pathways.","confidence":"Medium","size":10,"edges":25,"triangles":25,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071883","count":10},{"id":"GO:0043278","count":10},{"id":"GO:1901386","count":10},{"id":"GO:0007191","count":10},{"id":"GO:0048245","count":10}]},{"hash":"1946692374621325992","title":"Skeletal Development and ECM Remodeling","description":"The cluster is enriched in terms related to skeletal system development, embryonic cranial skeleton morphogenesis, cartilage condensation, and extracellular matrix (ECM) remodeling (collagen catabolic process, extracellular matrix disassembly) as well as proteolysis, pointing to a coherent theme of cartilage formation and ECM turnover during skeletal development. While a few terms refer to apoptotic processes or immune responses, the dominant signal is cartilage/bone formation and ECM remodeling, suggesting these proteins function together in skeletal tissue development and matrix dynamics.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0000082","count":3},{"id":"GO:0001501","count":2},{"id":"GO:0048701","count":2},{"id":"GO:0006508","count":2}]},{"hash":"479574888931368900","title":"Mitotic cell cycle control and tissue proliferation","description":"The top GO terms cluster around mitotic regulation: G1/S and G2/M transitions, spindle pole separation, re-entry into the mitotic cycle, and chromosome condensation. There are also signals of transcriptional activity and proliferation in mammary/organ contexts (mammary gland epithelial proliferation, organ regeneration), suggesting a broader role in cell division-driven tissue growth. Overall, this set reflects genes involved in driving cell cycle progression and associated proliferation.","confidence":"High","size":10,"edges":19,"triangles":8,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032026","count":7},{"id":"GO:0010696","count":7},{"id":"GO:0000320","count":7},{"id":"GO:2000775","count":7},{"id":"GO:0006351","count":7}]},{"hash":"682945591821917910","title":"Multi-substrate membrane transporters","description":"The dominant GO terms point to transmembrane transport of a wide range of substrates (xenobiotics, vitamins, amino acids, heme, ions, peptides, bacteriocins, and drugs like doxorubicin), indicating a shared function as diverse transporter proteins across membranes. A couple of terms (nucleotide-excision repair, stem cell proliferation) appear unrelated to transport and may reflect annotation noise, but the overarching theme is membrane transport activity for multiple substrates.","confidence":"High","size":10,"edges":9,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":9},{"id":"GO:0035461","count":9},{"id":"GO:0000770","count":7},{"id":"GO:0015803","count":7},{"id":"GO:0015886","count":7}]},{"hash":"1712499676067913534","title":"Adaptive immune signaling and cytoskeletal remodeling","description":"This cluster is enriched for adaptive immune terms (B cell receptor signaling, adaptive immune response, NK T cell differentiation, IL-7\u2013related response) and for cytoskeletal dynamics (regulation of Rho signaling, lamellipodium assembly), suggesting a group of proteins involved in immune signaling coupled with cell motility. Some terms like heart development and synaptic potentiation may reflect broader developmental roles of these proteins, but the dominant theme appears to be immune signaling linked to cytoskeletal remodeling.","confidence":"Medium","size":10,"edges":9,"triangles":5,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0060291","count":4},{"id":"GO:2000463","count":4},{"id":"GO:0050853","count":4}]},{"hash":"1215627724898333151","title":"Genome maintenance and chromatin dynamics","description":"The proteins in this cluster are linked to core genome integrity and chromatin-related processes, including DNA replication, base-excision repair, DNA transposition, and regulation of sister chromatid cohesion. These shared functions point to a common theme of genome maintenance and chromatin dynamics, with a few metabolic-related terms likely representing peripheral annotations. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":3},{"id":"GO:0090180","count":3},{"id":"GO:2001172","count":3},{"id":"GO:0006284","count":2},{"id":"GO:0006313","count":2}]},{"hash":"1501850676412373622","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0000462","count":2},{"id":"GO:0000480","count":2}]},{"hash":"806419461012449297","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007095","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0090502","count":1},{"id":"GO:0000480","count":1}]},{"hash":"1489582904782338395","title":"Bacterial membrane transport and export","description":"The terms point strongly to membrane-associated transport and export processes (xenobiotic, teichoic acid, branched-chain amino acid, phospholipid, and ceramide translocation; peptide pheromone export; bacteriocin immunity), with several bacterial stress/defense links (mercury response). One outlier term (MHC I antigen processing) appears unrelated, but the dominant signal is bacterial membrane transport functions.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019885","count":1},{"id":"GO:0006855","count":1},{"id":"GO:0015777","count":1},{"id":"GO:0000770","count":1},{"id":"GO:0030153","count":1}]},{"hash":"484049037244646815","title":"Cholesterol Transport and Homeostasis","description":"The top GO terms cluster around cholesterol absorption, homeostasis, and efflux, complemented by xenobiotic and membrane transport terms. While a few other terms (e.g., antigen processing, teichoic acid transport) are less directly related, the dominant signal points to a group of proteins involved in cholesterol handling and related membrane transport processes.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030299","count":2},{"id":"GO:0042632","count":2},{"id":"GO:0019885","count":1},{"id":"GO:0006855","count":1},{"id":"GO:0015777","count":1}]},{"hash":"1095704080665144002","title":"Apoptosis and Innate Immune Signaling","description":"Top terms are dominated by apoptotic processes, TRAIL-activated apoptotic signaling, necroptosis regulation, pyroptotic inflammatory response, and innate immune response, suggesting the cluster centers on programmed cell death intertwined with innate immunity. Ubiquitination supports regulation of these pathways, while a few terms like mitotic spindle assembly or cocaine-related behavior appear as less central annotations. Overall, the core theme links apoptosis/necroptosis with innate immune signaling.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0090307","count":9},{"id":"GO:0070269","count":9},{"id":"GO:0006915","count":9},{"id":"GO:0016567","count":9},{"id":"GO:0045087","count":9}]},{"hash":"1409359408638493575","title":"Unknown","description":"The set includes terms from animal development (angiogenesis, heart development, visual perception, sensory perception) and fungal growth (pseudohyphal growth, invasive growth in response to glucose limitation) plus various stimulus-response terms (response to toxic substance, behavioral response to cocaine, positive regulation of signaling). There is no single coherent biological theme that ties these terms together, so a concise, representative label cannot be confidently assigned.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":2},{"id":"GO:0010800","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0007601","count":2}]},{"hash":"246746825111368605","title":"Notch-Linked Osteoclast Regulation and Development","description":"The top GO terms are dominated by positive regulation of Notch signaling and negative regulation of osteoclast differentiation and bone resorption, suggesting a theme around Notch-mediated control of bone remodeling. Additional terms related to development (forebrain development, skeletal muscle tissue growth) and protein localization to the cell surface support a broader developmental signaling role, though metabolic terms (fructose/glycolysis) are only peripherally represented. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045747","count":2},{"id":"GO:0007386","count":2},{"id":"GO:0034394","count":2},{"id":"GO:0045671","count":2},{"id":"GO:0045779","count":2}]},{"hash":"1865913117659734493","title":"Gene Expression and Cell Cycle Regulation","description":"These terms collectively point to regulation of gene expression and cell cycle/differentiation processes: signaling via GTPase activity, formation of translation preinitiation complexes, and spliceosome-mediated mRNA splicing highlight RNA processing and protein synthesis control; ubiquitination affects protein turnover; DNA damage response, apoptotic DNA fragmentation, and mitotic cohesion emphasize genome maintenance and cell division; plus growth hormone response and differentiation terms indicate developmental regulation. Overall, the cluster seems organized around coordinating expression, signaling, and cell-cycle\u2013related processes rather than a single pathway.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0000398","count":4},{"id":"GO:0060528","count":3},{"id":"GO:0060416","count":3}]},{"hash":"1136021756219745600","title":"Cell growth, metabolism, and stress responses","description":"The top GO terms point to core cellular regulation involving protein folding (stress response), control of cell size and cell cycle, glucose metabolism, and protein turnover, with additional signals of stimulus response (chemotaxis, cocaine response). While a couple terms (placenta development, obsolete nucleus import term) are peripheral, the dominant theme is housekeeping processes that govern growth, energy use, and protein quality control rather than a single specialized pathway. Confidence: Medium","confidence":"","size":9,"edges":20,"triangles":15,"max_degree":8,"top_function":"protein folding","top_go_terms":[{"id":"GO:0006457","count":3},{"id":"GO:0045793","count":3},{"id":"GO:0006935","count":3},{"id":"GO:0006006","count":3},{"id":"GO:0071157","count":3}]},{"hash":"2034531696553985303","title":"Developmental differentiation and immune signaling","description":"This cluster features terms covering lineage specification and differentiation across multiple tissues (cardiac fate, chondrocyte differentiation, megakaryocytes, bile ducts, glia) plus immune-related processes (macrophage activation, interferon production, Fas signaling) and TGF-beta responsiveness. The shared theme appears to be growth-factor\u2013driven differentiation with concurrent modulation of immune signaling, suggesting a developmental/immune regulation cluster.","confidence":"Medium","size":9,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0071560","count":2},{"id":"GO:2000043","count":1},{"id":"GO:0035622","count":1},{"id":"GO:0032727","count":1}]},{"hash":"218783833951851828","title":"Nuclear transcription and DNA repair","description":"Top GO terms overwhelmingly point to nuclear gene expression control, including DNA-templated transcription, mRNA export, and SAGA complex localization to transcription regulatory regions, indicating a transcription machinery theme. The presence of a homologous recombination repair term also suggests linked DNA damage response activity within the same nuclear context. A few terms about protein interactions and ion homeostasis are less central to this core theme, but do not override the main transcription/DNA repair signal. Confidence: Medium","confidence":"","size":9,"edges":4,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0032147","count":2},{"id":"GO:0051289","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0030026","count":2}]},{"hash":"1622099389542770265","title":"Developmental signaling and tissue morphogenesis","description":"The cluster combines GO terms tied to broad developmental and morphogenetic processes across tissues (heart development, angiogenesis, axonogenesis, myoblast fusion, visual perception) with regulatory signaling (proteasome-mediated protein degradation, phosphorylation) and cell-cycle control (G2/M transition). This suggests a group of proteins that participate in multicellular development and signaling rather than a single, narrow pathway. The plant-specific abscisic acid signaling term appears as noise relative to the core theme. Confidence: Medium","confidence":"Medium","size":9,"edges":8,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032435","count":5},{"id":"GO:0010800","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0007409","count":5}]},{"hash":"993247692698359789","title":"Transmembrane and vesicular transport of small molecules","description":"The top GO terms cluster around membrane transport, including xenobiotic and metabolite transport (ascorbate, fucose, nitrite, phosphate, sialic acid, trehalose, organic anions) and neurotransmitter loading into synaptic vesicles, indicating a shared function in moving diverse substrates across membranes or into vesicles.","confidence":"Medium","size":9,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019852","count":3},{"id":"GO:0006855","count":3},{"id":"GO:0042908","count":3},{"id":"GO:0006004","count":3},{"id":"GO:0015707","count":3}]},{"hash":"315819099962101485","title":"Mitotic Chromosome Alignment and Nuclear Transport","description":"The cluster is dominated by terms related to mitosis and spindle function (kinetochore localization, mitotic metaphase chromosome alignment, astral microtubule organization), paired with terms about nucleo-cytoplasmic trafficking (regulation of protein export from nucleus, import into nucleus). This suggests a cohesive theme around chromosome segregation during cell division and the control of nuclear transport, with a few ancillary processes present. ","confidence":"Medium","size":9,"edges":32,"triangles":62,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0034501","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0045056","count":2},{"id":"GO:0015074","count":1},{"id":"GO:0006313","count":1}]},{"hash":"501631183490459845","title":"Unknown","description":"The GO terms are highly heterogeneous: metabolism (thiamine biosynthetic regulation, glycolytic fermentation to ethanol), ubiquitination, caffeine response, LPS signaling regulation, viral transcription regulation, muscle development, and an obsolete localization term. With no clear common function or pathway linking these terms, there isn\u2019t a consistent theme to label the cluster beyond Unknown.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:2001172","count":2},{"id":"GO:0097050","count":1},{"id":"GO:0003151","count":1}]},{"hash":"78583632561018781","title":"Mitochondrial energy metabolism and development","description":"These proteins cluster around mitochondrial metabolism, supported by leucine catabolism, dihydrolipoamide metabolism, carnitine biosynthesis, and glycolysis-related terms, with additional development-related GO terms (substantia nigra and heart development) suggesting tissue-specific regulatory roles. Confidence: Medium","confidence":"","size":9,"edges":19,"triangles":26,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":2},{"id":"GO:0006552","count":2},{"id":"GO:0051384","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0021762","count":2}]},{"hash":"1335773167484946996","title":"Ubiquitin-Proteasome Pathway in Mitosis","description":"The cluster is dominated by ubiquitination and proteasome-related processes (SCF-dependent degradation, K11- and K63-linked ubiquitination, neddylation) alongside mitosis-related terms (mitotic cell cycle, G2/M transition, DNA damage checkpoint). Embryonic development and immune signaling terms (in utero development, Fc-epsilon receptor signaling, interferon-beta response) suggest a cohesive module governing regulated protein turnover during cell division and development, with cross-talk to signaling pathways.","confidence":"High","size":9,"edges":17,"triangles":16,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":7},{"id":"GO:0001701","count":7},{"id":"GO:0070979","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0000086","count":7}]},{"hash":"622022742889813535","title":"Unknown","description":"The top GO terms are a heterogeneous mix (mechanical stimulus response, cell migration, ubiquitination, ER-stress\u2013related translation initiation, cell division) with several obsolete annotations, and there are no edges connecting proteins, so there is no clear, cohesive function uniting this cluster.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0016567","count":3},{"id":"GO:2001275","count":3}]},{"hash":"377048658453590447","title":"Unknown","description":"The GO terms are highly diverse, spanning sarcomere organization, NF-kappaB signaling, cell-matrix adhesion, TLR4 signaling, angiogenesis, nail and gland development, fibroblast migration, and lipid metabolism regulation, with no single shared function linking all proteins.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0001954","count":1},{"id":"GO:0034142","count":1},{"id":"GO:0045766","count":1}]},{"hash":"89506033011182071","title":"Mitotic cell division and ER-Golgi trafficking","description":"This cluster is dominated by GO terms for cell division, mitotic cell cycle, and mitotic spindle assembly, along with vesicle transport between the ER and Golgi, and intracellular mitochondrial distribution. These together suggest proteins involved in mitosis and intracellular vesicle trafficking, with some auxiliary annotations that may reflect broader regulatory roles (e.g., ubiquitination, TORC1 signaling). ","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0006890","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0048312","count":3}]},{"hash":"1286561092523968943","title":"Melanin Biosynthesis and Melanosome Organization","description":"The top GO terms are dominated by pigmentation and melanin-related processes (pigmentation, melanin biosynthetic process from tyrosine, melanosome organization, positive regulation of melanin biosynthetic process), indicating a cohesive theme around pigment production and melanosome biogenesis. Some other terms (mitotic spindle assembly, ventricular zone neuroblast division) appear less connected, likely reflecting broader or pleiotropic annotations, but the pigmentation-related signals are strongest.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043473","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0002052","count":1},{"id":"GO:0006583","count":1},{"id":"GO:0021847","count":1}]},{"hash":"1467782301189099468","title":"Endosome Trafficking and Protein Localization","description":"The top terms cluster around intracellular transport and localization within the endomembrane system: endosome-to-endosome and endosome-to-Golgi transport, and cytoplasm-to-vacuole targeting via the Cvt pathway, plus positive regulation of protein localization to the plasma membrane. This suggests a cohesive theme of vesicle trafficking and targeted protein localization, with a few broader signaling/development terms appearing as secondary annotations. ","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045022","count":3},{"id":"GO:0034498","count":3},{"id":"GO:0032258","count":3},{"id":"GO:1903078","count":3},{"id":"GO:0060684","count":2}]},{"hash":"1437860419022576910","title":"Translation machinery and ribosome biogenesis","description":"This cluster is dominated by GO terms related to cytoplasmic translation, ribosome assembly, and translation-related processes (initiation complex formation, termination, tRNA modification, and selenocysteine incorporation), indicating a core function in protein synthesis. A couple of terms touch on cell proliferation, which may reflect broader growth-related annotations but do not override the primary translation-focused signal.","confidence":"High","size":9,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0045901","count":1},{"id":"GO:0006400","count":1},{"id":"GO:0014009","count":1},{"id":"GO:0001732","count":1}]},{"hash":"263136598145934599","title":"Developmental signaling and growth regulation","description":"The top GO terms cluster around signaling pathways (positive regulation of canonical Wnt signaling, Hippo signaling, insulin receptor signaling, CAMKK-AMPK cascade) and developmental/differentiation processes (forebrain development, keratinocyte differentiation), along with cell cycle and apoptotic processes. This suggests the proteins participate in coordinating growth, metabolism, and cell fate during development, hence a label centered on developmental signaling and growth regulation. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0030216","count":2},{"id":"GO:0000082","count":2},{"id":"GO:0060044","count":2}]},{"hash":"1618228179531930173","title":"Translation-Linked Metabolism with Antibiotic Response","description":"The cluster centers on protein synthesis (translation) alongside central metabolism (glycolysis, glucose metabolism, PPP, and thiamine biosynthesis) and includes antibiotic response terms (response to antibiotic, cellular response to chloramphenicol), suggesting a theme of growth-related metabolism coupled with antibiotic stress. An outlier term related to olfactory bulb development appears annotation noise rather than a core shared function. ","confidence":"Medium","size":9,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0006096","count":1},{"id":"GO:0046166","count":1},{"id":"GO:0040008","count":1}]},{"hash":"2145909791858592660","title":"Skin temperature sensing and potassium channel activity","description":"This cluster centers on temperature-related processes (diet-induced thermogenesis, cellular response to temperature stimulus) alongside skin development and potassium channel\u2013associated functions (membrane hyperpolarization, potassium ion transport) and protein homooligomerization. The combination suggests proteins that participate in skin-associated thermoregulation and sensory signaling via oligomeric potassium channels that modulate membrane potential and influence development.","confidence":"Medium","size":9,"edges":16,"triangles":2,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":7},{"id":"GO:0071502","count":7},{"id":"GO:0019233","count":7},{"id":"GO:0043588","count":5},{"id":"GO:0007275","count":5}]},{"hash":"957258647977453431","title":"Translational Initiation Control and Stress Signaling","description":"This cluster is dominated by terms related to translational initiation and cytoplasmic translation (regulation of translational initiation; cytoplasmic translational initiation), suggesting a core role in controlling protein synthesis. It also includes stress- and signaling-related terms (positive regulation of GTPase activity; cellular responses to nitric oxide and ethylene stimulus; amino acid starvation response), indicating coordination of translation with environmental/nutrient stress. An outlier term (oligodendrocyte development) is present but does not define the main theme. Overall, the label emphasizes translation control integrated with stress signaling. ","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019284","count":2},{"id":"GO:0043547","count":2},{"id":"GO:1903833","count":2},{"id":"GO:0014003","count":2},{"id":"GO:0019509","count":2}]},{"hash":"1268360514036887108","title":"Diverse Transmembrane Transporters","description":"The GO terms point to transmembrane transport of diverse substrates (xenobiotics, nitrate, sugars, ions, vitamins), suggesting these proteins are membrane transporters with broad substrate specificity.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":1},{"id":"GO:0015706","count":1},{"id":"GO:0042891","count":1},{"id":"GO:0015757","count":1},{"id":"GO:0071805","count":1}]},{"hash":"2224683281618271678","title":"RNA processing and nucleotide catabolism","description":"The terms show RNA-related processes (Cajal body organization, adenosine-to-inosine editing, and regulation of rRNA processing) alongside multiple nucleotide catabolic pathways (ADP, NAD+, diadenosine pentaphosphate, diphosphoinositol polyphosphate) and IPP biosynthesis, suggesting a theme around RNA maturation together with nucleotide turnover/metabolism. The connection is plausible but not tightly cohesive due to the breadth of terms, so confidence is Medium.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030576","count":1},{"id":"GO:0015938","count":1},{"id":"GO:0006382","count":1},{"id":"GO:0009240","count":1},{"id":"GO:1901907","count":1}]},{"hash":"1765988315725852602","title":"Ubiquitin-Dependent Protein Quality Control","description":"The top GO terms point strongly to ubiquitin-mediated degradation (ubiquitin-dependent proteolysis, K11- and K48-linked ubiquitination, autoubiquitination) and ER-associated degradation (ERAD), together with a unfolded protein response. Stress-related terms (cellular response to hydrogen peroxide and cadmium) and innate immune signaling fit within proteostasis and regulation by ubiquitin. This suggests a cohesive cluster centered on tagging and removing damaged or misfolded proteins via the ubiquitin-proteasome system, especially in ER quality control, under stress conditions.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0030433","count":6},{"id":"GO:0070979","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0071276","count":4}]},{"hash":"1575329192362032373","title":"Amino acid, nucleotide, and vitamin biosynthesis","description":"The GO terms are dominated by biosynthetic processes: arginine, tryptophan, GMP, biotin, and antibiotic biosynthesis, with a few related response terms. This suggests enzymes involved in diverse biosynthetic pathways rather than a single cohesive function, hence the biosynthesis-focused label.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0014075","count":2},{"id":"GO:0006526","count":2},{"id":"GO:0006177","count":2},{"id":"GO:0002084","count":2},{"id":"GO:0017000","count":2}]},{"hash":"1229314125642823397","title":"Unknown","description":"The top GO terms are highly diverse (hypoxia response, protein oligomerization, thiamine and glycolytic regulation, magnesium response, pigmentation, angiogenesis, synapse maintenance, and cell migration) with no clear shared pathway or function. The cluster also has no edges, suggesting no cohesive module. Therefore there is no single representative function to label, so Unknown with None confidence.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001666","count":2},{"id":"GO:0051260","count":2},{"id":"GO:1903212","count":1},{"id":"GO:0090180","count":1},{"id":"GO:2001172","count":1}]},{"hash":"468662397724253774","title":"BMP signaling and vascular development","description":"This cluster is driven by BMP signaling with several vascular and developmental terms, including retinal vascular morphogenesis, regulation of arterial blood pressure by ANP, and regulation of renal sodium excretion, along with extracellular matrix\u2013cell signaling and embryonic development. These connections suggest proteins involved in BMP-mediated vascular and organ development.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030509","count":3},{"id":"GO:0003050","count":2},{"id":"GO:0035813","count":2},{"id":"GO:0044332","count":2},{"id":"GO:0035426","count":2}]},{"hash":"1239875663927112528","title":"Endosome-Lysosome Vesicle Trafficking","description":"These terms cluster around endosomal and lysosomal vesicle trafficking and organelle organization (endosome organization, endosomal vesicle fusion, Golgi-to-endosome transport, endosome-to-lysosome transport, lysosome organization, vesicle docking in exocytosis, intracellular protein transport, vacuolar protein processing). Eye pigment granule organization supports lysosome-related organelle biogenesis in insect pigment cells, tying the cluster to the endosome\u2013lysosome pathway and related intracellular transport processes.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007032","count":1},{"id":"GO:0007594","count":1},{"id":"GO:0034058","count":1},{"id":"GO:0007040","count":1},{"id":"GO:0006886","count":1}]},{"hash":"727175152934690670","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning plant xylan biosynthesis to multiple mammalian signaling pathways (VEGF, integrin, TNF, HGF), fertilization, and proteolysis. There is no clear shared function linking these terms, so the cluster appears unlabeled by a single cohesive theme.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045492","count":1},{"id":"GO:1900748","count":1},{"id":"GO:0010573","count":1},{"id":"GO:0007229","count":1},{"id":"GO:1902203","count":1}]},{"hash":"2228656437948420650","title":"RNA Splicing Machinery","description":"The cluster shows strong signals for RNA processing and splicing: mRNA cis splicing via spliceosome, mRNA splice site recognition, and regulation of nuclear-transcribed mRNA poly(A) tail shortening. While there are a few metabolic/differentiation terms present, the RNA-splicing-related terms are the most coherent theme across the Top Terms, suggesting these proteins predominantly participate in spliceosome-mediated mRNA processing.","confidence":"Medium","size":8,"edges":17,"triangles":12,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009437","count":1},{"id":"GO:1900751","count":1},{"id":"GO:0050873","count":1},{"id":"GO:0048235","count":1},{"id":"GO:1902270","count":1}]},{"hash":"1722016299332591285","title":"ER Stress Response and Protein Quality Control","description":"These proteins cluster around endoplasmic reticulum functions, including ER-associated degradation (ERAD), translation initiation regulation during ER stress, and post-translational targeting related to the ER and membranes. Redox homeostasis supports ER processes, suggesting a theme of protein quality control under stress. Some terms are obsolete or broad, and a few outliers (e.g., certain signaling pathways) are less directly connected, but the dominant signal is ER stress response and protein handling.","confidence":"Medium","size":8,"edges":9,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0030511","count":2},{"id":"GO:1901621","count":1},{"id":"GO:0006924","count":1},{"id":"GO:0031204","count":1}]},{"hash":"1116025232040683521","title":"Cerebellar development and glial differentiation","description":"The top GO terms emphasize cerebellar cortex formation and Bergmann glial differentiation, with supporting signals for axon regeneration and cell-cycle regulation, suggesting a neural development cluster centered on cerebellar maturation. Some insulin and T cell signaling terms appear but are likely secondary annotations. ","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0021697","count":7},{"id":"GO:0045736","count":7},{"id":"GO:0008285","count":7},{"id":"GO:0060020","count":7},{"id":"GO:0034501","count":7}]},{"hash":"132687342882002798","title":"Developmental gene regulation and morphogenesis","description":"Most top GO terms cluster around developmental processes (pancreatic development, antennal/otic development, neural tube patterning, bone morphogenesis) and transcriptional regulation (negative regulation of transcription by RNA Pol II). A minority of terms relate to DNA transposition/integration, which may reflect regulatory elements or transposon-derived factors. Overall, the cluster seems focused on developmental gene regulation and tissue morphogenesis.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:0006313","count":2},{"id":"GO:0031017","count":2},{"id":"GO:0030225","count":2},{"id":"GO:0000122","count":2}]},{"hash":"848878535675965704","title":"Pituitary Development and Metabolic Regulation","description":"Several GO terms point to endocrine development (pituitary gland development, in utero embryonic development, regulation of hormone biosynthetic processes) together with core metabolism (2-oxoglutarate and dihydrolipoamide metabolic processes) and redox homeostasis, suggesting a cluster tied to embryonic endocrine development with metabolic regulation rather than a single, narrow function.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":5},{"id":"GO:0051068","count":4},{"id":"GO:0051572","count":4},{"id":"GO:0001701","count":4},{"id":"GO:0006103","count":4}]},{"hash":"2154703688186004647","title":"Ubiquitin/SUMO-mediated protein homeostasis and stress responses","description":"The cluster is enriched for post-translational modification processes\u2014protein deubiquitination and sumoylation\u2014along with related stress-response terms such as regulation of transcription by RNA polymerase II, cellular response to toxic substances, and mitophagy. While some terms point to organelle quality control (ER stress, mitophagy) and protein processing (deglycosylation), others touch on broader stress signaling and even yeast-specific cell-cycle processes (spindle pole body duplication). Together, these terms suggest a cohesive theme around protein homeostasis and cellular stress response managed by ubiquitin/SUMO pathways.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":4},{"id":"GO:0016925","count":4},{"id":"GO:0006357","count":3},{"id":"GO:0097237","count":3},{"id":"GO:1902236","count":3}]},{"hash":"2144236597314544671","title":"Unknown","description":"The top GO terms show a highly heterogeneous mix: Fc-epsilon receptor signaling, visual perception, GTPase regulation, mitotic cell cycle, and various catabolic, salvage, and proteolysis processes. There is no single cohesive function or pathway that ties these terms together, and the small number of edges suggests weak, non-specific associations. Therefore, there is no clear, representative label beyond Unknown.","confidence":"","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0038095","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0033345","count":1}]},{"hash":"481068524960342736","title":"Heat-shock Chaperone\u2013Mediated Protein Folding","description":"Dominant GO terms cluster around chaperone activity, refolding of misfolded proteins, and heat response, indicating a protein quality-control module activated under stress; inflammation-related terms appear as downstream stress responses.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1904469","count":8},{"id":"GO:0051085","count":8},{"id":"GO:0052212","count":8},{"id":"GO:0051131","count":8},{"id":"GO:0050729","count":8}]},{"hash":"1490223698367006792","title":"Unknown","description":"The proteins show a highly diverse set of GO terms\u2014ranging from DNA replication to various signaling, development, and metabolic responses\u2014without a single dominant shared function or cohesive biological theme. The low connectivity (1 edge, 0 triangles) supports the lack of a unified function, so no reliable, specific label can be assigned.","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0070389","count":2},{"id":"GO:0031663","count":2},{"id":"GO:0042535","count":2}]},{"hash":"787697838248262046","title":"Apoptosis-Driven Developmental Signaling","description":"The proteins appear to co-occur with terms tied to apoptosis regulation (positive regulation of apoptotic process; death-inducing signaling complex assembly; NF-kappaB activity) and signaling pathways that shape development and tissue remodeling (negative regulation of Wnt signaling; negative regulation of cell proliferation; thymus development; cell migration; tight junction assembly; budding growth). While the exact biological context is diverse, the common theme centers on coordinating cell fate decisions and developmental signaling with apoptotic control.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043065","count":4},{"id":"GO:0090090","count":4},{"id":"GO:0008285","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0042220","count":4}]},{"hash":"1413373393802502291","title":"Ubiquitin-regulated signaling and epithelial polarity","description":"This cluster is dominated by ubiquitination-related terms (K63-linked ubiquitination, autoubiquitination, ubiquitin-dependent protein catabolic process) and JNK cascade regulation, with adjacent terms pointing to microtubule localization and epithelial polarity/tight junction assembly. This suggests a module where ubiquitin signaling modulates MAPK/JNK pathways and cytoskeletal/polarity organization at cell\u2013cell junctions.","confidence":"Medium","size":8,"edges":5,"triangles":0,"max_degree":5,"top_function":"autophagy","top_go_terms":[{"id":"GO:0046328","count":5},{"id":"GO:0035372","count":4},{"id":"GO:0070534","count":4},{"id":"GO:0051865","count":4},{"id":"GO:0042787","count":4}]},{"hash":"1129138814683127397","title":"Yeast metabolism: biosynthesis and fermentation","description":"This cluster shows multiple biosynthetic processes (thiamine, pantothenate, valine, proline) and NADPH regeneration, plus a signal for glycolytic fermentation to ethanol, which together point to metabolic and energy-generating functions typical of yeast. The presence of metal ion import terms adds to general metabolic activity but does not redefine the core theme. Overall, the strongest cohesive signal is yeast-like metabolic biosynthesis and fermentation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:2001172","count":2},{"id":"GO:0098706","count":1},{"id":"GO:0015677","count":1}]},{"hash":"1586414624670369976","title":"Nuclear mRNA processing and post-transcriptional regulation","description":"The cluster centers on nuclear RNA maturation: mRNA export, splicing regulation (via spliceosome and splice-site recognition), and miRNA-mediated gene silencing, with regulation of poly(A) tail length. This combination points to proteins coordinating RNA processing and post-transcriptional control within the nucleus, rather than cytosolic metabolism.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006406","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0048025","count":3},{"id":"GO:0075525","count":2},{"id":"GO:0006376","count":2}]},{"hash":"568217798573051921","title":"Transmembrane transporters for ions and sugars","description":"The cluster is dominated by transmembrane transport terms for multiple ions, sugars, and xenobiotics, plus vesicular neurotransmitter loading, suggesting a group of membrane transporters and vesicle-packaging proteins.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0006004","count":2},{"id":"GO:0015707","count":2},{"id":"GO:0035435","count":2}]},{"hash":"1065764693239314314","title":"Unknown","description":"The terms cover innate immune response, heart development, phagocytosis, angiogenesis, synaptic plasticity, lipid metabolism, mitochondrial regulation, Wnt signaling, cholesterol transport endocytosis, and lipid structures. There is no single coherent process tying these together; functions span immunity, development, and metabolism, suggesting the cluster does not reflect a single clear biological theme.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0007507","count":2},{"id":"GO:1901076","count":1},{"id":"GO:0001525","count":1},{"id":"GO:0051835","count":1}]},{"hash":"637209996998739735","title":"Neural development and stress-induced apoptosis","description":"This cluster combines brain/forebrain development signals with strong apoptotic and DNA damage response terms (including intrinsic ER stress\u2013related apoptosis and DNA damage checkpoint signaling), plus indicators of cellular stress responses (cadmium, ubiquitination, transcription). The dominant theme appears to be neural development intertwined with stress and apoptotic regulation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0072432","count":4},{"id":"GO:1902510","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0071276","count":4}]},{"hash":"1714896486239049933","title":"Neural signaling and sensory perception","description":"The top GO terms cluster around nervous system signaling and sensory processes: dopaminergic synaptic transmission, visual perception/learning, behavioral response to cocaine, pain perception, and ERK signaling with protein phosphorylation. Although there are a couple of outlier terms, the dominant theme is neuronal communication and sensory processing, justifying this label.","confidence":"High","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010759","count":6},{"id":"GO:0048148","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0007601","count":6},{"id":"GO:0008542","count":6}]},{"hash":"270292042062798712","title":"Retroviral entry, replication, and genome integration","description":"The cluster shows strong representation of viral-infection processes: entry into host cells, nuclear penetration, reverse transcription (RNA-templated DNA biosynthesis), DNA integration and recombination, proviral latency, and host RNAi suppression. These collectively point to a retroviral life cycle theme, covering entry, replication, integration, latency, and immune evasion.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0046718","count":7},{"id":"GO:0075713","count":7},{"id":"GO:0006260","count":7},{"id":"GO:0039651","count":7},{"id":"GO:0015074","count":7}]},{"hash":"1144072276060025127","title":"T Cell Activation and Apoptosis Regulation","description":"The GO terms cluster around T cell signaling and apoptosis, including antigen receptor-mediated signaling, T cell activation via TCR-MHC interactions, and activation-induced cell death, plus apoptosis. Additional terms involve integrin activation, GPCR desensitization, and cell migration, which fit into broader immune signaling and adhesion contexts. An outlier term about germ cell development is present but does not dominate. Overall, the core theme is immune cell activation and programmed cell death, so this label accurately reflects the cluster's function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0033623","count":2},{"id":"GO:0006924","count":2},{"id":"GO:0010763","count":2},{"id":"GO:1903423","count":2}]},{"hash":"496312299424007487","title":"Cell stress and protein assembly","description":"Based on the GO terms, the cluster centers on cellular stress responses (unfolded protein response, cadmium ion response) and on protein complex formation (protein heterooligomerization, steroid hormone receptor complex assembly). Additional terms touch on chromatin-related regulation and signaling, with some retina-related localization, suggesting a loose theme around stress handling and protein complex dynamics rather than a single precise function. Confidence: Medium","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0016576","count":3},{"id":"GO:0043278","count":3},{"id":"GO:0035955","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0051291","count":3}]},{"hash":"1586479009741927974","title":"Ribosome Biogenesis and Translation Initiation","description":"Based on the frequent GO terms, the cluster centers on ribosome assembly and early translation steps, with maturation of 5.8S and LSU rRNA and formation of the translation preinitiation complex. Other terms related to mitosis, ubiquitin ligase regulation, and signaling appear, but do not define the core theme, suggesting some pleiotropy or annotation noise. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":4},{"id":"GO:1904668","count":4},{"id":"GO:0000466","count":4},{"id":"GO:0032933","count":4},{"id":"GO:0046784","count":4}]},{"hash":"2135865379304850268","title":"Unknown","description":"The top GO terms span diverse contexts (reproduction, neural development, glycosylation, extracellular matrix production, and even bacterial/plant biosynthesis), showing no single shared function or pathway tying the proteins together. Therefore, Unknown.","confidence":"","size":8,"edges":8,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060046","count":1},{"id":"GO:0021680","count":1},{"id":"GO:0006688","count":1},{"id":"GO:0018243","count":1},{"id":"GO:0070278","count":1}]},{"hash":"287031722121712891","title":"DNA repair and transcription","description":"This cluster's strongest signals are nucleotide-excision repair and DNA repair, with a transcription-by-RNA polymerase I term also present, pointing to nucleic acid maintenance and transcription context. A few metabolic/catabolic terms appear but are less cohesive with the main theme, suggesting some annotation noise. Overall, a DNA repair\u2013plus\u2013transcription theme best fits.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006289","count":1},{"id":"GO:0006360","count":1},{"id":"GO:0070816","count":1},{"id":"GO:0008616","count":1},{"id":"GO:0101030","count":1}]},{"hash":"420445104328577856","title":"Retroviral entry, integration, and latency","description":"This cluster centers on virus-host interactions characteristic of retroviral life cycles: entry into the host, reverse transcription and RNA-templated DNA synthesis, integration of viral DNA, and establishment of proviral latency, with themes of genome recombination and viral suppression of host RNA interference. The combination of terms like proviral latency, DNA integration, RNA-templated DNA biosynthesis, and viral nucleus penetration strongly ties these proteins to retroviral infection and genome integration rather than host cellular processes alone.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0015074","count":1}]},{"hash":"1299843805492429190","title":"Interferon-Driven Dendritic Cell Activation","description":"The annotated terms cluster around antiviral interferon signaling (production and response to IFN-\u03b1/\u03b2 and IFN-\u03b3) and dendritic cell\u2013associated functions (phagocytosis and differentiation), suggesting an innate immune activation theme in dendritic cells; a couple of mitochondrial protein import/insertion terms may reflect antiviral sensing on mitochondria but do not drive the theme.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":1},{"id":"GO:0045040","count":1},{"id":"GO:0035458","count":1},{"id":"GO:0043011","count":1},{"id":"GO:0006909","count":1}]},{"hash":"2109883958296864196","title":"Carnitine Transport and Metabolism","description":"The cluster is dominated by GO terms centered on carnitine metabolism and transport\u2014carnitine metabolic process, 4-(trimethylammonio)butanoate transport, and (R)-carnitine transmembrane transport\u2014suggesting a core function in carnitine handling and related energy metabolism. The remaining terms touch on related themes like differentiation and transport, which can be consistent with metabolic contexts such as brown fat differentiation, but the clearest signal remains carnitine utilization and transport.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009437","count":2},{"id":"GO:1900751","count":2},{"id":"GO:0050873","count":2},{"id":"GO:0048235","count":2},{"id":"GO:1902270","count":2}]},{"hash":"1347808976968273324","title":"RTK Signaling in Myoblast Differentiation and Angiogenesis","description":"Proteins in this cluster are enriched for receptor tyrosine kinase\u2013related signaling (MAPK cascade regulation, cell-surface RTK signaling), with themes of angiogenesis and positive regulation of myoblast differentiation, plus cell-matrix adhesion. This suggests a cohesive role in signaling networks that drive muscle cell differentiation and blood vessel formation, potentially coordinated by hormone/cytokine signals such as prolactin and IL-27 pathways.","confidence":"Medium","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001954","count":5},{"id":"GO:0001525","count":5},{"id":"GO:0038161","count":5},{"id":"GO:0070106","count":5},{"id":"GO:0044708","count":5}]},{"hash":"223181181921878079","title":"Unknown","description":"Top GO terms span distinct processes (karyogamy; cuticle pigmentation; xenobiotic response; iron-sulfur cluster assembly; DNA replication; cell morphogenesis; stress-related regulation). This scattered set suggests no single cohesive function tying these proteins together, indicating a heterogeneous cluster or mixed roles rather than a unified process.","confidence":"","size":7,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000742","count":3},{"id":"GO:0048085","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0006880","count":2},{"id":"GO:1900035","count":2}]},{"hash":"1921503276882334635","title":"Unknown","description":"The Top Terms span a mix of plant secondary metabolism (lignin biosynthesis, fatty acid biosynthesis), metal and redox responses (copper ion response, oxidation-reduction), stress responses (nitrosative stress), and miscellaneous processes (retinol metabolism, fermentation, signal transduction regulation, blood pressure). There\u2019s no clear, unifying function tying these proteins together, so a single intuitive label isn\u2019t supported.","confidence":"","size":7,"edges":10,"triangles":7,"max_degree":4,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0046688","count":4},{"id":"GO:0006633","count":4},{"id":"GO:0009809","count":4},{"id":"GO:0051409","count":4}]},{"hash":"2136775411006622115","title":"Nuclear mRNA processing and post-transcriptional regulation","description":"This cluster centers on RNA processing and post-transcriptional control: splicing (spliceosome-mediated), splice-site recognition, poly(A) tail regulation, mRNA export, and stress-responsive mRNA stability, along with miRNA-mediated translation silencing and broader translational regulation. Collectively, the terms point to proteins involved in mRNA maturation in the nucleus and subsequent control of transcript stability and translation. ","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0075525","count":2},{"id":"GO:0006376","count":2},{"id":"GO:0060211","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0006378","count":2}]},{"hash":"1111548761060812515","title":"DNA-Templated Transcription and Genome Mobility","description":"Top GO terms show a clear emphasis on transcriptional regulation (DNA-templated transcription, regulation of transcription) and DNA mobility (DNA integration, DNA transposition), suggesting a core theme of gene expression control intertwined with genome dynamics. Additional terms related to hormone signaling (estrogen/androgen receptor pathways) and ERK cascade regulation indicate possible cross-talk with signaling that modulates transcription, while ribosome biogenesis appears as a secondary context. Overall, the cluster seems to represent transcriptional regulation with genome dynamics components.","confidence":"Medium","size":7,"edges":6,"triangles":2,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0015074","count":2},{"id":"GO:0006313","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0006355","count":1}]},{"hash":"386620717028444401","title":"Multi-tissue development and differentiation","description":"The GO terms are centered on development and differentiation across multiple tissues (muscle, neural structures, reproductive organs, epithelium, nails, etc.), with additional regulatory processes like DNA replication and hormone secretion. This points to broad developmental roles rather than a single, specific pathway, hence a label of multi-tissue development and differentiation.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048294","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0051150","count":1},{"id":"GO:0060528","count":1},{"id":"GO:1903468","count":1}]},{"hash":"1241133212815228417","title":"Bacterial catabolism, sporulation, and metal transport","description":"The cluster includes lignin and cellulose catabolic processes, nitrate assimilation and denitrification, sporulation with FtsZ-dependent cytokinesis, antibiotic biosynthesis, and metal ion transport (arsenate and copper), plus a redox-related process. This spread points to a cohesive bacterial physiology theme\u2014metabolic versatility, development, and metal handling\u2014rather than a single pathway, so a concise label like \u201cbacterial catabolism, sporulation, and metal transport\u201d captures the main functions. ","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046274","count":2},{"id":"GO:0030435","count":2},{"id":"GO:0030245","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0019333","count":2}]},{"hash":"1189794215672241932","title":"Embryonic organ and nervous system development","description":"This cluster\u2019s top GO terms cluster around development of multiple organs (thyroid, heart, forebrain, inner ear, skeletal muscle) and neural components (retinal ganglion and motor neuron axon guidance, visual perception). The common thread is embryonic development with a focus on nervous system formation and organogenesis, justifying a label tied to developmental processes across tissues.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030878","count":2},{"id":"GO:0031290","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0048701","count":2}]},{"hash":"1840446949581609194","title":"Spliceosome Assembly and RNA Splicing","description":"Dominant GO terms are mRNA processing, RNA splicing, and spliceosomal tri-snRNP complex assembly, indicating proteins in this cluster function in the splicing machinery. Secondary terms touch on ER transport and immune regulation, but they are less representative. Thus the cluster most likely comprises spliceosome-related proteins.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":1},{"id":"GO:0008380","count":1},{"id":"GO:0000244","count":1},{"id":"GO:0051771","count":1},{"id":"GO:0002865","count":1}]},{"hash":"1539141044703930840","title":"Mitochondrial transport and fission","description":"The GO terms cluster around mitochondria: transport of ions and cofactors across mitochondrial membranes (thiamine pyrophosphate, manganese, phosphate, and pyrimidine nucleotides) and a clear link to mitochondrial membrane fission. Although a couple of stress-related terms appear, the dominant pattern is mitochondrial transport and dynamics, suggesting a set of proteins involved in mitochondrial membrane processes and metabolism.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0030974","count":2},{"id":"GO:0006828","count":2},{"id":"GO:0090149","count":2},{"id":"GO:0034198","count":2}]},{"hash":"644000822864779714","title":"DNA Transcription and Repair","description":"The GO terms are dominated by DNA-templated transcription, DNA recombination, DNA integration, topoisomerase regulation, and nonhomologous end joining repair, suggesting a nuclear DNA metabolism cluster centered on transcription and genome maintenance. Some terms are peripheral or obsolete, but the core signals point to transcriptional control coupled to DNA repair.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0097676","count":1},{"id":"GO:2000373","count":1},{"id":"GO:0015074","count":1},{"id":"GO:0090305","count":1}]},{"hash":"17360377090780249","title":"Unknown","description":"The GO terms cover diverse processes from plant cell wall biosynthesis to neuronal development and reproductive regulation, with no clear shared function for the proteins. Edges are zero and the terms are incongruent, so there isn\u2019t a cohesive theme to label this cluster.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":2},{"id":"GO:2001009","count":1},{"id":"GO:0052324","count":1},{"id":"GO:0009954","count":1},{"id":"GO:0030279","count":1}]},{"hash":"1467424917409501792","title":"Ribosome biogenesis and RNA processing","description":"The cluster is enriched for ribosome-related processes, including translation, ribosome biogenesis, box C/D snoRNP assembly, and maturation of rRNA, along with RNA processing/splicing. While a couple terms (type I interferon response and mitotic transition) are present at low frequency, the dominant signals point to ribosome biogenesis and RNA maturation, suggesting a group of proteins involved in ribosome biogenesis and RNA maturation.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0000492","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0000462","count":1},{"id":"GO:0006378","count":1}]},{"hash":"1673193004374148515","title":"Unknown","description":"The seven proteins span a highly diverse set of GO terms, including nucleotide biosynthesis (CTP, GTP, UTP), chromatin-related processes (subtelomeric heterochromatin formation, histone methylation), developmental terms (ventricular system development, spermatid differentiation), cilium movement, dosage compensation, and apoptosis regulation. There is no coherent, single functional theme tying these terms together, so a specific, representative label cannot be inferred.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003351","count":1},{"id":"GO:1902176","count":1},{"id":"GO:0048515","count":1},{"id":"GO:0006241","count":1},{"id":"GO:0006348","count":1}]},{"hash":"1976056957051500043","title":"Aromatic Compound Catabolism","description":"The Top Terms include several catabolic processes for aromatic compounds and amino-acid\u2013derived molecules (e.g., 4-hydroxyphenylacetate, L-phenylalanine, L-tyrosine, 3-phenylpropionate), indicating a shared theme of aromatic compound degradation. Some terms (angiogenesis, sporulation, acetylation) appear as outliers, but the core signal is aromatic compound catabolism.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901023","count":1},{"id":"GO:0006559","count":1},{"id":"GO:0019571","count":1},{"id":"GO:0006572","count":1},{"id":"GO:0019380","count":1}]},{"hash":"65518882818601494","title":"Regulated signaling and cell migration","description":"This cluster centers on GO terms involving signaling pathway regulation (e.g., CAMKK-AMPK, Wnt) and processes linked to cell movement and cytoskeletal remodeling (positive regulation of fibroblast migration, stress fiber assembly), along with developmental angiogenesis and differentiation cues (mast cell differentiation, hippocampus development). The terms suggest a broad theme of signaling controls that govern cell migration and differentiation, though the set is diverse and not tied to a single cohesive pathway. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032435","count":2},{"id":"GO:0034198","count":2},{"id":"GO:0010763","count":2},{"id":"GO:0051496","count":2},{"id":"GO:0046827","count":2}]},{"hash":"283323093073743674","title":"Developmental and Immune Signaling","description":"The top GO terms point to multiple signaling pathways involved in development and immune cell function (Wnt signaling, CAMKK-AMPK, calcium signaling, mast cell differentiation, B cell receptor signaling, angiogenesis, hippocampus development), with DNA replication reflecting proliferation. Together, they suggest a theme of signaling governing growth, differentiation, and immune responses, justifying a label centered on developmental and immune signaling.","confidence":"Medium","size":7,"edges":8,"triangles":4,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0000902","count":7},{"id":"GO:0061762","count":6},{"id":"GO:0060374","count":6},{"id":"GO:0045766","count":6}]},{"hash":"1797715988945241557","title":"Unknown","description":"The top GO terms are scattered across very different processes (protein homooligomerization; obsolete ERAD-related terms; cell division; protein deneddylation; pigmentation in eyes and cuticle; dopamine metabolism; nuclear membrane organization), with no single cohesive function linking the proteins. The absence of edges also suggests no shared pathway or process. Therefore, no clear, representative label can be assigned.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0071712","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0042053","count":1}]},{"hash":"406545674266750553","title":"Pyrimidine Nucleotide Metabolism","description":"This cluster is dominated by GO terms for dUTP/dITP catabolic and biosynthetic processes, as well as dUMP and uridine biosynthesis, indicating a focus on pyrimidine nucleotide metabolism (synthesis and turnover). A few unrelated terms appear at low counts, but the core signal supports a pyrimidine ribonucleotide theme, so the label reflects the cluster\u2019s primary function.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006229","count":2},{"id":"GO:0046081","count":2},{"id":"GO:0009220","count":2},{"id":"GO:0035863","count":2},{"id":"GO:0006226","count":2}]},{"hash":"1977251308586842017","title":"Gluconeogenesis and Glycolysis Regulation","description":"The top GO terms are dominated by carbohydrate metabolism, including gluconeogenesis, fructose- and sucrose-related processes, and negative regulation of glycolysis, suggesting these proteins share a role in sugar metabolism and its control. A few terms reference stress responses and vesicle transport, but the central theme appears to be carbohydrate flux rather than a single pathway. Given limited network connectivity (no edges) but coherent metabolic signals, this label reflects the main function while acknowledging some outliers.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006094","count":2},{"id":"GO:0016311","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0070940","count":2},{"id":"GO:0009408","count":2}]},{"hash":"1139802449444560703","title":"Cardiac and Visual Signal Transduction","description":"The top GO terms cluster around signaling pathways that regulate heart function (protein phosphorylation, regulation of cardiac contraction, calcium release, adenylate cyclase activity) and visual signaling (opsin-mediated pathways, visual perception). This points to a shared theme of signal transduction affecting both cardiac and retinal systems, so a concise label is \u201cCardiac and Visual Signal Transduction.\u201d","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006468","count":2},{"id":"GO:0055117","count":2},{"id":"GO:0001975","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0007601","count":2}]},{"hash":"354418670238421903","title":"Mitochondrial Translation and Energy Regulation","description":"The terms point to core processes of protein synthesis (translation) and mitochondrial ATP production, indicating a module focused on mitochondrial function and energy metabolism. The insulin secretion term, tied to glucose response, complements this by highlighting metabolic signaling in energy balance. Overall, the cluster seems to reflect mitochondrial translation machinery coupled to energy regulation.","confidence":"High","size":7,"edges":9,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0042775","count":1},{"id":"GO:0061179","count":1},{"id":"GO:0006450","count":1}]},{"hash":"1494451179268108606","title":"GPCR Signaling with Calcium Regulation and Inflammation","description":"The cluster is driven by GPCR-mediated signaling terms (MAPK-activating adrenergic signaling, dopamine receptor signaling, morphine response) with downstream phosphorylation and voltage-gated calcium channel regulation, plus immune/inflammatory cues (eosinophil chemotaxis, IL-8 production) and autonomic cardiovascular regulation (heart rate/baroreceptor). This points to a cohesive theme of GPCR signaling coupled to calcium regulation and inflammatory responses.","confidence":"High","size":7,"edges":5,"triangles":1,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071883","count":6},{"id":"GO:0043278","count":6},{"id":"GO:1901386","count":6},{"id":"GO:0007191","count":6},{"id":"GO:0048245","count":6}]},{"hash":"1499769664531179274","title":"Developmental Signaling and Morphogenesis","description":"The top GO terms cluster around development and morphogenesis (multicellular organism development, hippocampus development, mast cell differentiation, cell morphogenesis) with supporting signaling pathways (CAMKK-AMPK, canonical Wnt) and calcium signaling (calcium ion import), plus angiogenesis, suggesting a developmental signaling program shaping tissue formation; the sensory/pain term appears as a broader, less central context.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0019233","count":5},{"id":"GO:0007275","count":4},{"id":"GO:0061762","count":3},{"id":"GO:0060374","count":3},{"id":"GO:0045766","count":3}]},{"hash":"752423397563398244","title":"Transcription Regulation and Stress Response","description":"This cluster centers on DNA-templated transcription and its regulation, suggesting nuclear transcriptional control. Additional terms point to stress-related modulation of translation and various stress responses, implying proteins that respond to cellular stress by adjusting transcription. Overall, the common theme is transcriptional regulation under stress conditions.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0016576","count":1}]},{"hash":"1374455566480170714","title":"Innate immune regulation and development","description":"Most terms point to innate immune signaling and immune regulation (innate immune response, regulation of LPS signaling, negative regulation of viral transcription, chemokine production). The presence of spleen development and placental morphogenesis suggests developmental contexts where immune regulation occurs, reinforcing a theme of immune system modulation in tissues. Overall, the cluster appears to group proteins involved in controlling immune responses and antiviral transcription rather than a single metabolic pathway.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048536","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0060669","count":3},{"id":"GO:1901536","count":3},{"id":"GO:0000122","count":3}]},{"hash":"84894338385000367","title":"Apoptosis and Innate Immune Signaling","description":"This cluster centers on apoptotic and pyroptotic processes (GO:0006915, GO:0070269) and innate immune response (GO:0045087), suggesting a core theme of cell death coupled with immune signaling. Ubiquitination (GO:0016567) indicates regulation of protein turnover within these pathways, while calcium signaling (GO:0098703) and cellular response to cAMP (GO:0071320) reflect broader stress-responsive signaling. The presence of mitotic spindle assembly (GO:0090307) may reflect links between cell cycle control and death pathways rather than a primary function. Overall, the terms point to a network involving apoptosis, inflammation, and related signaling, justifying the label.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0090307","count":2},{"id":"GO:0070269","count":2},{"id":"GO:0098907","count":2},{"id":"GO:0098910","count":2}]},{"hash":"1233164225350983075","title":"ER protein folding and redox homeostasis","description":"This cluster\u2019s strongest signals are ER-related processes: response to ER stress, redox balance in the secretory compartment, and a prolyl hydroxylation step tied to protein maturation in the ER. These point to ER-associated protein folding/quality control and oxidative folding, with a few outliers (DNA transposition, mitochondria-associated cytochrome assembly) that are less connected to the main theme.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0090305","count":1},{"id":"GO:0006313","count":1},{"id":"GO:0046826","count":1},{"id":"GO:0045454","count":1}]},{"hash":"1520361683074882813","title":"NF-kB/TNF Signaling and Ubiquitination","description":"This cluster centers on NF-kappaB signaling (NIK activation, I-kappaB phosphorylation, TNF pathways) with ubiquitin-related regulation and links to chromatin modification, suggesting an immune signaling module tied to transcriptional control. The absence of edges implies grouping by GO annotations rather than direct interactions.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0007250","count":4},{"id":"GO:2000620","count":4},{"id":"GO:0033151","count":4},{"id":"GO:1903721","count":4},{"id":"GO:0085020","count":4}]},{"hash":"180005865032526957","title":"Ubiquitination and Immune Signaling Pathways","description":"Proteins in this cluster show enrichment for ubiquitination and several immune-related signaling pathways (B cell receptor signaling, type II interferon production, T cell activation/apoptosis), suggesting a shared role in ubiquitin-mediated regulation of immune responses. While other terms point to broader signaling (JAK, Wnt, prolactin), the dominant theme ties to immune signaling control through ubiquitination.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0010534","count":2},{"id":"GO:0032609","count":2},{"id":"GO:0009395","count":2},{"id":"GO:0006924","count":2}]},{"hash":"2267875074922771062","title":"Viral genome integration and transposition","description":"The top GO terms point to viral and mobile genetic element processes: entry into host cells, proviral latency, DNA/RNA integration and transposition, viral genome entry into the nucleus, and regulation of viral transcription, with an accompanying host NF-kappaB signaling response. Together these suggest a cluster centered on viral-host genome interactions and genome mobility (retroviral/ transposon activity), rather than a single host pathway. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007249","count":2},{"id":"GO:0046718","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0015074","count":1}]},{"hash":"344649275490755154","title":"Neuronal development and morphogenesis","description":"The terms cluster around neural development and neurite morphology: neuron migration, dendrite morphogenesis, axon extension, hippocampus and retinal cone cell development, neuromast hair cell development, and axoneme assembly, with intracellular signaling supporting neural processes. A couple of outliers (endothelial proliferation, DNA transposition) may reflect noise or broader multifunctionality, but the core theme is neural development and neurite/outgrowth. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001935","count":1},{"id":"GO:0006313","count":1},{"id":"GO:0048675","count":1},{"id":"GO:0021766","count":1},{"id":"GO:0035675","count":1}]},{"hash":"995651663456190135","title":"Ubiquitin-Proteasome Regulation and Stress Signaling","description":"The dominant signal is ubiquitin-dependent protein catabolic process, with accompanying terms on transcription regulation and stress-responsive pathways (cadmium response, JNK, TNF signaling). This points to a group of proteins involved in ubiquitin-mediated proteolysis and stress signaling regulation, rather than a single cohesive complex. Confidence reflects the multi-faceted but plausible link to ubiquitin-proteasome\u2013driven turnover and stress response.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0006355","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0046328","count":2}]},{"hash":"564636550583237587","title":"Nutrient-sensing signaling and filamentous growth","description":"This cluster centers on responses to sugars (glucose/sucrose) and signaling pathways tied to nutrient availability, plus growth changes under starvation such as pseudohyphal and invasive growth. The GO terms for detection and signaling of glucose and sucrose, and for starvation response, point to a cohesive theme of nutrient sensing and adaptive morphology, with a peripheral note on stress-related ppGpp biosynthesis. Confidence in this label is Medium.","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":1},{"id":"GO:0015970","count":1},{"id":"GO:0042594","count":1},{"id":"GO:0007124","count":1},{"id":"GO:0001302","count":1}]},{"hash":"1395944278586768487","title":"Peroxisome Biogenesis & Membrane Import","description":"The proteins in this cluster are linked primarily to peroxisome formation and maintenance, with GO terms for membrane biogenesis, inheritance, ER-dependent organization, and import into the peroxisome membrane. A related term on ceramide biosynthesis fits within peroxisomal lipid metabolism, though a few non-peroxisomal terms appear in the mix, likely representing annotation noise. Overall, the theme centers on peroxisome biogenesis and membrane import.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016557","count":1},{"id":"GO:0045033","count":1},{"id":"GO:2000304","count":1},{"id":"GO:0032581","count":1},{"id":"GO:0045046","count":1}]},{"hash":"358193448179237521","title":"Unknown","description":"The GO terms are highly diverse: several relate to extracellular matrix regulation and tissue remodeling (negative regulation of ECM disassembly, collagen catabolic process, bone mineralization), but others point to hormone signaling (response to estradiol), immune/inflammatory responses (acute-phase response, immune response to tumor cell, coagulation), vascular signaling (VEGF pathway), and development (Sertoli cell and brain development). There isn\u2019t a single cohesive function that clearly binds all terms, suggesting the proteins may participate in multiple unrelated processes or that the cluster is not functionally homogeneous. ","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010716","count":1},{"id":"GO:0030502","count":1},{"id":"GO:0010711","count":1},{"id":"GO:0032355","count":1},{"id":"GO:0006953","count":1}]},{"hash":"221532476768247813","title":"Carnitine- and lipid-metabolism cluster","description":"The proteins collectively point to lipid and energy metabolism, with recurrent involvement in carnitine biosynthesis/metabolism, beta-oxidation of fatty acids, and steroid biosynthesis, suggesting a cohesive lipid/energy processing theme despite a few unrelated terms.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0009088","count":1},{"id":"GO:0046839","count":1},{"id":"GO:0045329","count":1}]},{"hash":"646349657397143349","title":"NeuralGPCR signaling and sensory processing","description":"The cluster is dominated by terms tied to neuronal signaling and sensory modulation, including GPCR-mediated adenylate cyclase activation, pain perception, prepulse inhibition, morphine/amphetamine responses, and visual learning. While there are a few metabolic descriptors (electron transport, thermogenesis), the strongest common theme centers on neural communication and sensory processing, suggesting these proteins function together in neural signaling networks. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":4},{"id":"GO:0022900","count":4},{"id":"GO:0010579","count":4},{"id":"GO:0043278","count":4},{"id":"GO:0051930","count":4}]},{"hash":"1946460876422345332","title":"Embryonic organogenesis and patterning","description":"This cluster centers on developmental processes across multiple tissues: placental differentiation, endocrine system development, pancreatic and cartilage development, left-right patterning, and EMT-related morphogenesis, all pointing to broad embryonic organ formation and tissue differentiation. Some GO terms also reflect transcriptional regulation and RNA processing during development, supporting a cohesive developmental theme despite tissue diversity.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":4},{"id":"GO:1903026","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0035270","count":3}]},{"hash":"1155260995101281825","title":"Glutamatergic Synaptic Transmission","description":"This cluster is dominated by GO terms connected to regulation and execution of glutamatergic synaptic transmission, including excitatory postsynaptic potential and sodium/potassium ion transport, suggesting a primary role in neuronal signaling. Some outliers (viral release and cell wall macromolecule catabolic processes) may reflect annotation noise or multifunctional proteins, but the core theme remains synaptic transmission.","confidence":"Medium","size":7,"edges":12,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051966","count":7},{"id":"GO:0019076","count":7},{"id":"GO:0009253","count":7},{"id":"GO:0016998","count":7},{"id":"GO:0035725","count":6}]},{"hash":"659804829365922970","title":"Melanosome Biogenesis and Pigmentation","description":"The dominant GO terms center on pigmentation and melanosome assembly, suggesting a pigment-related process. Vesicle trafficking terms (ER to Golgi, COPII, intra-Golgi) and autophagy support organelle biogenesis and turnover, which align with melanosome formation and pigment deposition. A few terms (mitotic DNA replication) are less connected and may reflect broad-domain associations, but the core signal points to melanosome biogenesis and pigmentation.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043473","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0042338","count":1},{"id":"GO:0006891","count":1},{"id":"GO:0006914","count":1}]},{"hash":"93063547199899169","title":"Ion and Sugar Transmembrane Transporters","description":"GO terms reveal strong enrichment for transmembrane transport of various ions (potassium, sodium, phosphate, nitrite) and sugars (fucose, galactose, sialic acid, arabinose), along with a vesicular neurotransmitter loading term. The lack of protein\u2013protein interaction signals but consistent transporter-related functions suggests these proteins function primarily as membrane transporters for ions and sugars. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":6},{"id":"GO:0006855","count":5},{"id":"GO:0006004","count":5},{"id":"GO:0015707","count":5},{"id":"GO:0035435","count":5}]},{"hash":"757419652688110911","title":"Wnt-Ephrin signaling in hippocampal plasticity","description":"The cluster centers on canonical Wnt signaling, ephrin receptor signaling, and ERK cascade regulation, with terms tied to dendritic spine morphogenesis, hippocampus development, and learning, pointing to neuronal signaling and synaptic plasticity. Some terms (PI3K regulation, actin reorganization, beta selection, T cell signaling) may be broader or outdated annotations but do not override the neuronal theme.","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":5},{"id":"GO:0043552","count":5},{"id":"GO:0031532","count":5},{"id":"GO:0048013","count":5},{"id":"GO:0070374","count":5}]},{"hash":"733428217473526083","title":"Developmental differentiation across tissues","description":"The terms cluster around tissue-specific development and differentiation across multiple organs (neural, ovarian, nail, prostate), plus related growth and signaling processes (insulin signaling, DNA replication initiation, hormone secretion). This suggests the proteins collectively participate in broad developmental differentiation rather than a single pathway, with some terms reflecting general growth regulation. Note: one term related to immune regulation may be less connected to the core theme and could reflect annotation noise.","confidence":"Medium","size":6,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":6},{"id":"GO:0002924","count":5},{"id":"GO:0051150","count":4},{"id":"GO:0060528","count":4},{"id":"GO:1903468","count":4}]},{"hash":"2284472443169736145","title":"Nucleotide Metabolism and tRNA Editing","description":"The cluster\u2019s top GO terms cluster around nucleotide metabolism (deoxycytidine catabolic process, UMP salvage, cytidine deamination, guanine catabolic process, uridine biosynthetic process, cytosine metabolic process) and RNA modification (tRNA wobble adenosine to inosine editing). This suggests a core shared function in nucleotide turnover and RNA fine-tuning, with a few peripheral terms (riboflavin biosynthesis, N-terminal acetylation, antibiotic response) likely reflecting broader metabolic context rather than a separate module. Overall, a cohesive theme is nucleotide metabolism coupled with tRNA editing.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006217","count":2},{"id":"GO:0002100","count":2},{"id":"GO:0044206","count":2},{"id":"GO:0019858","count":2},{"id":"GO:0046109","count":2}]},{"hash":"965632386667280894","title":"Chromatin Remodeling and Histone Modification","description":"The dominant GO terms cluster around chromatin state control: heterochromatin formation, chromatin remodeling during transcription initiation, DNA replication-dependent chromatin assembly, and histone modifications such as acetylation and methylation. Together these point to a protein group involved in establishing and maintaining chromatin structure and regulating transcription. A few terms (plasminogen activation, antibacterial response) appear as peripheral annotations and are likely unrelated to the core function.","confidence":"High","size":6,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000183","count":4},{"id":"GO:0051290","count":4},{"id":"GO:0045815","count":4},{"id":"GO:0006335","count":4},{"id":"GO:0043966","count":3}]},{"hash":"1158233687843393283","title":"Embryogenesis and Morphogenesis","description":"The terms cluster around embryonic development and tissue/morphogenesis processes (placenta, pancreas, cartilage, heart EMT, left-right patterning, endocrine development). Regulatory aspects like transcription and chromatin assembly align with developmental gene regulation. This makes embryogenesis and morphogenesis a coherent, representative theme for the group.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":3},{"id":"GO:0035270","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0060536","count":3}]},{"hash":"869300262646148728","title":"Pancreatic endocrine cell differentiation","description":"The cluster is strongly driven by GO terms for pancreatic cell differentiation across multiple islet cell types (type B, A, and epsilon), suggesting a focus on pancreatic endocrine/islet development. Additional terms point to transcriptional regulation, consistent with genes that guide lineage specification. Although other developmental terms appear, the pancreas differentiation signals are predominant, justifying the label.","confidence":"High","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0003309","count":3},{"id":"GO:0015074","count":3},{"id":"GO:0006313","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0006357","count":2}]},{"hash":"2114793962295595509","title":"Reproductive tissue development and hormone signaling","description":"The top GO terms cluster around development and differentiation of reproductive tissues (mammary gland alveolus, Leydig cell differentiation, prostate gland acinus development, ovarian follicle growth, spermathecum morphogenesis) and hormonal signaling (estrogen receptor signaling) with a transcriptional regulatory component (DNA-templated transcription). Some terms about metabolism (feeding behavior, fat cell differentiation) may reflect broader endocrine regulation linked to reproduction, but the dominant theme is reproductive development and hormone signaling.","confidence":"Medium","size":6,"edges":10,"triangles":7,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0060749","count":5},{"id":"GO:0033327","count":5},{"id":"GO:2000253","count":3},{"id":"GO:0045994","count":3}]},{"hash":"2295577511838068493","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000183","count":2},{"id":"GO:0018027","count":2},{"id":"GO:0018023","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0031167","count":2}]},{"hash":"1355215538267919570","title":"Unknown","description":"The terms include both insect-specific processes (chitin-based cuticle development, chitin catabolic process, ecdysis) and vertebrate development (cartilage, lung development) along with inflammatory signaling (NF-kappaB activation, IL-8 production, IL-6 response) and apoptosis. There isn\u2019t a single cohesive function or pathway tying these together, suggesting heterogeneous annotations across species. ","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0040003","count":1},{"id":"GO:0051216","count":1},{"id":"GO:0006032","count":1},{"id":"GO:0007250","count":1},{"id":"GO:0006915","count":1}]},{"hash":"1915275586737454675","title":"GTPase-regulated vesicle trafficking","description":"The GO terms point mainly to endomembrane transport processes (Golgi localization, endosome/lysosome trafficking, Cvt pathway) and regulation by GTPases, suggesting a vesicle trafficking\u2013centric cluster. Developmental and cell-cycle terms appear as contextual roles rather than central themes, so the core signal is vesicle transport driven by GTPases.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0031069","count":3},{"id":"GO:0000055","count":3},{"id":"GO:0000042","count":3},{"id":"GO:0008333","count":3}]},{"hash":"2101825696428565280","title":"Unknown","description":"The set shows a broad mix of stress responses (cold, aluminum, ethanol), RNA metabolism (tRNA wobble modification and processing), and development signals (embryonic development, erythrocyte differentiation) plus dopamine synthesis; there is no single, cohesive function tying all terms together, so a meaningful label cannot be assigned.","confidence":"","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0009409","count":2},{"id":"GO:0010044","count":1},{"id":"GO:0002097","count":1},{"id":"GO:0051572","count":1},{"id":"GO:0008033","count":1}]},{"hash":"1559430381784350292","title":"ER-Stress\u2013Linked Transcriptional Repression","description":"The strongest signals are DNA-templated transcription and negative regulation of transcription by RNA polymerase II, pointing to transcriptional repression. Additional terms like response to endoplasmic reticulum stress and protein repair suggest involvement in the unfolded protein response and protein quality control, while redox homeostasis and cytochrome complex assembly imply broader stress-related protein maturation roles. Overall, the cluster appears to group proteins that coordinate transcriptional regulation with ER stress and protein maintenance efforts.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0046826","count":1},{"id":"GO:0045454","count":1},{"id":"GO:0018401","count":1}]},{"hash":"1660967580011889896","title":"Unknown","description":"The GO terms cover several unrelated developmental processes across different tissues (ear, heart, spinal cord, ectoderm, liver) and general functions like behavior and signaling, with no shared pathway or function tying the proteins together. The absence of cohesive functional linkage and lack of edges supports assigning an Unknown label.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042491","count":1},{"id":"GO:0060928","count":1},{"id":"GO:0021920","count":1},{"id":"GO:2001055","count":1},{"id":"GO:0030520","count":1}]},{"hash":"195214408326990186","title":"Unknown","description":"The GO terms show a mix of RNA processing and transcription-related activities along with intracellular transport and vesicle regulation, plus a few metabolism-related processes. There isn't a single cohesive biological function tying these terms together, making it unclear what precise theme best represents the cluster.","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0043427","count":1},{"id":"GO:0033611","count":1},{"id":"GO:0042413","count":1},{"id":"GO:0000387","count":1},{"id":"GO:0006396","count":1}]},{"hash":"548669960668027713","title":"Diverse solute transporters","description":"The proteins in this cluster are linked by membrane transport activities across a wide range of substrates, including xenobiotics, ions, and various metabolites, with at least one hint toward neurotransmitter handling. The top GO terms show multiple distinct transport processes (xenobiotic, nitrite, phosphate, sialic acid, trehalose, etc.), supporting a theme of broad-spectrum solute transporters rather than a single substrate pathway. Confidence: High","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019852","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0042908","count":2},{"id":"GO:0006004","count":2},{"id":"GO:0015707","count":2}]},{"hash":"1276425801099253083","title":"Retroviral Integration and Latency","description":"This cluster centers on steps of the retroviral/bridging transposon life cycle: entry into the host, delivery to the nucleus, reverse transcription (RNA-templated DNA synthesis), DNA integration and replication, and establishment of integrated proviral latency. Additional terms reflect host\u2013virus interactions such as prophage-like latency and host defense (siRNA processing regulation), supporting a cohesive retroviral/retroelement theme.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006313","count":1},{"id":"GO:0046718","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0039651","count":1}]},{"hash":"656288427141435693","title":"Ubiquitin and neddylation signaling","description":"The cluster is dominated by GO terms tied to ubiquitin pathways: protein neddylation, K63-linked ubiquitination, and free ubiquitin chain polymerization. These ubiquitin-related processes often regulate signaling and genome maintenance, aligning with additional terms on Fc-epsilon receptor signaling, interferon-beta response, and a mitotic G1 DNA damage checkpoint. Together, they suggest a cohesive module centered on ubiquitin- and neddylation-mediated regulation.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045116","count":6},{"id":"GO:0038095","count":6},{"id":"GO:0035458","count":6},{"id":"GO:0070534","count":6},{"id":"GO:0031571","count":6}]},{"hash":"1286691900409822225","title":"Heat and Oxidative Stress Response with Microtubule Dynamics","description":"The GO terms cluster around cellular responses to heat and oxidative stress (heat, hydrogen peroxide, ROS regulation) and an emphasis on microtubule dynamics (polymerization/depolymerization) and transport, with a tissue-context note from lens morphogenesis. This suggests a cohesive role for these proteins in stress response coupled with cytoskeletal remodeling and intracellular transport.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006936","count":1},{"id":"GO:0032355","count":1},{"id":"GO:0030308","count":1},{"id":"GO:0009408","count":1},{"id":"GO:2000378","count":1}]},{"hash":"221531653245039828","title":"Actin Cytoskeleton Remodeling in Muscle and Neurons","description":"The cluster is driven by terms tied to actin dynamics and assembly in muscle and neural contexts, including skeletal muscle fiber and thin filament assembly, postsynaptic actin organization, cell polarity/shape maintenance, and endocytosis/phagocytosis regulation. Although a couple terms (ascospore wall assembly, obsolete DNA unwinding) are unrelated, the dominant signal points to actin-driven remodeling of muscle and neuronal structures.","confidence":"High","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0021762","count":5},{"id":"GO:0048741","count":5},{"id":"GO:0000147","count":4},{"id":"GO:0030100","count":4},{"id":"GO:0030476","count":4}]},{"hash":"485567970725780364","title":"Unknown","description":"The terms are highly diverse, spanning metabolic processes (chitin catabolic process, transsulfuration, isoleucine biosynthesis) and multiple signaling/development pathways (CAMKK-AMPK, mast cell differentiation, angiogenesis, hippocampus development, Wnt and prolactin signaling). With no clear shared function and no network edges, there is no coherent theme to label this cluster beyond Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006032","count":2},{"id":"GO:0019346","count":2},{"id":"GO:0009097","count":2},{"id":"GO:0061762","count":1},{"id":"GO:0060374","count":1}]},{"hash":"1313682694566964927","title":"Large Subunit Ribosome Biogenesis","description":"This cluster shows a strong emphasis on large subunit (LSU) ribosome biogenesis, including preribosome assembly, LSU rRNA maturation, LSU export from the nucleus, and LSU assembly. While a few non-ribosome terms appear, the ribosome-related terms dominate, indicating a coherent functional theme in ribosome production and processing.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902626","count":1},{"id":"GO:0000466","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0000463","count":1}]},{"hash":"602500441893037098","title":"GPCR-driven cAMP/cGMP Signaling","description":"This cluster is dominated by GPCR-mediated pathways that activate adenylyl cyclase or guanylyl cyclase, yielding cAMP or cGMP (e.g., adenylate cyclase-activating adrenergic receptor signaling, receptor guanylyl cyclase signaling, cAMP/cGMP biosynthetic processes). The inclusion of blue light signaling and intracellular signal transduction supports a cohesive theme of cyclic nucleotide\u2013mediated signal transduction, with downstream transcriptional regulation as a possible consequence.","confidence":"High","size":6,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0006182","count":2},{"id":"GO:0030828","count":2},{"id":"GO:0035556","count":2},{"id":"GO:0006171","count":2}]},{"hash":"1018629488721981072","title":"Ribosome biogenesis and translation","description":"The cluster is dominated by translation-related terms (GO:0006412) and ribosome assembly/maturation of SSU rRNA, including specific steps in rRNA processing (ITS2 cleavage, SSU maturation) that feed into ribosome production. Additional RNA processing hints (RNA folding, splicing) align with requirements for ribosome biogenesis. A couple of antibiotic-response terms may reflect cellular responses to translation inhibitors, but the core theme centers on ribosome construction and protein synthesis.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0046677","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0000372","count":1},{"id":"GO:0033120","count":1}]},{"hash":"862222929700446779","title":"Microtubule Spindle Assembly and Cytoskeleton Regulation","description":"The dominant signals are microtubule-centric processes: mitotic/meiotic spindle assembly and orientation, spindle midzone formation, cytoskeletal polarity, and plus-end vesicle transport along microtubules, with additional but weaker ties to neural tissue architecture and development. This points to a coherent theme of microtubule-driven spindle organization and cytoskeleton dynamics across contexts.","confidence":"High","size":6,"edges":11,"triangles":10,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":6},{"id":"GO:0051296","count":6},{"id":"GO:0000915","count":6},{"id":"GO:0051255","count":6},{"id":"GO:0021693","count":6}]},{"hash":"422824337020786701","title":"Golgi-ER Vesicle Trafficking and ERAD","description":"The GO terms cluster around vesicle fusion and docking, intracellular transport, Golgi- and endosome-associated trafficking (including retrograde endosome-to-Golgi routes and Golgi ribbon formation), and ubiquitin-dependent ERAD pathways, indicating a set of proteins coordinating vesicular movement through the Golgi-ER network with ubiquitin-mediated quality control. The brain development term is likely a secondary or contextual annotation. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006906","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0007420","count":2}]},{"hash":"2187828137104187021","title":"Embryonic Morphogenesis and Tissue Development","description":"The proteins are linked to broad developmental processes across multiple tissues (embryonic body morphogenesis, ectoderm development, medulla oblongata development, oviduct development, renal outer medulla development, fungiform papilla formation) with additional roles in anisotropic cell growth, cell cycle regulation, and nuclear import, suggesting a theme of developmental regulation and tissue formation rather than a single specialized pathway.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":5},{"id":"GO:0086073","count":4},{"id":"GO:0061198","count":4},{"id":"GO:0051211","count":4},{"id":"GO:0021550","count":4}]},{"hash":"1536641920453724643","title":"Diverse Membrane Transporters","description":"Most terms point to transport across membranes (xenobiotic, phospholipid, ceramide, branched-chain amino acids, teichoic acid, pheromone export), indicating a cluster of membrane-associated transporter proteins with varied substrates. Some annotations (antigen processing via MHC I) are less consistent with transport and may be annotation noise, but the dominant theme is membrane transport diversity.","confidence":"Medium","size":6,"edges":10,"triangles":6,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0019885","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0015777","count":2},{"id":"GO:0000770","count":2},{"id":"GO:0030153","count":2}]},{"hash":"923173188091571018","title":"Unknown","description":"The GO terms span DNA replication, cell cycle and kinetochore localization, but also neural signaling and development terms (sensory/visual perception, cocaine behavioral response, heart development, prostaglandin signaling, ERK cascade). This mix suggests there is no single coherent function unifying the cluster, so a generic Unknown label is most appropriate.","confidence":"","size":6,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0045736","count":3},{"id":"GO:0034501","count":3},{"id":"GO:0019233","count":3}]},{"hash":"1307467299702640921","title":"Neurodevelopment and Synaptic Signaling","description":"This cluster shows a strong emphasis on neural development and synaptic function (axonogenesis, EPSP, long-term potentiation) with additional developmental processes (angiogenesis, heart development) suggesting a role in developmental signaling and neural connectivity. Some terms may be broader or cross-domain annotations, but the dominant theme is neurodevelopment and synaptic signaling.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0007409","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0009738","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1215712228372229085","title":"Unknown","description":"The GO terms span diverse tissue development and xenobiotic metabolism with no clear shared function or interaction pattern, suggesting no cohesive biological theme for this cluster.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061298","count":2},{"id":"GO:2001037","count":2},{"id":"GO:0019341","count":2},{"id":"GO:0009822","count":2},{"id":"GO:0006699","count":2}]},{"hash":"1801986898714797194","title":"DNA Replication and Genome Maintenance","description":"The top GO terms center on telomere maintenance, mitochondrial DNA repair, and mitotic DNA replication steps (e.g., RNA primer removal and replication fork reversal), indicating a shared function in genome integrity and DNA replication across nuclear and mitochondrial genomes. While several terms are obsolete, the dominant theme ties proteins to maintaining genome stability rather than signaling or apoptotic processes.","confidence":"High","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006919","count":3},{"id":"GO:0010881","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0043504","count":2},{"id":"GO:0044806","count":2}]},{"hash":"655927161674291603","title":"DNA Damage Response and Apoptosis Regulation","description":"The cluster centers on cellular stress responses involving DNA damage sensing and checkpoint activation, coupled with regulation of apoptosis (including mitochondrial fragmentation in the apoptotic process). Additional terms point to RNA quality control (NMD) and proteostasis regulation (deubiquitination/ubiquitin-proteasome), suggesting a network coordinating DNA damage response with cell survival and protein turnover; a weaker connection to Wnt signaling hints at broader proliferative signaling interactions.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032508","count":2},{"id":"GO:0090305","count":2},{"id":"GO:0044806","count":2},{"id":"GO:0000184","count":1},{"id":"GO:1902230","count":1}]},{"hash":"1760014772897758672","title":"Dopamine/Adrenergic GPCR Signaling","description":"The cluster is dominated by GO terms linking GPCR-mediated signaling for dopamine and adrenergic receptors, with downstream MAPK activation, cAMP-related signaling, and calcium channel regulation, pointing to a cohesive monoaminergic GPCR signaling module. Immune-related and mitochondrial terms appear less central, likely reflecting broader protein functions or annotations adjacent to signaling components.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071883","count":4},{"id":"GO:0043278","count":4},{"id":"GO:1901386","count":4},{"id":"GO:0007191","count":4},{"id":"GO:0048245","count":4}]},{"hash":"902763328146747559","title":"Biosynthesis and Stress Response","description":"This cluster features proteins involved in multiple biosynthetic pathways (NAD+ biosynthesis, oxaloacetate metabolism, polyamine biosynthesis, lipoprotein biosynthesis, threonyl-tRNA aminoacylation) along with stress-related responses (cadmium ion response, general stress response, amino acid starvation signaling). The shared theme appears to be metabolic processes coupled with stress adaptation, rather than a single, tight pathway, which justifies a broad \u201cbiosynthesis and stress response\u201d label.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046686","count":1},{"id":"GO:0006107","count":1},{"id":"GO:0006596","count":1},{"id":"GO:0042158","count":1},{"id":"GO:0009435","count":1}]},{"hash":"347803837110633740","title":"Dopamine/Adrenergic GPCR Signaling","description":"The top GO terms cluster around GPCR-mediated signaling pathways that activate adenylyl cyclase and MAP kinases (e.g., dopamine- and adrenergic receptor signaling) and involve protein phosphorylation. This points to a shared function in receptor-driven signal transduction with downstream phosphorylation events, consistent with autonomic/neural signaling and related physiological effects like heart rate regulation; some immune-related terms may reflect broader cross-talk but are secondary to the core GPCR signaling theme.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071883","count":6},{"id":"GO:0043278","count":6},{"id":"GO:1901386","count":6},{"id":"GO:0007191","count":6},{"id":"GO:0048245","count":6}]},{"hash":"1076297846576868374","title":"Glycan biosynthesis and plant cell wall assembly","description":"The top GO terms cluster around synthesis of glycan components, including proteoglycans (dermatan/chondroitin/heparan sulfate) and plant cell wall polysaccharides (glucuronoxylan), along with related processes like cell wall organization and pollen exine formation. This suggests a common theme of glycan biosynthesis contributing to extracellular matrices and cell walls across organisms.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050651","count":2},{"id":"GO:0050650","count":2},{"id":"GO:0075015","count":2},{"id":"GO:0071555","count":1},{"id":"GO:0030204","count":1}]},{"hash":"620665113761846053","title":"Membrane Potential Signaling Across Tissues","description":"Most terms center on regulation or changes of membrane potential and electrical activity across tissues (resting potential, depolarization/repolarization in cardiac cells, etc.), with other terms reflecting related signaling and development/immune processes. The dominant theme is tissue-wide electrical signaling based on membrane potential, justifying this label despite some peripheral terms.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060075","count":2},{"id":"GO:0003031","count":2},{"id":"GO:0030103","count":2},{"id":"GO:0048266","count":2},{"id":"GO:0043029","count":2}]},{"hash":"1231308673628321548","title":"Developmental Signaling and Morphogenesis","description":"The GO terms cluster around developmental processes and signaling pathways, including hippocampus development, internal genitalia morphogenesis, angiogenesis, sympathetic neuron projection guidance, and canonical Wnt signaling, as well as CAMKK-AMPK signaling. Some terms related to immune tolerance or virion attachment appear as outliers, but the dominant theme is developmental signaling and tissue morphogenesis, suggesting a cohesive functional group. Confidence: Medium.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002519","count":1},{"id":"GO:0046814","count":1},{"id":"GO:0061762","count":1},{"id":"GO:0060374","count":1},{"id":"GO:0045766","count":1}]},{"hash":"2262928389951364537","title":"Embryonic Neural and Skeletal Development with Stress Responses","description":"The top GO terms cluster around developmental processes (neural tube closure, forebrain development, skeletal system development, multicellular organism development) and transcriptional regulation, with additional signals of cellular stress responses (ER stress\u2013related apoptosis). While some terms hint at broader stress or defense responses, the core appears to be embryonic/multicellular development with associated gene expression and stress signaling, justifying this label.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070059","count":4},{"id":"GO:0001843","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0001501","count":4},{"id":"GO:0006351","count":4}]},{"hash":"1272993396152853021","title":"Unknown","description":"The GO terms span diverse processes (histone and RNA Pol II dephosphorylation, meiosis/mitosis events like DSB formation and kinetochore attachment, ascospore formation) alongside unrelated pathways (glycogen metabolism, sphingomyelin catabolism, T cell homeostasis, morphine response). There isn\u2019t a single cohesive biological theme linking all terms, so a meaningful, specific cluster label can\u2019t be assigned.","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0016576","count":6},{"id":"GO:0043278","count":6},{"id":"GO:0006685","count":6},{"id":"GO:0051315","count":6},{"id":"GO:0043029","count":6}]},{"hash":"1556107568728645476","title":"Ribosome biogenesis and translation","description":"The proteins here are tied to ribosome assembly and protein synthesis (ribosome biogenesis, ribosomal small subunit biogenesis, cytoplasmic translation, and tRNA modification) with links to cell growth processes (cell cycle/division). Some terms appear less connected (viral latency, conjugation), but the strongest shared theme is ribosome/translation machinery.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903833","count":1},{"id":"GO:0019042","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0007049","count":1}]},{"hash":"1376193993322514574","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042753","count":2},{"id":"GO:0010018","count":2},{"id":"GO:0009585","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0042245","count":2}]},{"hash":"1965980469171666522","title":"Stress Response and Transcription Regulation","description":"The top GO terms show a mix of stress-related responses (response to magnesium ion, response to vitamin E, endoplasmic reticulum unfolded protein response, host-mediated antiviral activity) alongside transcription regulation (regulation of DNA-templated transcription, transcription initiation at RNA polymerase III promoter) and autophagy initiation (Atg1/ULK1 kinase complex assembly). The cluster has no edges between members, suggesting a set of regulatory proteins spanning stress responses and transcription control rather than a single cohesive pathway. This justifies a label capturing both themes.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032026","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0006384","count":1},{"id":"GO:0033197","count":1},{"id":"GO:0060153","count":1}]},{"hash":"438800092545270415","title":"Mitotic Chromosome Dynamics and Cell Division","description":"Based on the strongest recurring GO terms, the cluster centers on mitosis-related processes (mitotic metaphase chromosome alignment, exit from mitosis, chromosome condensation) and overall cell division, with additional signals for nucleus organization and vesicle trafficking that may be less central. The core theme is mitotic chromosome management during cell division.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902188","count":2},{"id":"GO:0007080","count":2},{"id":"GO:0010458","count":2},{"id":"GO:0007076","count":2},{"id":"GO:0000920","count":2}]},{"hash":"335596518192715358","title":"Sperm Capacitation and Glycoprotein Biosynthesis","description":"The cluster shows enrichment for sperm capacitation and glycosylation-related processes (N-linked glycosylation and oligosaccharide biosynthesis), suggesting a theme around fertilization and glycoprotein processing. Other developmental terms appear less directly connected, so the overall link is limited to the fertilization/glycosylation axis.","confidence":"Low","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048240","count":2},{"id":"GO:0018279","count":1},{"id":"GO:0009312","count":1},{"id":"GO:0090238","count":1},{"id":"GO:0001525","count":1}]},{"hash":"1572764806269934847","title":"Spliceosome Assembly and RNA Processing","description":"The core terms are mRNA processing, RNA splicing, and spliceosomal tri-snRNP complex assembly, pointing to proteins involved in pre-mRNA splicing and maturation. The other GO terms appear incidental noise given their single annotation counts. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":1},{"id":"GO:0008380","count":1},{"id":"GO:0000244","count":1},{"id":"GO:1903212","count":1},{"id":"GO:0090180","count":1}]},{"hash":"1256119907941669890","title":"NF-kB\u2013regulated ubiquitination and apoptosis","description":"This cluster is dominated by terms linking NF-\u03baB signaling, protein ubiquitination, and apoptosis in immune contexts (activation-induced T cell death; negative regulation of IL-12), suggesting a core theme of ubiquitin-mediated regulation of NF-\u03baB\u2013dependent survival and immune signaling. While a few terms touch on mechanotransduction or neuronal/cardiac signaling (e.g., NMDA receptor activity, SA node communication), the strongest signals center on NF-\u03baB\u2013related regulation and ubiquitination driving cell death in lymphocytes. Confidence: High","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0045083","count":3},{"id":"GO:0006924","count":3}]},{"hash":"1455408021001996327","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042425","count":2},{"id":"GO:0032836","count":2},{"id":"GO:0006685","count":2},{"id":"GO:0050427","count":2},{"id":"GO:0035860","count":2}]},{"hash":"278179815593840507","title":"Mitotic Ubiquitin-Proteasome Regulation","description":"The terms cluster around mitosis and ubiquitin-mediated proteolysis, including APC/C-dependent protein degradation, K11-linked ubiquitination, and spindle/cohesin functions, plus Okazaki fragment processing in mitosis. While a few terms pertain to non-mitotic processes, the dominant signal ties cell division to ubiquitin-directed proteolysis.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0070979","count":3},{"id":"GO:0031145","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0000920","count":2}]},{"hash":"364367377262101278","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001682","count":1},{"id":"GO:0000294","count":1},{"id":"GO:0034965","count":1},{"id":"GO:1905267","count":1},{"id":"GO:0002181","count":1}]},{"hash":"2184757558073399099","title":"Immune signaling and regulation","description":"Proteins are annotated with several immune-related GO terms, including neutrophil degranulation, B cell receptor signaling, T cell cytotoxicity susceptibility, and regulation of type II interferon production, indicating a theme of immune signaling and modulation. A few terms touch neural or developmental processes, but the strongest clustering centers on innate and adaptive immune function, suggesting these proteins participate in immune response regulation rather than a single specialized pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043312","count":3},{"id":"GO:0002519","count":2},{"id":"GO:0046814","count":2},{"id":"GO:0060374","count":2},{"id":"GO:0097491","count":2}]},{"hash":"2302299637519134362","title":"Pyrimidine Nucleotide Biosynthesis","description":"This cluster\u2019s top GO terms are dominated by pyrimidine nucleotide biosynthetic and catabolic processes (dUTP, dITP, dUMP biosynthesis/catabolism, and pyrimidine ribonucleotide biosynthetic process), suggesting the proteins collectively participate in pyrimidine nucleotide metabolism. Some morphogenesis terms and an obsolete localization term appear, which may reflect annotation noise or multifunctionality, but the strongest signal points to nucleotide biosynthesis/metabolism.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072327","count":1},{"id":"GO:2000495","count":1},{"id":"GO:0006229","count":1},{"id":"GO:0046081","count":1},{"id":"GO:0009220","count":1}]},{"hash":"1880155591148267658","title":"Protein turnover and post-translational regulation","description":"The top GO terms point to regulation of cellular processes (growth, cycle, signaling) alongside post-translational modifications (polyubiquitination, sumoylation) and protein stability/import, with one plant-specific term (chloroplast protein import) and another on mitochondrial fission. This suggests a broad theme of protein-level regulation and turnover rather than a single, cohesive pathway, and the zero-edge cluster status supports a diverse, regulatory collection. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007257","count":1},{"id":"GO:0030308","count":1},{"id":"GO:0000209","count":1},{"id":"GO:0090141","count":1},{"id":"GO:1903861","count":1}]},{"hash":"2202895715814059988","title":"Immune Activation and NF-kappaB Signaling","description":"The proteins cluster around immune signaling, including T cell receptor signaling, innate immune responses, dendritic cell differentiation, LPS-mediated signaling, and NF-kappaB pathway regulation (I-kappaB phosphorylation, NF-kappaB induction). The recurring presence of these pathways suggests a coherent module of immune activation; the dentinogenesis term is less connected but may reflect broader signaling contexts. Overall, the dominant theme is immune activation and inflammatory signaling.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0071732","count":3},{"id":"GO:0042475","count":3},{"id":"GO:0031666","count":3}]},{"hash":"380848428780951283","title":"Neural Axon Guidance and Synapse Maintenance","description":"Top GO terms indicate neuron development and wiring: multiple entries on axon guidance (sensory neuron, trigeminal nerve, sympathetic neuron projection) and maintenance of synapse structure; additional terms touch on neural connectivity and nerve organization. Other terms are less central (angiogenesis, fatty acid transport), but the neural guidance signals dominate, suggesting these proteins function together in neural pathfinding and synapse maintenance.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010763","count":3},{"id":"GO:0010748","count":3},{"id":"GO:1902378","count":2},{"id":"GO:0032026","count":2},{"id":"GO:0045766","count":2}]},{"hash":"1270010145024785054","title":"Endothelial VEGF Signaling and Angiogenesis Regulation","description":"This cluster shows strong enrichment for GO terms tied to VEGF signaling and angiogenesis regulation in endothelial contexts (positive regulation of VEGF signaling, negative regulation of angiogenesis, endothelial chemotaxis, integrin signaling), indicating a cohesive theme of vascular signaling control. Some peripheral terms (estrogen receptor signaling, ciliopathy-related localization, apoptotic cell engulfment) are present but do not redefine the core vascular regulatory theme.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900748","count":2},{"id":"GO:0016525","count":2},{"id":"GO:2001027","count":2},{"id":"GO:0033146","count":1},{"id":"GO:0006935","count":1}]},{"hash":"2189412399036473435","title":"Negative regulation of T cell activation and calcium signaling","description":"The GO terms cluster around dampening of T cell\u2013related signaling and cytokine production (negative regulation of IL-2 and IL-17, T cell receptor signaling, and the calcineurin\u2013NFAT pathway), plus regulation of calcium and potassium ion transport across the membrane. These point to proteins that suppress T cell activation and calcium-dependent signaling, with a minor note about membrane targeting and dendritic spine maintenance that may reflect broader signaling or trafficking roles. Overall, the dominant theme is immune signaling inhibition with a calcium-signaling component.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090314","count":1},{"id":"GO:1905664","count":1},{"id":"GO:1901379","count":1},{"id":"GO:0032700","count":1},{"id":"GO:1902951","count":1}]},{"hash":"1037002811647366222","title":"Unknown","description":"The top GO terms are scattered across distinct cellular processes (RNA processing like splicing and ribosome biogenesis; mitochondrial autophagy regulation; multiple transport and pH-related processes; a sensory perception term), with no clear, single function linking the proteins. This lack of a cohesive theme supports labeling the cluster as Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":1},{"id":"GO:0001522","count":1},{"id":"GO:0042254","count":1},{"id":"GO:1903955","count":1},{"id":"GO:1903146","count":1}]},{"hash":"2131040812382946825","title":"Golgi-ER trafficking and developmental signaling","description":"This cluster is dominated by GO terms related to endoplasmic reticulum to Golgi vesicle transport and Golgi vesicle budding, indicating a core function in intracellular trafficking and secretion. Additional terms touch on anatomical structure arrangement and development-related signaling pathways (Wnt, epithelial\u2013mesenchymal signaling, and hippocampus development), suggesting a broader link to developmental regulation via vesicle transport processes. The mix implies a group of proteins involved in Golgi/ER trafficking with roles in developmental signaling contexts.","confidence":"Medium","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006888","count":5},{"id":"GO:0060684","count":4},{"id":"GO:0032949","count":4},{"id":"GO:0071701","count":4},{"id":"GO:0021766","count":4}]},{"hash":"2044369986474396361","title":"Actin Cytoskeleton Remodeling in Spines and Filopodia","description":"The top GO terms cluster around actin dynamics, including dendritic spine morphogenesis, filopodium assembly, actin filament polymerization, and Arp2/3-mediated actin nucleation, pointing to remodeling of the actin cytoskeleton in neuronal spines and cellular protrusions. Additional terms related to membrane tubulation and regulatory processes are present but secondary. This supports a coherent theme of actin-driven protrusion and spine formation.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":2},{"id":"GO:0090311","count":1},{"id":"GO:0002625","count":1},{"id":"GO:0046847","count":1},{"id":"GO:0051496","count":1}]},{"hash":"112203034478972245","title":"Neural Temperature Sensing and Pain Signaling","description":"The top GO terms cluster around temperature-related responses (cellular response to temperature stimulus; diet-induced thermogenesis; regulation/resting membrane potential) and pain perception/behavior (sensory perception of pain; behavioral response to pain), with supporting neuroendocrine signals (vasopressin secretion) and chemosensory cues (CO2 detection). This points to a neural/neuroendocrine module governing thermal sensation, nociception, and membrane excitability, with some peripheral or cross-functional terms (e.g., T cell homeostasis) that are likely not core to the cluster\u2019s function. Confidence: Medium","confidence":"","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042391","count":3},{"id":"GO:0002024","count":3},{"id":"GO:0071502","count":3},{"id":"GO:0019233","count":3},{"id":"GO:0018298","count":2}]},{"hash":"1885307217916488711","title":"Acetylation-driven chromatin maintenance","description":"Top GO terms indicate a cluster centered on acetylation events (N-terminal acetylation, propionylation, spermidine/spermine acetylation) and chromatin-related processes (subtelomeric heterochromatin formation, centromeric cohesion). This points to proteins involved in protein modification by acetylation and in maintaining chromatin structure, with a few metabolic or unrelated terms present as less connected annotations.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":4},{"id":"GO:0001525","count":3},{"id":"GO:0009447","count":3},{"id":"GO:0017196","count":3},{"id":"GO:0032919","count":3}]},{"hash":"1076311969214583140","title":"Developmental patterning and organ morphogenesis","description":"The top GO terms cluster around embryonic development and tissue formation, including neural patterning and morphogenesis of bone, face, muscle, pancreas, otic structures, and sensory organs. While transcription-related terms appear, the dominant signal is developmental patterning and organogenesis across diverse tissues.","confidence":"High","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0007469","count":1},{"id":"GO:0071599","count":1},{"id":"GO:0021904","count":1},{"id":"GO:0021913","count":1}]},{"hash":"768177202556510953","title":"Unknown","description":"The top terms are a mix of RNA processing regulation, ncRNA-mediated gene silencing, hypoxia response, development, and general cellular processes, with no clear shared pathway or function. The cluster also shows no interactions (edges/triangles = 0), making it hard to identify a cohesive theme. Therefore, the label Unknown with None confidence.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901407","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0001666","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0048701","count":2}]},{"hash":"523268576161830577","title":"Epigenetic Regulation and Stress Response","description":"The cluster centers on methylation and transcriptional regulation (negative regulation of transcription by RNA Pol II; methylation including peptidyl-lysine dimethylation and rRNA methylation), suggesting epigenetic or post-translational control of gene expression. It also features several stress/immune-related responses (interleukin-1 response, immobilization stress, cellular senescence, tumor cell response), pointing to a theme of gene expression modulation in stress conditions. Some terms (terpene metabolism, vitamin E biosynthesis) may be peripheral or species-specific noise, but do not overwhelm the main regulatory-stress signal.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0070476","count":1},{"id":"GO:0042214","count":1},{"id":"GO:0090398","count":1},{"id":"GO:0002347","count":1}]},{"hash":"1656450290270964781","title":"Developmental Transcription Regulators","description":"The top GO terms cluster around regulation of transcription by RNA polymerase II and DNA-templated transcription, with several developmental processes mentioned (pituitary gland development, atrioventricular node cell development, hepatoblast differentiation, and other growth/development terms). This points to proteins that modulate gene expression during development, likely transcription factors or regulators coordinating organogenesis across multiple tissues. The presence of nervous system and behavioral terms complements a broad developmental regulatory role rather than a single tissue-specific function.","confidence":"High","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0021983","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0060928","count":2},{"id":"GO:0021920","count":2}]},{"hash":"350495872279552513","title":"Vertebrate developmental transcriptional regulation","description":"This cluster centers on GO terms tied to vertebrate development across several tissues (pituitary gland, midbrain, AV node, otic vesicle, spinal cord) and on regulation of transcription (regulation of DNA-templated transcription, negative regulation of transcription by RNA polymerase II), indicating a shared theme of controlling gene expression during development rather than a single tissue-specific function. An outlier term related to lipopolysaccharide response may reflect incidental or pleiotropic signaling. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0006355","count":2},{"id":"GO:0021983","count":2},{"id":"GO:0000122","count":2}]},{"hash":"2240933906062826168","title":"DNA damage response and transcriptional regulation","description":"This cluster centers on transcriptional regulation (GO:0006355) and chromatin/modification processes (histone dephosphorylation), coupled with stress-responsive pathways including DNA damage checkpoint signaling, apoptotic DNA fragmentation, and ER-stress\u2013related translation initiation. While some terms are obsolete or less directly related (e.g., morphine response, brain development), the overarching theme suggests nuclear regulation of gene expression in response to genomic stress and cellular stress signals. Confidence: Medium","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016576","count":1},{"id":"GO:0043278","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0030154","count":1},{"id":"GO:0035955","count":1}]},{"hash":"538663974297417282","title":"Rab GTPase-dependent vesicle trafficking","description":"The cluster is enriched for GO terms tied to Rab protein signal transduction and protein geranylgeranylation, indicating Rab lipid modification and membrane targeting essential for vesicle transport; protein transport and GTPase activation support this. Some terms related to fish-specific processes (swim bladder inflation, iridophore differentiation) may reflect broader organismal biology rather than core function.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2000541","count":2},{"id":"GO:0032482","count":2},{"id":"GO:0018344","count":2},{"id":"GO:0048798","count":2},{"id":"GO:0090315","count":2}]},{"hash":"738306058190178157","title":"Cross-tissue development and endocrine signaling","description":"This cluster includes GO terms for heart/dorsal vessel development, reproductive tissue growth (ovary follicles, spermatheca morphogenesis), adipocyte differentiation, and estrogen receptor signaling, plus metabolic/regulatory processes (translation initiation by iron, phosphatidic acid biosynthesis). The common thread is regulation of developmental differentiation across multiple tissues, with endocrine signaling contributing in several terms. However, the terms span diverse tissues and processes, so the link is broad rather than tissue-specific.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:2000253","count":1},{"id":"GO:0045994","count":1},{"id":"GO:0060528","count":1},{"id":"GO:0035211","count":1}]},{"hash":"1068803421157606303","title":"Insect morphogenesis and ecdysone signaling","description":"The top terms cluster around developmental morphogenesis across multiple insect tissues (ventral midline, eye/leg disc, gonad morphogenesis) and hormone-driven processes (ecdysone response, hormone-mediated signaling), indicating a cohesive theme of insect development regulated by ecdysone.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007418","count":1},{"id":"GO:0008628","count":1},{"id":"GO:0061040","count":1},{"id":"GO:1903212","count":1},{"id":"GO:0008346","count":1}]},{"hash":"971322618787430409","title":"Motor neuron development and axon guidance","description":"The top GO terms cluster around motor neuron identity and movement, including spinal cord motor neuron cell fate specification, lateral motor column neuron migration, motor neuron axon guidance, and related neuronal differentiation terms (e.g., Purkinje cell differentiation), suggesting a cohesive focus on motor neuron development and neural differentiation.","confidence":"High","size":5,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0021520","count":1},{"id":"GO:0035847","count":1},{"id":"GO:0019417","count":1},{"id":"GO:0097477","count":1}]},{"hash":"359567606605369392","title":"Transmembrane Transporters for Sugars, Ions, and Xenobiotics","description":"The Top Terms are all transmembrane transport GO terms across a variety of substrates (xenobiotics, nitrate, sugars like galactose and arabinose, ions, vitamins), indicating a cohesive function in transporting diverse small molecules across membranes.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":3},{"id":"GO:0015706","count":3},{"id":"GO:0042891","count":3},{"id":"GO:0015757","count":3},{"id":"GO:0071805","count":3}]},{"hash":"714894215098494928","title":"Cell Growth and Division with Vesicle Trafficking","description":"This cluster centers on fundamental growth and cell-cycle processes (ribosome biogenesis, mitotic spindle assembly, cell division, proliferation, and multicellular growth) together with the secretory pathway (COPII vesicle budding and ER-Golgi transport, including Golgi-to-ER retrograde transport). The combination suggests a cohesive theme of proliferative development coupled with membrane trafficking, hence the chosen label.","confidence":"High","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0090307","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0051301","count":4}]},{"hash":"1893117876299675177","title":"Unknown","description":"The terms span multiple unrelated biological themes (platelet activation, cell cycle regulation, neddylation/ufmylation, nucleophagy, pseudohyphal growth, hippocampus development), with no clear common function linking the proteins. Therefore a cohesive, specific label cannot be determined.","confidence":"","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010572","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0051726","count":1},{"id":"GO:0045116","count":1},{"id":"GO:0007113","count":1}]},{"hash":"2137486201319377146","title":"Mitochondrial stress response and mitophagy","description":"Most terms point to mitochondria and cellular stress responses: mitophagy, import of proteins into the mitochondrial matrix, and negative regulation of ER stress\u2013induced apoptotic signaling, plus a general cellular response to toxic substances. A couple of terms reference transcriptional regulation and brain development, which seem less connected to mitochondria, but may reflect broader gene expression roles. Overall, the strongest cohesive theme is mitochondrial quality control and stress response.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070940","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0006357","count":1},{"id":"GO:0097237","count":1},{"id":"GO:1902236","count":1}]},{"hash":"1232335260923749433","title":"Signaling and Developmental Pathways","description":"These terms cluster around cell signaling and developmental processes: multiple signaling cascades (CAMKK-AMPK, canonical Wnt signaling, calcium import) point to broad signal transduction activity, while terms for immune differentiation (mast cell differentiation, B cell receptor signaling) and growth/organ development (angiogenesis, hippocampus development) suggest coordinated signaling governing immune function and tissue development. DNA replication is present but less representative of the core theme. ","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0061762","count":2},{"id":"GO:0060374","count":2},{"id":"GO:0045766","count":2},{"id":"GO:0021766","count":2}]},{"hash":"1459180096611001628","title":"Unknown","description":"The top GO terms span very different biological areas: DNA replication and DNA biosynthesis (nuclear processes), ER-to-Golgi vesicle transport and misfolded protein catabolic processes (secretory pathway quality control), mitochondrial complex III assembly and regulation of oxidative phosphorylation (mitochondrial energy metabolism), protein homooligomerization, inclusion body assembly, and even blastocyst development. There isn\u2019t a single coherent function or pathway tying these terms together, so the cluster cannot be assigned a clear, representative label.","confidence":"","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0006260","count":3},{"id":"GO:0071897","count":3},{"id":"GO:0006888","count":2},{"id":"GO:0034551","count":2}]},{"hash":"2295962083480422443","title":"Diverse Biosynthetic Pathways","description":"The top terms point to biosynthesis and metabolism of a wide range of biomolecules (cofactors like tetrahydrobiopterin, steroids such as androgens, estrogens, and glucocorticoids, retinol, melanin, sphingolipids, and poly-hydroxybutyrate) along with a transcription-regulatory element and sporulation. This suggests the cluster comprises proteins involved in multiple, diverse biosynthetic processes rather than a single, narrow pathway. ","confidence":"Medium","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006729","count":3},{"id":"GO:0030435","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0006710","count":3},{"id":"GO:0006704","count":3}]},{"hash":"506698190071277755","title":"Bacterial Translation and Membrane Targeting with Flagellar Assembly","description":"This cluster is driven by translation and SRP-dependent cotranslational protein targeting to membranes, suggesting ribosomal/secretory machinery; the presence of bacterial-type flagellum organization points to a link with flagellar assembly in bacteria, and some cell-cycle related terms hint at growth coordination. The label reflects a central theme of protein synthesis and membrane targeting, with an auxiliary flagellar assembly component.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0006614","count":2},{"id":"GO:0044781","count":2},{"id":"GO:0006616","count":2},{"id":"GO:0006412","count":2}]},{"hash":"2166969155363765603","title":"Adaptive immune signaling and lymphocyte activation","description":"The dominant GO terms point to immunity, especially adaptive responses: B cell receptor signaling, type II interferon production, and T cell activation/death. Additional signaling terms (prolactin, Wnt, JAK-related regulation) suggest broader immune-regulatory signaling that supports lymphocyte activation and function. Some terms like angiogenesis are tangential, but the core is immune signaling.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0010534","count":2},{"id":"GO:0032609","count":2},{"id":"GO:0009395","count":2},{"id":"GO:0006924","count":2}]},{"hash":"2103997539299848477","title":"Membrane lipid and xenobiotic transport","description":"This cluster is driven by multiple membrane transport GO terms, especially lipid-related ones like phospholipid translocation, ceramide translocation, cholesterol efflux, xenobiotic transmembrane transport, and oligosaccharide transport. While a few terms touch antigen processing or bacterial immunity, the dominant signal is transport across membranes, particularly involving lipids and related molecules.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045332","count":3},{"id":"GO:0019885","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0015777","count":2},{"id":"GO:0000770","count":2}]},{"hash":"1737929750037406693","title":"Brain development and transcriptional regulation","description":"This cluster is dominated by GO terms related to brain development and regulation of transcription, with supporting signals of neural differentiation and transcriptional control, plus stress-response and DNA damage signaling features. The combination points to genes involved in neural development that modulate gene expression and respond to cellular stress.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016576","count":2},{"id":"GO:0043278","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0030154","count":2},{"id":"GO:0035955","count":2}]},{"hash":"1555026615455131075","title":"Developmental Processes and Stress Responses","description":"This cluster is dominated by developmental GO terms (neural tube closure, forebrain development, skeletal system development, multicellular organism development), suggesting a core theme in embryonic development. The presence of DNA-templated transcription supports regulatory roles during development, while ER stress\u2013related apoptosis and other stress-related terms indicate concurrent cellular stress signaling. Overall, the proteins seem to be involved in developmental programs with associated stress responses, though some terms are more peripheral.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070059","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0006351","count":3}]},{"hash":"674482088517389098","title":"Unknown","description":"No shared GO terms or interactions are evident (no edges, no top terms), so there is no clear functional theme to name this cluster. Without functional enrichment or connectivity, the proteins cannot be grouped by a specific biological role.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2176595239263633162","title":"Unknown","description":"The GO terms cover a wide and divergent set of processes (blastocyst development, viral genome replication, DNA replication, transcription regulation, DNA recombination, cytoskeleton-dependent transport in oogenesis, immune signaling, plant hormone signaling, calcium channel regulation, and protein methylation) with no clear shared function or theme tying the proteins together. This suggests the cluster does not represent a cohesive biological role.","confidence":"","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001824","count":2},{"id":"GO:0019079","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0006310","count":2}]},{"hash":"94113278593142510","title":"Mitotic spindle and microtubule regulation","description":"Most terms point to microtubule dynamics and mitosis: regulation of microtubule-based processes, minus-end directed microtubule sliding, mitotic spindle assembly, and mitotic metaphase chromosome alignment. Although some terms reference unrelated contexts (ureteric bud invasion, chloroplast movement, stress granule disassembly, Rap signaling, extracellular-stimulus\u2013driven growth), the strongest and most recurrent signal is spindle/microtubule\u2013related, suggesting the cluster centers on microtubule dynamics during cell division.","confidence":"High","size":5,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032886","count":3},{"id":"GO:0072092","count":3},{"id":"GO:0009904","count":3},{"id":"GO:0031534","count":3},{"id":"GO:0007080","count":3}]},{"hash":"1424784614497430071","title":"Proviral Integration and Latency","description":"These proteins show GO terms tied to DNA replication, recombination, and DNA integration, plus events specific to viral life cycles such as RNA-templated DNA synthesis, viral penetration into the host nucleus, and establishment of integrated proviral latency. The cluster appears to center on viral genome processing, integration into host DNA, and latency maintenance, with some auxiliary host interaction terms. Confidence: High","confidence":"","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0046718","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0039651","count":1}]},{"hash":"1921283277058512524","title":"Post-transcriptional RNA processing and translation control","description":"The top GO terms cluster around splicing (spliceosome-mediated and splice-site recognition), mRNA export, poly(A) tail regulation, translation initiation, and miRNA-mediated translational silencing, pointing to a cohesive role in post-transcriptional RNA processing and control of translation.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0075525","count":2},{"id":"GO:0006376","count":2},{"id":"GO:0060211","count":2},{"id":"GO:0045292","count":2}]},{"hash":"397948421248380740","title":"Metabolite and sugar transport under osmotic stress","description":"GO terms here converge on transport of a variety of small molecules (sugars, ascorbate, urate, organic anions, xenobiotics) and an osmotic stress response. This suggests a transporter-centric cluster involved in solute flux and osmotic adjustment under nutrient or environmental stress, rather than a single substrate-specific pathway.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0019852","count":4},{"id":"GO:0042908","count":4},{"id":"GO:0015771","count":4},{"id":"GO:0043252","count":4},{"id":"GO:0006970","count":4}]},{"hash":"490516820096340708","title":"Vesicle trafficking and exocytosis","description":"The top GO terms cluster around vesicle transport from ER to Golgi, overall protein transport, SNARE complex assembly, and calcium-dependent exocytosis, including neurotransmitter release and eosinophil degranulation, pointing to secretory vesicle trafficking and exocytosis as the core function. A single outlier term about mitotic spindle assembly is unlikely to redefine the cluster\u2019s main theme, which remains exocytic/secretion machinery. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0050715","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0045806","count":1}]},{"hash":"806922007351851253","title":"Porphyrin, Biotin, and Sphingolipid Biosynthesis","description":"The top GO terms cluster around biosynthetic pathways: protoporphyrinogen IX biosynthetic process, biotin biosynthetic process, and sphingolipid metabolic process, with a few auxiliary terms. This suggests the proteins function together in core metabolite synthesis rather than signaling or degradation. The name reflects these shared biosynthetic themes.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006782","count":3},{"id":"GO:0019878","count":3},{"id":"GO:0009102","count":3},{"id":"GO:0071363","count":2},{"id":"GO:0019550","count":2}]},{"hash":"300188336909740148","title":"mRNA Processing and Translational Control","description":"This cluster centers on post-transcriptional RNA processing and regulation of Gene expression at the RNA level, including splicing (spliceosome activity, splice site recognition), poly(A) tail shortening regulation, and translation-level control (miRNA-mediated silencing, viral termination-reinitiation, and localization of specific mRNAs). These themes jointly suggest a coherent module around RNA maturation and translational regulation rather than a single metabolic pathway.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0075525","count":1},{"id":"GO:0006376","count":1},{"id":"GO:0060211","count":1},{"id":"GO:0045292","count":1},{"id":"GO:0060213","count":1}]},{"hash":"1200305060640361759","title":"Neural development and dendrite morphogenesis","description":"The cluster shows prominent neural development terms (forebrain and nervous system development, neural tube closure) and dendrite morphogenesis, indicating roles in brain formation and neuronal morphology. Secondary terms reflect stress and innate immune responses, but the strongest signal is neural development.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070059","count":4},{"id":"GO:0001843","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0007399","count":4}]},{"hash":"351637644040949383","title":"Signaling in sensory and behavioral responses","description":"The top GO terms cluster around signaling and response processes (protein phosphorylation, ERK1/ERK2 cascade regulation) together with sensory and behavioral terms (sensory perception of pain, visual perception/learning, behavioral response to cocaine). While some terms touch on immune or metabolic processes (macrophage chemotaxis, diet-induced thermogenesis), the common thread appears to be signal transduction that modulates neural, sensory, and behavioral responses. Thus the proteins likely participate in signaling networks governing how organisms perceive stimuli and respond behaviorally.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":4},{"id":"GO:0006468","count":3},{"id":"GO:0010759","count":3},{"id":"GO:0048148","count":3},{"id":"GO:0007507","count":3}]},{"hash":"2150192480426025107","title":"Dopamine/Adrenergic GPCR Signaling","description":"The top GO terms point to GPCR-driven signaling cascades, notably dopamine- and adrenergic-receptor pathways that activate downstream processes like adenylate cyclase and MAPK, along with protein phosphorylation and calcium channel modulation. The inclusion of morphine response and autonomic/immune-related terms suggests broad, downstream signaling and regulatory effects linked to neuronal and autonomic signaling. This supports a cohesive theme of GPCR-mediated signal transduction and its downstream regulation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071883","count":2},{"id":"GO:0043278","count":2},{"id":"GO:1901386","count":2},{"id":"GO:0007191","count":2},{"id":"GO:0048245","count":2}]},{"hash":"1057641115946724630","title":"Cellular stress response and signaling","description":"The top GO terms point to responses to external stimuli (xenobiotics, hormones), redox balance, and regulation of DNA/cell cycle and mRNA stability, indicating a broad module of sensing stress and adjusting signaling and regulatory processes rather than a single specific pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":3},{"id":"GO:0042493","count":2},{"id":"GO:0071375","count":2},{"id":"GO:0045454","count":2},{"id":"GO:1900087","count":2}]},{"hash":"939154226449198257","title":"Unknown","description":"The GO terms are highly diverse (xenobiotic response, redox homeostasis, cell cycle regulation, mRNA stability, lipid signaling, skin development, renal water transport) with no clear, common biological theme tying the proteins together, suggesting a heterogeneous set rather than a single coherent function.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090502","count":2},{"id":"GO:0042493","count":1},{"id":"GO:0045454","count":1},{"id":"GO:1900087","count":1},{"id":"GO:2000466","count":1}]},{"hash":"456328340840216950","title":"Apoptosis and inflammatory signaling","description":"The top GO terms center on programmed cell death (activation-induced T cell death; apoptotic process) and inflammatory signaling (IL-1\u2013mediated, LPS-mediated pathways) with a JNK stress-response component, suggesting a theme of stress-induced apoptosis linked to immune signaling. Some terms touch neural signaling (NMDA receptor activity, cocaine response), but the strongest common thread is apoptosis intertwined with inflammatory pathways.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006924","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0046330","count":2},{"id":"GO:0048148","count":2},{"id":"GO:0070498","count":2}]},{"hash":"381216271511637128","title":"Adaptive immune signaling and cytoskeletal regulation","description":"The top GO terms cluster around adaptive immune signaling (B cell receptor signaling, B cell differentiation, activated T cell proliferation) and cytoskeletal regulation (actin and microtubule binding), suggesting a theme of immune cell activation linked to cytoskeletal dynamics. Other terms are less central (lipid catabolism, morphogenesis, apoptosis), but the dominant pattern supports this label.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009395","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0010954","count":3},{"id":"GO:0050798","count":3}]},{"hash":"2264116211130381767","title":"Unknown","description":"The top GO terms span a wide range of unrelated processes (GTPase and kinase signaling, glycosylation, JNK regulation, meiotic spindle dynamics, transcription, nuclear import, and apoptosis), including obsolete annotations. This lack of a coherent, single function makes it not possible to assign a meaningful label beyond Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0060049","count":1},{"id":"GO:0046329","count":1},{"id":"GO:0035269","count":1},{"id":"GO:0051232","count":1}]},{"hash":"2266876504338026546","title":"Unknown","description":"The top terms span calcium signaling, immune and development pathways (CAMKK-AMPK, calcium import, B cell receptor signaling, angiogenesis, Wnt signaling, hippocampus and mast cell development) and intracellular trafficking (endosome transport) without a single unifying function, so no cohesive label fits neatly. Confidence: None.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061762","count":1},{"id":"GO:0060374","count":1},{"id":"GO:0045766","count":1},{"id":"GO:0021766","count":1},{"id":"GO:0090263","count":1}]},{"hash":"1283098811839183856","title":"T and B cell activation signaling","description":"This cluster is dominated by adaptive immune signaling terms, notably T cell activation via TCR-MHC and B cell receptor signaling, with activated T cell proliferation also represented. Additional terms like positive regulation of Wnt signaling and actin filament binding hint at signaling and cytoskeletal changes accompanying immune activation; a phospholipid catabolic process term appears less central but may relate to lipid-mediated signaling during activation. Overall, the cluster centers on adaptive immune receptor signaling and T/B cell activation.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009395","count":2},{"id":"GO:0006924","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0010954","count":2}]},{"hash":"2269739796199782247","title":"Neuronal Synaptic Regulation and Development","description":"These proteins show a strong emphasis on neuronal signaling: regulation of synaptic transmission (glutamatergic), AMPA receptor activity, and membrane hyperpolarization, plus neuromuscular junction development. Additional terms on cell adhesion and tight junction assembly suggest broader developmental roles, but the clearest and most frequent theme is synaptic regulation and neural connectivity. The other terms may reflect pleiotropy or secondary roles. ","confidence":"Medium","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001954","count":4},{"id":"GO:0043534","count":4},{"id":"GO:0007528","count":4},{"id":"GO:0051966","count":4},{"id":"GO:0060081","count":4}]},{"hash":"1361931480758024929","title":"Brain development and apoptotic signaling","description":"This cluster is enriched for neural development terms (forebrain, brain, multicellular organism development) alongside numerous apoptosis-related terms (glial cell apoptotic process, apoptotic DNA fragmentation regulation, intrinsic apoptotic signaling in ER stress, positive regulation of apoptotic signaling). The combination suggests a theme of neural development with regulated apoptosis, possibly under stress or DNA damage cues. Some terms (response to nutrient, protein homooligomerization) are ancillary but do not contradict the main theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":3},{"id":"GO:0072432","count":3},{"id":"GO:0034349","count":3},{"id":"GO:1902510","count":3},{"id":"GO:0007420","count":3}]},{"hash":"1481283197714607786","title":"Unknown","description":"The Top Terms are highly diverse and cover sensory, endocrine, immune, renal, and cardiac processes, with little overlap suggesting a single shared function or pathway; therefore there is no clear unifying theme for this cluster. ","confidence":"","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0042491","count":1},{"id":"GO:2000134","count":1},{"id":"GO:0003031","count":1},{"id":"GO:0030103","count":1}]},{"hash":"2304503384083595923","title":"Embryonic and Organ Morphogenesis","description":"Most terms point to developmental and morphogenetic processes across organs\u2014bone, retina, and aorta development, and gastrulation-associated cell migration\u2014suggesting proteins involved in shaping tissues during embryogenesis. Additional terms related to signaling regulation and lipoprotein-related responses may modulate these processes but do not redefine the main theme. Overall, the cluster centers on embryonic organ formation and tissue morphogenesis.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007262","count":1},{"id":"GO:0060349","count":1},{"id":"GO:0060033","count":1},{"id":"GO:0071404","count":1},{"id":"GO:0034447","count":1}]},{"hash":"1167464801324548140","title":"Neural signaling and behavior","description":"The GO terms cluster around neural connectivity and communication: axon guidance, receptor clustering, and chemical synaptic transmission point to neural circuit assembly and signaling, while vocalization, social behavior, and grooming regulation indicate behavioral outputs. Terms related to adherens junctions and epithelial polarity may reflect neuroepithelial organization underlying neural development, and NO-mediated retrograde signaling supports synaptic communication. Overall, the cluster appears to represent neural signaling pathways linked to behavior.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045186","count":4},{"id":"GO:0071625","count":4},{"id":"GO:0008045","count":4},{"id":"GO:0007268","count":4},{"id":"GO:0043113","count":4}]},{"hash":"369550369332398593","title":"Viral RNA processing and translation","description":"The GO terms cluster around RNA processing and modification (splicing, mRNA capping, guanine-N7 methylation, rRNA maturation) and cytoplasmic translation, with additional viral-related terms (virion attachment and viral genome replication). This suggests a theme of RNA metabolism and translation in the context of viral replication, hence a label reflecting viral RNA processing/translation. The lack of observed edges makes the functional linkage less certain, but the GO signal supports a cohesive view of RNA-centric viral processes.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008380","count":1},{"id":"GO:0097310","count":1},{"id":"GO:0019062","count":1},{"id":"GO:0036265","count":1},{"id":"GO:0039694","count":1}]},{"hash":"1595647751961356844","title":"Transcription Regulation and NF-kappaB Signaling","description":"The top GO terms point to control of DNA-templated transcription and NF-kappaB\u2013related signaling (I-kappaB phosphorylation, and transcription factor activity regulation), with additional links to protein turnover via the proteasome, and post-translational modification such as ufmylation and ER-associated processes. Together these suggest a cluster of proteins that modulate transcriptional programs and immune signaling, alongside components of protein processing and localization.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032436","count":1},{"id":"GO:1905050","count":1},{"id":"GO:0006355","count":1},{"id":"GO:1905552","count":1},{"id":"GO:0051092","count":1}]},{"hash":"704127047384962174","title":"Unknown","description":"GO terms cover sulfur compound metabolism and environmental catabolism, plus several neural development processes, with no single cohesive function linking all terms. Therefore no clear theme emerges for this cluster.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009970","count":2},{"id":"GO:0046196","count":2},{"id":"GO:0046306","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0097484","count":1}]},{"hash":"56569909368880672","title":"DNA replication, telomere maintenance, and mitochondrial genome maintenance","description":"These proteins cluster around core processes of DNA replication and genome maintenance, including telomere maintenance and telomerase regulation, as well as mitochondrial genome maintenance and repair. The presence of replication fork reversal and RNA primer removal in mitotic replication supports a role in replication dynamics and genome stability across nuclear and mitochondrial genomes.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0000002","count":3},{"id":"GO:0051974","count":3},{"id":"GO:0071932","count":3},{"id":"GO:0043504","count":3},{"id":"GO:0097046","count":3}]},{"hash":"1565583722287824692","title":"Angiogenesis and myogenesis signaling","description":"The cluster shows GO terms tied to blood vessel formation (angiogenesis) and muscle development (positive regulation of myoblast differentiation) alongside MAPK pathway regulation, receptor tyrosine kinase signaling, cell-matrix adhesion, and cytokine signaling (prolactin, IL-27). This suggests a cohesive theme of growth-factor/cytokine\u2013mediated signaling coordinating vascular and muscle development, rather than a single isolated process.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001954","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0038161","count":3},{"id":"GO:0070106","count":3},{"id":"GO:0044708","count":3}]},{"hash":"543341153281932051","title":"Angiogenesis and myoblast differentiation signaling","description":"The top GO terms point to signaling pathways that promote blood vessel formation and muscle cell differentiation, including RTK-mediated signaling, MAPK cascade regulation, cell-matrix adhesion, and cytokine signaling (prolactin, IL-27). This suggests a cohesive role in vascular and muscle tissue remodeling and development driven by growth factor and cytokine signals.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001954","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0038161","count":3},{"id":"GO:0070106","count":3},{"id":"GO:0044708","count":3}]},{"hash":"353191027639733110","title":"Unknown","description":"The GO terms are scattered across metabolism, redox biology, metal homeostasis, signaling, and nuclear import, with even obsolete terms included, and there are no edges connecting the proteins. This yields no cohesive functional theme or interaction to define a specific cluster label.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0006633","count":1},{"id":"GO:0070814","count":1},{"id":"GO:0030026","count":1},{"id":"GO:0045722","count":1}]},{"hash":"1446056623895019197","title":"Growth factor signaling and cell adhesion","description":"These proteins appear to participate in broad signaling and adhesion processes rather than a single pathway. The top GO terms cover receptor tyrosine kinase\u2013mediated signaling (including MAPK cascade), hormone/cytokine signaling (prolactin, interleukin-27), angiogenesis, and positive regulation of cell-matrix adhesion, along with myoblast differentiation. The common thread is signaling coordination that influences cell adhesion and tissue development, notably in muscle and vascular contexts.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001954","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0038161","count":3},{"id":"GO:0070106","count":3},{"id":"GO:0044708","count":3}]},{"hash":"1014028592043821359","title":"Lung branching morphogenesis and ECM remodeling","description":"The cluster\u2019s top GO terms center on lung development, specifically epithelial tube branching and branching morphogenesis, suggesting a role in lung structure formation. Concomitant proteolysis and ECM-related terms (proteolysis, collagen catabolic process, bradykinin catabolic process) point to extracellular matrix remodeling during morphogenesis. While other terms exist, the dominant signal ties to lung branching and matrix turnover.","confidence":"High","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060448","count":2},{"id":"GO:0051603","count":2},{"id":"GO:0006508","count":2},{"id":"GO:2000179","count":2},{"id":"GO:0001957","count":2}]},{"hash":"1743945034974345669","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":1},{"id":"GO:0071031","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0019068","count":1},{"id":"GO:0043392","count":1}]},{"hash":"153995847507736512","title":"Neuronal development and synaptic plasticity","description":"This cluster is dominated by terms tied to neuron development, postsynaptic actin remodeling, and synapse structural plasticity, with signaling from Wnt pathways that support synaptogenesis and plasticity. Additional terms reflect membrane dynamics and cytokine-responsive signaling, which can modulate connectivity. Although there are a few outliers related to immune clearance and bone remodeling, the core theme centers on neuronal development and synaptic remodeling.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901076","count":1},{"id":"GO:0051835","count":1},{"id":"GO:0009395","count":1},{"id":"GO:0051902","count":1},{"id":"GO:0098885","count":1}]},{"hash":"2069817675538780831","title":"Developmental Regulation and Cell Migration","description":"The cluster's GO terms emphasize regulation of growth (negative regulation of cell population proliferation), movement (cell migration), vascular and tissue development (angiogenesis, root development), and developmental signaling (negative regulation of canonical Wnt signaling, apoptotic regulation). Together they point to coordinated developmental processes that tune proliferation, differentiation, and migration rather than a single enzymatic activity. Hence a label like Developmental Regulation and Cell Migration captures the common theme across these proteins.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0090090","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0046827","count":2}]},{"hash":"437112076020150276","title":"Unknown","description":"The GO terms are divergent, spanning translation-related processes (mitochondrial translation, ribosome disassembly, translational elongation, translational fidelity, selenocysteine incorporation) and nucleic acid activities (transcription, DNA integration/transposition, viral capsid assembly) with no clear, single functional theme tying them together, and no edges connecting the proteins. Therefore there is no cohesive label to assign. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019069","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0015074","count":1},{"id":"GO:0006313","count":1},{"id":"GO:1990145","count":1}]},{"hash":"1449117183206188144","title":"DNA Replication and Transposition","description":"Dominant GO terms center on DNA metabolism\u2014DNA integration, DNA replication, and DNA transposition\u2014along with cell division signals. Although a few terms are incidental or obsolete, the primary pattern points to genome dynamics involving DNA synthesis, recombination/transposition, and related cell-cycle processes, suggesting proteins functioning in DNA replication and transposition pathways.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006313","count":1},{"id":"GO:0090261","count":1},{"id":"GO:0033314","count":1}]},{"hash":"1255814073205450776","title":"Protein Modification and Signaling Regulators","description":"Top GO terms indicate diverse regulatory functions centered on post-translational modification (K63-linked ubiquitination, phosphorylation, ADP-ribosylation) and signaling (Cdc42 pathway), with associated membrane and morphogenesis roles (microvillus localization, apical bud growth) and an immune-related process (T cell antigen processing/presentation). The overlap suggests a broader role in coordinating signaling and protein modification rather than a single specific process, so a general label for 'protein modification and signaling regulators' fits.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051835","count":2},{"id":"GO:0002625","count":2},{"id":"GO:0070534","count":2},{"id":"GO:0070213","count":2},{"id":"GO:0006468","count":2}]},{"hash":"17909809302187152","title":"DNA transposition and integration enzymes","description":"The top GO terms are dominated by DNA integration and DNA transposition, suggesting transposase/integrase-like activities as a common function. Other terms related to SRP-dependent protein targeting to membranes appear marginally, likely annotations from diverse proteins; overall, the core theme centers on DNA mobility enzymes.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":1},{"id":"GO:0006313","count":1},{"id":"GO:0006616","count":1},{"id":"GO:0006614","count":1},{"id":"GO:0090503","count":1}]},{"hash":"232290141325575348","title":"Embryonic organogenesis","description":"The GO terms cluster around development and morphogenesis across multiple organs and tissues (pancreas, uterus, midbrain, cranial skeleton, cartilage, osteoblasts, outflow tract, glial differentiation), indicating a broad theme of embryonic organ and tissue development rather than a single pathway.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031016","count":2},{"id":"GO:0060065","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0002076","count":2}]},{"hash":"1455262308300336385","title":"Unknown","description":"The 4 proteins have a scattered set of GO terms, including lipid biosynthesis, methylation, TOR signaling, telomere maintenance, and chromatin localization, with no clear common function or direct interactions, so a cohesive, specific label isn\u2019t supported.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008610","count":1},{"id":"GO:0032259","count":1},{"id":"GO:0071770","count":1},{"id":"GO:1903212","count":1},{"id":"GO:0090180","count":1}]},{"hash":"2144897544294990092","title":"DNA replication and repair proteins","description":"Top terms are dominated by DNA replication and DNA repair processes (nucleotide-excision repair, interstrand cross-link repair), with a couple of development-related terms that may reflect broader roles in development or annotation context. The core theme binding these proteins appears to be genome maintenance through replication and repair pathways.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0035315","count":2},{"id":"GO:0032079","count":2},{"id":"GO:0048568","count":2},{"id":"GO:0033683","count":2}]},{"hash":"2007497220820979276","title":"Unknown","description":"The GO terms span disparate processes (feeding regulation, iron-regulated translation, reproductive development, estrogen signaling, fat differentiation, heart development, macrophage activation, etc.), with no clear shared function or pathway. There are no edges or interactions to anchor a common theme, and the small cluster size adds to ambiguity, so a single coherent label cannot be assigned beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000253","count":1},{"id":"GO:0045994","count":1},{"id":"GO:0060528","count":1},{"id":"GO:0035211","count":1},{"id":"GO:0030520","count":1}]},{"hash":"1156311015880186980","title":"Unknown","description":"The GO terms span diverse biological processes (DNA recombination, xenobiotic response, redox homeostasis, cell cycle regulation, metabolism, signaling, development, and mRNA stability) with little overlap, and there are no edges connecting the proteins, so there is no coherent shared function to label. Therefore Unknown with confidence None.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006310","count":2},{"id":"GO:0042493","count":1},{"id":"GO:0045454","count":1},{"id":"GO:1900087","count":1},{"id":"GO:2000466","count":1}]},{"hash":"650000935449422953","title":"Cell Signaling and Morphogenesis","description":"These proteins are linked to signaling pathways (epithelial-mesenchymal signaling; Wnt signaling; Fc-gamma receptor signaling) and developmental/morphological processes (hippocampus development; anatomical structure arrangement) as well as cell division and trafficking (Golgi vesicle budding; mitotic cleavage furrow ingression). The common thread is signaling-driven changes in cell behavior and morphology, including trafficking aspects, rather than a single pathway. ","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060684","count":4},{"id":"GO:0032949","count":4},{"id":"GO:0071701","count":4},{"id":"GO:0021766","count":4},{"id":"GO:0090263","count":4}]},{"hash":"1462554320481730360","title":"RNA Splicing Regulators in Brain Development","description":"The top GO terms are dominated by brain development and hippocampus development, together with spliceosome-mediated alternative splicing and its regulation, plus nucleolar localization and polyadenylation hints, pointing to a cluster of RNA processing proteins with neural development roles, despite low connectivity.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:1902570","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0000380","count":2},{"id":"GO:0000381","count":2}]},{"hash":"2042204628823820871","title":"DNA Repair, Replication, and Cell Cycle","description":"The top GO terms cluster around core nuclear processes: DNA repair, DNA replication, and the mitotic cell cycle, with supporting signals from transcription and apoptosis. Immune-related terms appear but are less central, so the strongest theme is genome maintenance and cell-cycle control, possibly with stress-induced apoptosis. ","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0071712","count":2}]},{"hash":"247443531614304869","title":"Ubiquitin-regulated trafficking and signaling","description":"The Top Terms cluster centers on ubiquitination events (K63-linked and monoubiquitination), ubiquitin-dependent endocytosis, and regulation of protein localization and mRNA export, pointing to ubiquitin-mediated control of intracellular trafficking. Additional terms about vesicle clustering and Wnt signaling further support a theme of ubiquitin-regulated trafficking influencing signaling and development.","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1900180","count":1},{"id":"GO:0060575","count":1},{"id":"GO:0070534","count":1},{"id":"GO:0006513","count":1},{"id":"GO:0010793","count":1}]},{"hash":"2262743768426015930","title":"Immune Receptor Signaling Network","description":"The top GO terms cluster around immune signaling pathways: non-canonical NF-kappaB signaling, Fc-epsilon receptor signaling, and T cell receptor signaling, pointing to receptor-mediated immune signal transduction. Additional terms related to proteasome and cell-cycle\u2013related processes may support signaling through regulated protein turnover, but the dominant theme is immune receptor signaling.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0038061","count":4},{"id":"GO:0038095","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0051436","count":3},{"id":"GO:0010363","count":3}]},{"hash":"1485469516108438993","title":"Stress-Induced Cytoskeleton Remodeling","description":"The cluster combines GO terms for heat and hydrogen peroxide/ROS responses with those for microtubule dynamics, axonal transport, and lens morphogenesis, pointing to proteins that remodel the cytoskeleton under cellular stress conditions. This suggests a cohesive theme of stress-related cytoskeletal regulation, though individual roles may vary.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006936","count":2},{"id":"GO:0032355","count":2},{"id":"GO:0030308","count":2},{"id":"GO:0009408","count":2},{"id":"GO:2000378","count":2}]},{"hash":"1714881500402134158","title":"Iron Homeostasis and Transport","description":"The enriched terms center on iron handling, including iron ion transport, siderophore-iron import, and detoxification of iron ions, suggesting the proteins act in iron acquisition, distribution, and detoxification. Additional terms related to iron-dependent enzymes and stress responses support a unifying theme of iron metabolism and redox regulation, despite a few unrelated or obsolete annotations. High","confidence":"","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006880","count":2},{"id":"GO:0097286","count":2},{"id":"GO:1904234","count":2},{"id":"GO:0030261","count":2},{"id":"GO:0006950","count":2}]},{"hash":"843054010987768160","title":"Cilium assembly and ER vesicle fusion","description":"The top GO terms point to ciliogenesis (cilium assembly) and vesicle fusion with the endoplasmic reticulum, suggesting a link to delivery of ciliary components via vesicle trafficking. With only four proteins and no observed edges, this signal is plausible but tentative.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060271","count":1},{"id":"GO:0048279","count":1}]},{"hash":"858451140408566346","title":"Embryonic development and ECM remodeling","description":"This cluster centers on embryonic morphogenesis (cranial skeleton development, ureteric bud invasion), ECM remodeling signals (hyaluronan metabolism, metallopeptidase activity, integrin signaling), along with core cell-cycle and microtubule regulation (DNA replication/transcription, centrosome separation). The combination suggests roles in developmental timing and tissue remodeling rather than a single isolated pathway. A few terms (like chloroplast movement) may be annotation noise, but the prevalent themes support the label.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007100","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0048701","count":2},{"id":"GO:0006260","count":2},{"id":"GO:1905050","count":2}]},{"hash":"421556275902871861","title":"B cell signaling and phosphoinositide regulation","description":"This cluster centers on B cell\u2013related functions, including follicular B cell differentiation and positive regulation of the B cell receptor signaling pathway, plus signaling-related lipid pathways (phospholipid catabolic process, IP3 biosynthesis) and regulators of phagocytosis, Ras, and Rho. The combination suggests a module involved in B cell activation and associated phosphoinositide signaling and endocytic regulation.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009395","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0002316","count":4},{"id":"GO:0038028","count":4},{"id":"GO:0050764","count":4}]},{"hash":"1771385846286474822","title":"Ribosome Biogenesis and Cell Division","description":"The top GO terms are dominated by ribosome biogenesis and components of the cell division machinery (ribosome assembly/subunit biogenesis, mitotic spindle assembly, cell cycle). This suggests a cluster of proteins tied to producing ribosomes and coordinating them with cell division, with translation-related activity (tRNA aminoacylation) also reflected. Overall, a cohesive theme is the coupling of protein synthesis capacity to cell cycle progression.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0090307","count":2},{"id":"GO:1903833","count":1}]},{"hash":"169350837149726550","title":"Mitochondrial Protein Import and Respiratory Function","description":"The listed GO terms cluster around mitochondrial processes: targeting/import into mitochondria, insertion into the inner membrane, mitochondrial translation, and assembly of respiratory chain components (including Complex II) with NADH dehydrogenase to ubiquinone electron transport. Additional hints at hypoxia detection and mitochondrial redox-related oxidation support a cohesive theme of mitochondrial biogenesis and respiration.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006626","count":1},{"id":"GO:0072321","count":1},{"id":"GO:0045039","count":1},{"id":"GO:0070483","count":1},{"id":"GO:0018171","count":1}]},{"hash":"1611156177622173843","title":"Unknown","description":"The GO terms span highly diverse biological contexts\u2014from cell adhesion in cardiac cells, to organogenesis processes (endoderm fate, renal vesicle formation, oocyte localization), to DNA damage response, autophagy-related vesicle assembly, cytokinesis, and even fungiform papilla formation. With no clear shared pathway or function across the proteins and no edges connecting them, there isn't a coherent theme to name the cluster beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0086073","count":1},{"id":"GO:1904793","count":1},{"id":"GO:0001711","count":1},{"id":"GO:0032471","count":1},{"id":"GO:0072033","count":1}]},{"hash":"490591027138331850","title":"Golgi vesicle trafficking","description":"This cluster is enriched for GO terms related to intracellular transport, ER-to-Golgi vesicle transport, Golgi vesicle docking, SNARE complex assembly, and Golgi organization, indicating a shared function in Golgi-associated vesicle trafficking and fusion.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006886","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0048211","count":1},{"id":"GO:0045056","count":1},{"id":"GO:0035493","count":1}]},{"hash":"626389520542978420","title":"Immune cell signaling and adhesion","description":"The GO terms are strongly dominated by immune-related processes: B cell receptor signaling, activated T cell proliferation, and cellular response to IL-7, plus cell adhesion and actin dynamics, pointing to a cluster of proteins involved in immune cell signaling and interactions. A few terms related to development or morphogenesis (Wnt signaling, mammary gland branching) are present but seem less central to the core function of this cluster. Overall, the evident theme is immune signaling and adhesion.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007155","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0010954","count":2},{"id":"GO:0050798","count":2}]},{"hash":"2215159934245555065","title":"Cell Division and Intracellular Transport","description":"The GO terms cluster around cell division and cell cycle, with supporting signals for intracellular transport (cilium movement, anterograde vesicle transport) and organelle-related processes (peroxisome protein import), suggesting a theme of growth/division coupled with trafficking. Some terms are peripheral or obsolete, so the label aims to capture the core, most evident patterns without overstating specificity.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0003341","count":2},{"id":"GO:1990048","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0000027","count":2}]},{"hash":"141504647622788147","title":"Mitochondrial DNA repair and replication maintenance","description":"This cluster centers on mitochondrial genome maintenance and DNA replication processes. Top GO terms include mitochondrial DNA repair, replication fork dynamics (reversal and progression), and RNA primer removal in mitotic DNA replication, with additional signals for telomere maintenance and telomerase regulation. Together, they suggest a set of proteins involved in genome integrity during mitochondrial replication and related genome maintenance activities.","confidence":"High","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0043504","count":3},{"id":"GO:0044806","count":3},{"id":"GO:0051974","count":3},{"id":"GO:0000723","count":3},{"id":"GO:1903469","count":3}]},{"hash":"894292730019584244","title":"Sugar catabolism: pentose and hexose pathways","description":"The Top Terms are dominated by diverse sugar catabolic processes, including xylose, xylulose, gluconate, glucuronate, arabinose, rhamnose, fucose, and glycerol catabolism, pointing to a cluster of carbohydrate degradation/assimilation enzymes. While one term (cellular response to interleukin-13) and another (quorum sensing) appear less directly related, they do not override the clear sugar-metabolism theme. Confidence in the label as representative: Medium.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035963","count":1},{"id":"GO:0019301","count":1},{"id":"GO:0019521","count":1},{"id":"GO:0042732","count":1},{"id":"GO:0009372","count":1}]},{"hash":"275702861829113566","title":"Osteoclast signaling and podosome dynamics","description":"The cluster includes terms for osteoclast development and podosome assembly, adherens junction organization, cytoskeletal responses to mechanical stimuli, and signaling pathways such as Wnt, NFAT/calcineurin, and EGFR, all pointing to osteoclast differentiation coupled with cytoskeletal adhesion and mechanotransduction in bone remodeling.","confidence":"High","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":4},{"id":"GO:0036035","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0071803","count":4},{"id":"GO:0035264","count":4}]},{"hash":"1201938442100927734","title":"Membrane Ion Transport and Homeostasis","description":"The Term set is dominated by ion transport and homeostasis across membranes, covering calcium, potassium, sodium, manganese, and zinc ions, as well as organelle-specific ion handling (e.g., Golgi Ca2+ homeostasis, Ca2+ import into the sarcoplasmic reticulum) and general monoatomic cation transport. These themes tie the proteins to maintaining intracellular ion balance via membrane transport; a few unrelated terms appear but do not redefine the cluster.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030026","count":2},{"id":"GO:0010107","count":2},{"id":"GO:0046839","count":2},{"id":"GO:1900082","count":2},{"id":"GO:0099132","count":2}]},{"hash":"1630314871751195024","title":"Innate Immune Signaling Regulation","description":"These proteins appear to regulate innate immune pathways, with GO terms pointing to modulation of TLR3 and TLR7 signaling, interferon-\u03b2 production, and cytokine signaling, plus ubiquitination-related regulation of signaling. The collection suggests a coherent theme of immune signaling control rather than a single enzymatic activity.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000173","count":1},{"id":"GO:0035335","count":1},{"id":"GO:1902233","count":1},{"id":"GO:0034157","count":1},{"id":"GO:1902206","count":1}]},{"hash":"688435302478579622","title":"Membrane transporters for metabolites and xenobiotics","description":"This cluster centers on various transport activities (xenobiotic, sugar, nitrite, phosphate, sialic acid) and related transport-linked metabolism, including neurotransmitter loading into vesicles, suggesting a group of membrane transporters with broad substrate specificity.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019852","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0042908","count":2},{"id":"GO:0006004","count":2},{"id":"GO:0015707","count":2}]},{"hash":"1413842662432314718","title":"Thermoregulation and pain-response signaling","description":"Top GO terms indicate responses to temperature and pain (diet-induced thermogenesis, cellular response to temperature stimulus, sensory perception of pain, behavioral response to pain) plus signals involving membrane potential, neuroendocrine function, and immune regulation (regulation of resting membrane potential, membrane repolarization, vasopressin secretion, T cell homeostasis, regulation of T cell receptor signaling). This suggests a cohesive theme of temperature/pain\u2013driven signaling with endocrine and immune cross-talk, i.e., a thermoregulation and pain-response signaling network with neuroimmune links.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0002024","count":4},{"id":"GO:0071502","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0060075","count":3},{"id":"GO:0003031","count":3}]},{"hash":"421977244996478716","title":"Unknown","description":"The GO terms span vascular development (angiogenesis, VEGF production, blood pressure regulation), endocrine and reproductive development (somatotropin-secreting cell development, seminiferous tubule development), signaling pathways (GPCR signaling, calcium ion regulation), neural synapse maintenance/assembly, and basic metabolism (electron transport chain), with no single cohesive function tying all four proteins together. This heterogeneity suggests no clear, interpretable cluster label beyond Unknown. ","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":2},{"id":"GO:0010573","count":2},{"id":"GO:0007204","count":2},{"id":"GO:0072520","count":2},{"id":"GO:0045777","count":2}]},{"hash":"928808343091759910","title":"Unknown","description":"The GO terms span diverse processes ( xenobiotic response, redox homeostasis, cell cycle regulation, metabolism, signaling, development, RNA stability, DNA repair, and organ-specific functions) with no single dominant function tying the proteins together. The cluster also has no edges between members, indicating a lack of shared interactions. Therefore, a cohesive, specific label cannot be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":2},{"id":"GO:0045454","count":2},{"id":"GO:1900087","count":2},{"id":"GO:2000466","count":2},{"id":"GO:0046856","count":2}]},{"hash":"1626450150514724248","title":"DNA replication and genome maintenance","description":"The most relevant non-obsolete terms cluster around DNA replication and genome maintenance: replication fork reversal, replication fork progression beyond termination site, and mitochondrial DNA repair/maintenance. This points to a shared role in genome stability, despite some noise from obsolete terms and unrelated metabolic annotations.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:2001172","count":2},{"id":"GO:0000002","count":1},{"id":"GO:0051974","count":1}]},{"hash":"1991122518546342349","title":"Plant Meristem Growth and Leaf Development","description":"The terms show a clear emphasis on plant development, including root meristem growth, meristem structural organization, and leaf development, suggesting a focus on plant growth and organ formation. Some tRNA modification terms appear incidental and likely reflect general cellular processes rather than a plant-specific function. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097056","count":1},{"id":"GO:0016310","count":1},{"id":"GO:0010449","count":1},{"id":"GO:0080178","count":1},{"id":"GO:0016049","count":1}]},{"hash":"2246296161533490950","title":"Immune signaling and ubiquitin-proteasome regulation","description":"This cluster shows predominately immune-related regulation terms (T cell proliferation/differentiation, chemokine production, LPS signaling) alongside ubiquitin-proteasome\u2013associated processes (K63-linked ubiquitination, proteasome-mediated protein degradation), pointing to a theme of immune regulation coordinated by protein turnover. Some metabolic terms appear, but the immune and proteostasis signals are the clearest connection.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":1},{"id":"GO:0090180","count":1},{"id":"GO:2001172","count":1},{"id":"GO:0032897","count":1},{"id":"GO:1903886","count":1}]},{"hash":"410341640953419653","title":"Nuclear transcription and RNA processing","description":"This cluster centers on transcription regulation (Pol II) and RNA processing, including termination and ribosome assembly, with ubiquitin-related modification and some DNA repair signals, suggesting a nuclear/nucleolar theme around RNA metabolism and transcription control. Some terms (MDA-5 signaling, DNA damage tolerance) are less directly connected, but overall the dominant signal is nuclear transcription and RNA processing.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045944","count":2},{"id":"GO:0006283","count":1},{"id":"GO:0010994","count":1},{"id":"GO:0000209","count":1},{"id":"GO:0036292","count":1}]},{"hash":"80807449904866372","title":"Apoptosis and innate immune signaling","description":"The GO terms show a core focus on apoptotic processes and innate immune responses, with additional signals related to GTPase activity, phosphorylation, and TGF-beta signaling, plus some cytoskeletal/mitotic references. This pattern points to a cluster of proteins involved in programmed cell death and immune signaling, rather than a single isolated function, with broader roles in signal transduction.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0050731","count":2},{"id":"GO:0071560","count":2}]},{"hash":"61645247127573981","title":"RNA polymerase assembly and transcription regulation","description":"The top terms are dominated by RNA polymerase I/II/III assembly and transcription elongation regulation, indicating a core link to transcription machinery. Some other terms (tubulin complex assembly, axonogenesis, morphogenesis, endothelial chemotaxis) may reflect broader annotations or multifunctional proteins, but the dominant signal centers on transcription complex assembly.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990113","count":1},{"id":"GO:0031137","count":1},{"id":"GO:0032968","count":1},{"id":"GO:0007021","count":1},{"id":"GO:1990115","count":1}]},{"hash":"370611181550315714","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060528","count":1},{"id":"GO:0060416","count":1},{"id":"GO:0070306","count":1},{"id":"GO:0000209","count":1},{"id":"GO:0072432","count":1}]},{"hash":"692183204290359579","title":"Unknown","description":"Top Terms are not provided, so there is no clear functional theme connecting the four proteins. The lack of GO term signals means we cannot confidently assign a label beyond Unknown; the network metrics (edges, triangles) do not reveal a specific pathway or process by themselves.","confidence":"","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[]},{"hash":"797124744325497777","title":"Unknown","description":"The four proteins show GO terms across very different biological areas: amyloid-beta metabolism, UV-B response, cytokine response, replicative senescence, ear and kidney development, along with other diverse processes. There is no single dominant function or pathway linking them, making a cohesive high-level label inappropriate. Confidence in a unifying theme is therefore None.","confidence":"","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0050435","count":1},{"id":"GO:0071493","count":1},{"id":"GO:0071345","count":1},{"id":"GO:0090399","count":1},{"id":"GO:0043583","count":1}]},{"hash":"1248690472529579885","title":"mRNA processing and export","description":"This cluster centers on RNA maturation and nuclear export. Key terms include spliceosome-mediated splicing, splice site recognition, and mRNA export from the nucleus, along with poly(A) tail regulation and miRNA-mediated translation control, suggesting a shared role in post-transcriptional processing and export of mRNA. Chromatin-related terms are present but less representative.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0075525","count":1},{"id":"GO:0006376","count":1},{"id":"GO:0060211","count":1},{"id":"GO:0045292","count":1},{"id":"GO:0006378","count":1}]},{"hash":"206856495511446011","title":"Unknown","description":"The three proteins show a highly diverse mix of GO terms (kinase activation, ribosome biogenesis, nuclear transport regulation, redox/immune signaling, and apoptosis). There isn\u2019t a clear, single function or pathway tying them together, so a cohesive cluster label cannot be determined.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032147","count":1},{"id":"GO:0042254","count":1},{"id":"GO:1903094","count":1},{"id":"GO:1900182","count":1},{"id":"GO:0046826","count":1}]},{"hash":"258850835843756839","title":"NF-kappaB signaling and immune differentiation","description":"These terms cluster around NF-kappaB signaling and immune cell differentiation. K63-linked ubiquitination and activation of IKK/I\u03baB phosphorylation point to canonical NF-kappaB activation, supported by IL-1 signaling and T cell receptor signaling, and by dendritic cell and osteoclast differentiation as downstream immune processes. V(D)J recombination also ties into lymphocyte development. A stray term about respiratory gas exchange appears less connected. Overall, the proteins likely participate in NF-kappaB\u2013mediated inflammatory signaling and immune-cell maturation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070534","count":3},{"id":"GO:0043011","count":3},{"id":"GO:0007250","count":3},{"id":"GO:1903721","count":3},{"id":"GO:2000620","count":3}]},{"hash":"1763276330207591219","title":"Growth Factor/Cytokine Signaling and Cell Adhesion","description":"This cluster centers on signaling pathways that regulate cell adhesion and behavior, reflected by GO terms for positive regulation of cell-matrix adhesion and angiogenesis, plus receptor tyrosine kinase\u2013 and MAPK-related signaling. The presence of prolactin and IL-27 signaling indicates a broader cytokine/signaling context, suggesting these proteins act as mediators coordinating adhesion with growth factor and cytokine signals during tissue remodeling or differentiation.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001954","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0038161","count":3},{"id":"GO:0070106","count":3},{"id":"GO:0044708","count":3}]},{"hash":"1075262056513269386","title":"Unknown","description":"The top GO terms are scattered across nuclear transport, ubiquitin/ proteostasis regulation, oxidative stress, immune/inflammatory signaling, apoptosis inhibition, fertilization, deglycosylation, and membrane potential, with one obsolete annotation. There isn\u2019t a clear, cohesive theme linking these functions to a single short label, given the small cluster size and diverse terms.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903094","count":2},{"id":"GO:1900182","count":2},{"id":"GO:0046826","count":2},{"id":"GO:1901671","count":2},{"id":"GO:0002866","count":2}]},{"hash":"1251995760816844265","title":"Lung Morphogenesis and Surfactant Homeostasis","description":"Most top GO terms point to lung development, including epithelial tube branching and branching morphogenesis, plus surfactant homeostasis, suggesting these proteins participate in lung formation and lung surface biology. A few unrelated or obsolete annotations (e.g., bone ossification, macrophage apoptosis) may reflect broader or noisy annotations, but the lung-related signals dominate.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060448","count":2},{"id":"GO:0051603","count":2},{"id":"GO:0071888","count":2},{"id":"GO:2000179","count":2},{"id":"GO:0001957","count":2}]},{"hash":"539725190913758908","title":"Membrane Transporters","description":"These proteins collectively show predominately transport-related GO terms across membranes, including xenobiotic transport, various metabolite transports (fucose, sialic acid, nitrite, phosphate, trehalose, L-ascorbic acid), and even a neuronal function for neurotransmitter loading into synaptic vesicles, suggesting they function as membrane transporters handling diverse substrates.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019852","count":1},{"id":"GO:0006855","count":1},{"id":"GO:0042908","count":1},{"id":"GO:0006004","count":1},{"id":"GO:0015707","count":1}]},{"hash":"827972588521755960","title":"Developmental and Immune Signaling","description":"The top GO terms point to multiple signaling cascades (CAMKK-AMPK, Wnt), differentiation and development (hippocampus development, mast cell differentiation, angiogenesis, cell morphogenesis), and immune signaling (B cell receptor signaling), plus calcium handling and endosome transport. This suggests a theme of broad signaling interactions governing development and immune cell function, rather than a single narrow function. Therefore, a concise label capturing signaling in development and immunity seems appropriate, albeit with some heterogeneity across terms.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0061762","count":2},{"id":"GO:0060374","count":2},{"id":"GO:0045766","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0090263","count":2}]},{"hash":"609171220262208786","title":"Unknown","description":"GO terms span mitochondrial transcription, responses to growth factors (HGF/PDGF), various differentiation programs (lung alveolar type I cells, adipocytes, osteoclasts), circadian rhythm regulation, and glycosphingolipid metabolism, with no single dominant theme. The cluster has no edges, offering little evidence of a cohesive function.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006391","count":2},{"id":"GO:0035729","count":1},{"id":"GO:0036120","count":1},{"id":"GO:0060509","count":1},{"id":"GO:0042752","count":1}]},{"hash":"126370441539341091","title":"Neuronal morphogenesis and neuromuscular signaling","description":"The top GO terms cluster around neuron differentiation and cell morphogenesis (GO:0019953, GO:0048667, GO:0008360) and neuromuscular function and locomotion (GO:0007626, GO:0050885), pointing to roles in neural development and movement control; SMAD signaling (GO:0060395) and regulation of cell shape support cytoskeletal remodeling during morphogenesis. A few terms such as lysosome organization and oligosaccharide catabolic process appear less central.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":2},{"id":"GO:0001501","count":1},{"id":"GO:0008360","count":1},{"id":"GO:0019953","count":1},{"id":"GO:0007338","count":1}]},{"hash":"645160002555612234","title":"Nuclear RNA processing and splicing","description":"Top terms are dominated by nuclear RNA maturation activities, including transcription termination, spliceosome-mediated mRNA splicing, snRNP assembly, tRNA processing, and nuclear mRNA decapping/import. While ABA and water deprivation responses appear, the core theme is RNA processing/splicing machinery in the nucleus.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006369","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0009414","count":2},{"id":"GO:0000387","count":2},{"id":"GO:0008033","count":2}]},{"hash":"71166684240519180","title":"Fungal cell cycle regulation and protein modification","description":"The cluster shows strong signals for cell cycle control (regulation, endomitotic cycle) and post-translational modifications (neddylation, ufmylation), with links to fungal growth regulation (pseudohyphal growth). While some terms touch on transcription regulation and metabolism (thiamine biosynthesis), the dominant themes center on cell cycle management and protein modification in a fungal context.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051726","count":2},{"id":"GO:0045116","count":2},{"id":"GO:0007113","count":2},{"id":"GO:0044805","count":2},{"id":"GO:2000220","count":2}]},{"hash":"1881512805132205591","title":"N-terminal and polyamine acetylation","description":"The top GO terms are dominated by acetylation-related processes, including N-terminal protein acetylation, N-terminal methionine acetylation, propionylation, and acetylation of spermidine/spermine, implying a shared theme of post-translational and polyamine acetylation across the proteins. Some sugar acetylation terms appear, while sporulation and angiogenesis terms seem peripheral noise given the small cluster. Confidence: Medium","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006474","count":1},{"id":"GO:0030435","count":1},{"id":"GO:0001525","count":1},{"id":"GO:0009447","count":1},{"id":"GO:0017196","count":1}]},{"hash":"126693086191043526","title":"DNA Replication and Genome Maintenance","description":"The dominant terms relate to replication dynamics (fork reversal, fork progression), DNA repair, and telomere maintenance, hinting at genome-wide replication-associated maintenance activities, including mitochondrial DNA repair and telomere regulation.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":1},{"id":"GO:0051974","count":1},{"id":"GO:0071932","count":1},{"id":"GO:0043504","count":1},{"id":"GO:0097046","count":1}]},{"hash":"2216847083766892936","title":"Ubiquitin-Proteasome\u2013Mediated Cell Cycle Regulation","description":"This cluster centers on the ubiquitin-proteasome system and cell-cycle control, with GO terms for APC-dependent catabolic processes, regulation of ubiquitin-protein ligase activity in mitosis, and proteasome core complex assembly, suggesting proteins involved in targeted degradation during cell division. Some immune signaling terms appear, likely due to shared signaling components, but the core theme is ubiquitin-mediated proteolysis in the cell cycle.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0038095","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0051436","count":3},{"id":"GO:0010363","count":3},{"id":"GO:0080129","count":3}]},{"hash":"1832421672448937306","title":"Cytoskeletal Dynamics and Stress Responses","description":"The terms point to cytoskeletal dynamics (microtubules, axonal transport) driving morphogenesis (lens fiber) and cellular stress responses (heat, hydrogen peroxide, ROS regulation), with signaling inputs such as estradiol and growth regulation. The common thread is cytoskeleton-centered regulation of shape, movement, and stress adaptation.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006936","count":1},{"id":"GO:0032355","count":1},{"id":"GO:0030308","count":1},{"id":"GO:0009408","count":1},{"id":"GO:2000378","count":1}]},{"hash":"1942764393661326962","title":"SCF ubiquitin ligase-driven cell cycle regulation","description":"The top GO terms point to SCF complex assembly and SCF-dependent ubiquitin-proteasome\u2013mediated protein degradation, plus processes like exit from mitosis and maintenance of nuclear protein localization, which together suggest proteostasis tightly linked to cell cycle control. Some terms (cadmium response, viral process, auxin signaling) seem less directly connected, but do not override the dominant SCF/cell-cycle signal.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046686","count":3},{"id":"GO:0016032","count":3},{"id":"GO:0031146","count":3},{"id":"GO:0007035","count":2},{"id":"GO:0000921","count":2}]},{"hash":"1508586731499128731","title":"DNA Recombination and Transposition","description":"The listed GO terms cluster around DNA-level genome dynamics: DNA integration, DNA recombination, DNA transposition, and regulation of DNA topoisomerase activity, plus a NHEJ repair\u2013related term. Even with a couple of obsolete terms, the remaining terms consistently reflect DNA rearrangement and maintenance processes, suggesting a module for genome mobility and repair.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:0097676","count":1},{"id":"GO:2000373","count":1},{"id":"GO:0090305","count":1},{"id":"GO:2001034","count":1}]},{"hash":"1978356564038731242","title":"DNA replication and repair machinery","description":"The cluster is dominated by GO terms for DNA replication, DNA biosynthetic process, and DNA repair, with protein homooligomerization suggesting multi-subunit complex formation, consistent with a DNA maintenance/synthesis module. The additional terms (ER-Golgi transport, mitochondrial complex assembly) appear peripheral or secondary to this core function.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0071897","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0006888","count":1}]},{"hash":"1379149220440043429","title":"Neural development and synaptic signaling","description":"This cluster centers on neuronal development and synaptic modulation, with GO terms for hippocampus development, axon extension, ephrin signaling, dopamine response, and key signaling cascades (ERK/JNK) driving postsynaptic activity, suggesting a cohesive neural development/synaptic function theme.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021766","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0045773","count":3},{"id":"GO:0043366","count":3},{"id":"GO:0046330","count":3}]},{"hash":"319783309691384737","title":"ER-Golgi and Golgi-Vacuole Transport","description":"The top GO terms point to vesicle fusion and transport within the secretory pathway, especially between the ER and Golgi and from Golgi to the vacuole, plus related ER-to-Golgi transport and Golgi-associated processes. This suggests a cohesive role in ER-Golgi/Vacuole trafficking, with autophagy-related vesicle activity as a supportive theme. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048280","count":2},{"id":"GO:0016320","count":1},{"id":"GO:0048279","count":1},{"id":"GO:0006623","count":1},{"id":"GO:0006888","count":1}]},{"hash":"871945634710911645","title":"ROBO signaling and neuronal migration","description":"Top GO terms such as Roundabout signaling pathway, tangential migration from the subventricular zone to the olfactory bulb, and negative chemotaxis point to neural development and guidance, with epithelial-mesenchymal signaling supporting developmental cell movement. Some terms (tRNA metabolism, translation fidelity, and ossification) appear as outliers or annotations noise, but the strongest signal is neural migration/guidance via ROBO signaling.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":2},{"id":"GO:0035385","count":2},{"id":"GO:0050919","count":2},{"id":"GO:0022028","count":2},{"id":"GO:0006399","count":1}]},{"hash":"1062643063963843092","title":"Actin Cytoskeleton Remodeling and Cell Polarity","description":"Top terms indicate actin-driven structures and remodeling (filopodium, podosome, cytoskeleton changes) coupled with polarity and protrusion signaling (Wnt, EGFR) and related processes like phagocytic engulfment, suggesting proteins in this cluster coordinate actin dynamics and cell shape regulation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":3},{"id":"GO:0034260","count":3},{"id":"GO:0071963","count":3},{"id":"GO:0071803","count":3},{"id":"GO:0051835","count":3}]},{"hash":"1125608711864678450","title":"Viral Entry and Genome Integration","description":"This cluster centers on virus-host interaction and genome manipulation: entry into the host cell, proviral latency, nuclear penetration, RNA-templated DNA synthesis, DNA replication and integration, and recombination, with hints of viral suppression of host RNAi. The GO terms collectively point to a viral infection/replication and genome integration program rather than a host-owned process.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0046718","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0039651","count":3},{"id":"GO:0015074","count":3}]},{"hash":"679920036302595070","title":"Neural development and dendrite morphogenesis","description":"The top terms are dominated by neural development and brain-related processes (brain development, nervous system development, hippocampus development) and dendrite morphogenesis, with an additional note on regulation of synaptic vesicle exocytosis. This points to a cluster of neuronal development and dendritic/synaptic remodeling, despite a few unrelated terms present as noise.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0010796","count":2},{"id":"GO:2000300","count":2},{"id":"GO:0031384","count":2},{"id":"GO:0007399","count":2}]},{"hash":"1909688605464484923","title":"Unknown","description":"The Top Terms show a mix of cell division (mitotic spindle), protein ubiquitination, signaling and development (EMT, Wnt, hippocampus development), Golgi organization, synaptic plasticity, and phagocytosis, with no single cohesive function tying all terms together. Therefore there isn\u2019t a clear, specific label for this cluster.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0060684","count":1},{"id":"GO:0032949","count":1},{"id":"GO:0051835","count":1}]},{"hash":"2154508703199265867","title":"Cross-Tissue Development","description":"The top GO terms point to developmental processes in many tissues (ectoderm, brainstem, kidney, reproductive tract, etc.) with one general cellular process (nuclear import), suggesting a broad developmental theme rather than a single pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0086073","count":1},{"id":"GO:0061198","count":1},{"id":"GO:0051211","count":1},{"id":"GO:0021550","count":1},{"id":"GO:0006607","count":1}]},{"hash":"1419942287374749482","title":"Developmental and Neural Signaling","description":"The top GO terms span heart development, angiogenesis, axonogenesis, myoblast fusion, visual perception, and synaptic plasticity, which together point to developmental signaling across tissues and neural circuits. The presence of a broad regulatory term for phosphorylation suggests general signal transduction rather than a single pathway. With no detected edges, the proteins appear connected by a broad developmental theme rather than a specific mechanism, justifying a high-level label.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010800","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0007409","count":2},{"id":"GO:0000086","count":2}]},{"hash":"2018911685729416167","title":"Quinone biosynthesis and small-molecule metabolism","description":"The top GO terms cluster around quinone biosynthesis (menaquinone and phylloquinone) and various small-molecule metabolic processes, including valine and phenylacetate catabolism and fatty acid beta-oxidation, plus antibiotic biosynthesis. This suggests a set of proteins involved in quinone-related biosynthesis together with broader organic compound metabolism, hence a label focusing on quinone biosynthesis and general small-molecule metabolism. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":3},{"id":"GO:0010124","count":3},{"id":"GO:0006574","count":3},{"id":"GO:0006635","count":3},{"id":"GO:0042372","count":3}]},{"hash":"1211005031998854640","title":"Immune signaling and inflammation","description":"The cluster shows GO terms centered on immune signaling and inflammatory processes, including Fc-gamma receptor signaling, basophil activation, NK cell chemotaxis, and regulation of arachidonate secretion. Related terms about autophagy regulation and oxidative stress-induced senescence align with cellular stress responses that interface with immunity. Some kidney development terms appear as outliers, likely annotation noise rather than core functions. Overall, the dominant theme is immune signaling/inflammation, so this label is reasonably representative.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010216","count":2},{"id":"GO:1901097","count":2},{"id":"GO:0090238","count":1},{"id":"GO:0051873","count":1},{"id":"GO:2000502","count":1}]},{"hash":"795542167486700056","title":"Unknown","description":"This cluster shows a highly diverse set of GO terms (antibiotic response, various developmental layers, chromatin modification, kinetochore assembly, DNA endoreduplication, and DNA damage tolerance) with no shared biological theme and no edges connecting members, making a coherent, specific functional label unlikely.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0010724","count":1},{"id":"GO:0032875","count":1},{"id":"GO:0016926","count":1},{"id":"GO:0060711","count":1}]},{"hash":"1837379837963710749","title":"GPCR-cAMP signaling in heart and retina","description":"The terms center on GPCR-related signaling, including activation of adenylate cyclase, opsin-mediated signaling, and calcium release regulation. Coupled with heart development, cardiac muscle contraction regulation, phosphorylation, and visual perception, these suggest a shared GPCR- and calcium-driven signaling theme that operates in both cardiac and retinal contexts. Therefore, labeling as GPCR-cAMP signaling in heart and retina captures the common functional thread across the cluster.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006468","count":2},{"id":"GO:0055117","count":2},{"id":"GO:0001975","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0007601","count":2}]},{"hash":"808898343289184062","title":"One-carbon metabolism and nucleotide biosynthesis","description":"GO terms point to folate/dihydrofolate metabolism, thymidine/dTMP biosynthesis, glycine biosynthesis, and methylation, which together reflect one-carbon metabolism feeding nucleotide production and epigenetic methylation. The presence of related redox and axon regeneration terms is secondary but may indicate broader metabolic support for neuronal maintenance. Confidence in this cohesive theme: Medium.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006729","count":1},{"id":"GO:2000121","count":1},{"id":"GO:0046655","count":1},{"id":"GO:0046105","count":1},{"id":"GO:0031103","count":1}]},{"hash":"1106443372932891099","title":"DNA Replication and Repair","description":"Based on the top GO terms, this cluster centers on DNA maintenance activities: replication, repair, recombination, and the SOS damage response. Although there are no reported interactions within the cluster, the terms point to a shared function in preserving and propagating DNA, with one outlier term that may reflect context-specific annotation rather than core function.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090305","count":1},{"id":"GO:0009432","count":1},{"id":"GO:0006261","count":1},{"id":"GO:0006289","count":1},{"id":"GO:0039657","count":1}]},{"hash":"1782799750383607431","title":"Vesicle trafficking and secretion in development","description":"The cluster centers on secretory pathway activities (ER-to-Golgi export, COPI vesicle formation, Golgi ribbon formation, COPI coating) and Wnt secretion, pointing to vesicle trafficking as the core function. Developmental processes such as maternal placenta formation, axis specification, and egg-laying behavior suggest these trafficking events are linked to developmental and reproductive biology, making \"Vesicle trafficking and secretion in development\" a concise, representative label.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0061357","count":1},{"id":"GO:0001893","count":1},{"id":"GO:0007311","count":1},{"id":"GO:0070863","count":1},{"id":"GO:0002121","count":1}]},{"hash":"1027597010888700249","title":"Unknown","description":"The terms span neural morphogenesis, sensory/light absorption, cytoskeletal remodeling, ribophagy, nuclear transport, and signaling, with no evident shared pathway or interaction (edges 0). The lack of a cohesive functional theme makes a precise label inappropriate.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000172","count":1},{"id":"GO:0000060","count":1},{"id":"GO:0070340","count":1},{"id":"GO:1903125","count":1},{"id":"GO:0045842","count":1}]},{"hash":"1967493519187043274","title":"Unknown","description":"The terms are a mix of mitochondrial processes, vesicle trafficking, autophagy regulation, and some unrelated developmental and cell-cycle terms, with no single dominant function. This scattered signal makes it hard to assign a cohesive, high-level label. ","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2000134","count":1},{"id":"GO:0046902","count":1},{"id":"GO:0070940","count":1},{"id":"GO:0030150","count":1},{"id":"GO:1903740","count":1}]},{"hash":"2205760900192415694","title":"Calcium-Driven Signaling and Development","description":"Top GO terms show calcium-associated signaling (CAMKK-AMPK cascade; calcium ion import) together with diverse development and differentiation processes (angiogenesis, hippocampus development, Wnt signaling) and immune signaling (B cell receptor signaling, mast cell differentiation). The common thread is calcium-activated signaling influencing developmental and immune pathways, with associated trafficking. This suggests proteins in this cluster are involved in calcium-dependent signaling that modulates development and immune responses, rather than a single narrow function.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0061762","count":3},{"id":"GO:0060374","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0021766","count":3},{"id":"GO:0090263","count":3}]},{"hash":"166747381077076576","title":"DNA replication and telomere maintenance","description":"The GO terms cluster around DNA replication and genome maintenance: replication fork reversal and progression, DNA replication/elongation, DNA repair, and telomere maintenance (including telomerase regulation). Even with obsolete terms, the shared theme is preserving genome integrity during replication, spanning both nuclear telomeres and mitochondrial DNA maintenance.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":1},{"id":"GO:0051974","count":1},{"id":"GO:0071932","count":1},{"id":"GO:0043504","count":1},{"id":"GO:0097046","count":1}]},{"hash":"1318488055135482340","title":"Retroviral DNA Integration and Latency","description":"The GO terms point to reverse transcription, DNA integration, and proviral latency, with entries related to viral entry and nuclear penetration, indicating retroviral-like genome integration and latent infection processes. While some terms touch on broader DNA replication, the combination strongly supports a retroviral life cycle theme.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006310","count":2},{"id":"GO:0046718","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0039651","count":1}]},{"hash":"1504200781786357755","title":"Unknown","description":"The GO terms cover xenobiotic response, redox homeostasis, cell cycle regulation, RNA processing, glycogen synthase modulation, phosphatidylinositol dephosphorylation, renal water transport, corneocyte development, mRNA stability, and interspecies hemolysis. These functions span diverse tissues and processes with no clear unifying theme for the protein cluster, so a specific, representative label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":1},{"id":"GO:0045454","count":1},{"id":"GO:1900087","count":1},{"id":"GO:1903704","count":1},{"id":"GO:2000466","count":1}]},{"hash":"1743042032837691781","title":"Pyroptosis and innate immune signaling","description":"This cluster\u2019s prominent GO terms center on apoptotic and pyroptotic processes, innate immune response, and cytokine regulation (e.g., IL-12/IL-23 production) with supporting ubiquitination. Despite one outlier term, the prevailing theme is immune-cell death and inflammatory signaling, justifying this label.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990001","count":2},{"id":"GO:0070269","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0045087","count":2}]},{"hash":"879581104632239872","title":"Viral entry, integration, and inflammatory signaling","description":"This cluster\u2019s GO terms cluster around viral and retroelement processes: entry into host cells, proviral latency, DNA integration, retrotransposition, and viral penetration into the host nucleus, with accompanying inflammatory cytokine signaling and host defense terms. The recurring theme is viral infection/retroelement activity coupled with host inflammatory responses, suggesting these proteins participate in viral integration steps and related host immune signaling.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0015074","count":1},{"id":"GO:0032197","count":1}]},{"hash":"447922616768715012","title":"Developmental signaling and cytoskeletal regulation","description":"The term set spans multiple developmental processes (neural tube closure, forebrain development, heart muscle differentiation, uterus development) and includes signaling and cytoskeletal pathways (Rho signaling, actin reorganization, CAMKK-AMPK), plus CDK regulation and JAK-related activity. This pattern suggests proteins involved in coordinating developmental signaling with cytoskeletal dynamics rather than a single, specific function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045736","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0007266","count":2},{"id":"GO:2000727","count":2},{"id":"GO:0031532","count":2}]},{"hash":"1705359595438314316","title":"Cell Death and Innate Immune Signaling","description":"The top GO terms point to apoptosis and pyroptosis, along with innate immune response and protein ubiquitination, suggesting a cluster centered on inflammatory cell death and immune signaling. A stray term about mitotic spindle assembly is likely incidental, but the core signals indicate immune-related cell death regulation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990001","count":2},{"id":"GO:0070269","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0045087","count":2}]},{"hash":"498433094771020622","title":"Proteasome and Translation Initiation Regulation","description":"This cluster centers on components of the ubiquitin-proteasome system (proteasome assembly and proteasome-mediated degradation) and regulatory deneddylation (COP9 signalosome), alongside GO terms for translation initiation and its regulation. Together these terms suggest a proteostasis-focused module linking protein synthesis initiation with protein degradation and post-translational modification, rather than a single, specific pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":2},{"id":"GO:0060625","count":1},{"id":"GO:0010387","count":1},{"id":"GO:0000338","count":1},{"id":"GO:0007250","count":1}]},{"hash":"769566794275479592","title":"Regulation of signaling and protein turnover","description":"Top GO terms center on signaling pathway regulation (NF-\u03baB/I-\u03baB, Wnt) and proteolysis/protein catabolic processes, with additional notes on germ cell death and T cell differentiation. The common thread is modulation of signaling states and protein turnover, suggesting this cluster comprises regulators of signaling and proteostasis rather than core metabolic activities. No direct interactions are evident (edges 0), but the functions point to a cohesive regulatory theme.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904924","count":1},{"id":"GO:0035234","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0030163","count":1},{"id":"GO:0016055","count":1}]},{"hash":"667316555420363234","title":"Gene Expression Regulation and DNA Repair","description":"The top GO terms point to transcriptional control (negative regulation of RNA Pol II) and DNA repair processes (transcription-coupled and nucleotide-excision repair), alongside translation-related terms (cytoplasmic translation initiation complex, mRNA binding) and developmental contexts (embryonic development, meiosis, germ-line maintenance). This suggests a broad, shared theme around nuclear gene regulation and genome maintenance in a developmental setting, even though some terms are more peripheral. Confidence in this label is Medium.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0075525","count":1},{"id":"GO:0007127","count":1},{"id":"GO:0036099","count":1},{"id":"GO:0006283","count":1}]},{"hash":"73036993316733817","title":"Multicellular development and differentiation","description":"Top GO terms clustered around developmental processes (skeletal system development, neuron projection development, lens fiber cell differentiation, multicellular organism development) with some growth hormone response, and a few terms related to ubiquitination and DNA damage response that are tangential. This suggests the proteins collectively participate in developmental differentiation and growth signaling rather than a single narrow function, hence the label. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0060528","count":1},{"id":"GO:0060416","count":1}]},{"hash":"2200474660224158060","title":"Embryonic development and tissue differentiation","description":"The GO terms are dominated by embryonic development and tissue differentiation (placenta, pancreas, cartilage, heart-related processes, left-right patterning, EMT, and endocrine development), with a few metabolic terms sprinkled in. This suggests the proteins are collectively involved in developmental patterning and differentiation across multiple lineages rather than a single, cohesive pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":1},{"id":"GO:0035270","count":1},{"id":"GO:0060972","count":1},{"id":"GO:0003323","count":1},{"id":"GO:0060536","count":1}]},{"hash":"1480573431828932388","title":"Cell signaling and vesicle trafficking","description":"These proteins show GO terms spanning antigen receptor signaling, GPCR desensitization, integrin activation, calcium-dependent exocytosis, and vesicle recycling, plus roles in cell migration and signaling regulation. The shared theme is broad cellular signaling and vesicle trafficking processes rather than a single precise function, so a concise label like this captures the cluster. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033623","count":1},{"id":"GO:0006924","count":1},{"id":"GO:0045956","count":1},{"id":"GO:0010763","count":1},{"id":"GO:1903423","count":1}]},{"hash":"561150714997058978","title":"SNARE-mediated vesicle fusion","description":"The GO terms cluster around membrane trafficking and exocytosis: SNARE complex assembly; vesicle fusion with Golgi; autophagosome docking; exocytic insertion of receptors; and degranulation in immune cells. These collectively point to a shared machinery of vesicle docking/fusion and secretion, centered on SNARE-mediated processes, across various cell types.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016240","count":1},{"id":"GO:0098967","count":1},{"id":"GO:0035493","count":1},{"id":"GO:0048280","count":1},{"id":"GO:0032869","count":1}]},{"hash":"137265009269109841","title":"Wnt Secretion and Golgi-COPI Trafficking","description":"This cluster centers on secretory pathway processes: positive regulation of Wnt protein secretion, COPI-coated vesicle budding, COPI coating of Golgi vesicles, and Golgi ribbon formation, pointing to Golgi/COPI-mediated trafficking that enables Wnt signaling. Some maternal-development terms (dorsal/ventral axis specification, placenta-related) align with developmental roles of secreted factors, supporting a developmental trafficking function. The mixture of trafficking and embryogenesis terms suggests a focused theme around secretory pathway regulation in development, though the small size and some noisy terms temper certainty.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061357","count":1},{"id":"GO:0001893","count":1},{"id":"GO:0007311","count":1},{"id":"GO:0070863","count":1},{"id":"GO:0002121","count":1}]},{"hash":"139522143248065274","title":"T Cell Activation and Antigen Receptor Signaling","description":"Although the proteins show diverse roles, the most represented GO terms point to T cell receptor\u2013mediated activation and antigen receptor signaling (GO:0002291, GO:0050851). Also related are regulation of integrin activation (cell adhesion) and general gene expression during immune signaling, with a few terms touching broader processes like GPCR desensitization and vesicle recycling. The overall signal is centered on immune cell activation rather than a single specific pathway, justifying a label focused on T cell receptor\u2013driven activation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033623","count":1},{"id":"GO:0006924","count":1},{"id":"GO:0010763","count":1},{"id":"GO:1903423","count":1},{"id":"GO:1901998","count":1}]},{"hash":"999298072778869434","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045410","count":1},{"id":"GO:0032738","count":1},{"id":"GO:0002781","count":1},{"id":"GO:0090073","count":1},{"id":"GO:0002755","count":1}]},{"hash":"2128180338720690365","title":"Unknown","description":"This cluster has no GO terms, no interactions (edges/triangles), and only a few proteins with no detectable shared function, so there is no cohesive theme to label. Therefore, the appropriate label is Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]}]