[{"hash":"684498925835095725","title":"Post-transcriptional RNA processing and translation regulation","description":"The terms cluster around mRNA splicing and export (spliceosome components, mRNA export), and control of translation (regulation of translational initiation, eIF4F complex assembly, miRNA-mediated silencing, IRES-dependent translation). This suggests a cohesive role in post-transcriptional gene expression regulation, spanning processing to translation.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0035278","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0048026","count":3},{"id":"GO:1903586","count":3}]},{"hash":"1401354198663819537","title":"Neuronal development and synaptic function","description":"This cluster is dominated by GO terms tied to brain development, synapse assembly, and regulation of GABAergic transmission, pointing to a set of proteins involved in neuronal development and synaptic signaling. Additional terms such as intracellular protein transport and plasma membrane repair align with neuronal cellular maintenance, while a couple of terms (granuloma formation, cellular response to antibiotic) may reflect broader or incidental processes. Overall, the theme centers on neuronal maturation and synaptic activity.","confidence":"High","size":29,"edges":243,"triangles":745,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0001778","count":2},{"id":"GO:0007416","count":2}]},{"hash":"2005224022586038541","title":"Plant phenylpropanoid and flavonoid biosynthesis","description":"The top GO terms point to anthocyanin and flavonoid biosynthesis (cyanidin, kaempferol, quercetin glycosides) and lignin metabolism, all part of the plant phenylpropanoid pathway. While there are a couple of unrelated terms (calcium release and cell cycle), the dominant theme is secondary metabolite production in plants, suggesting the cluster represents enzymes and regulators involved in phenylpropanoid and flavonoid biosynthesis.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014808","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0030259","count":2},{"id":"GO:0009718","count":2}]},{"hash":"2286580942377259883","title":"Innate Immune and MAPK Signaling Components","description":"The cluster is dominated by GO terms for innate immune response, interferon-beta production, and the ERK1/ERK2 cascade, pointing to proteins involved in innate immune signaling and MAPK pathway activity. Supporting notes on cell-cycle related regulation (mitotic checkpoint, CDK activity) suggest some overlap with signaling cross-talk, but the prevailing pattern centers on immune signaling and MAPK signaling. A few terms (cerebral cortex development, kinetochore localization) appear less directly related and may reflect broad annotations or multi-functional proteins.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0045793","count":4},{"id":"GO:0006349","count":4},{"id":"GO:0021987","count":4},{"id":"GO:0043433","count":4}]},{"hash":"1261585340593794548","title":"Transcription and Signaling in Immune Development","description":"This cluster centers on DNA-templated transcription and multiple signaling pathways (B cell receptor signaling, Wnt signaling, estrogen response) with immune and developmental contexts (dendritic cell differentiation, skeletal muscle development). The mix of endocytosis and ribosome export adds cellular transport and protein synthesis dimensions, supporting a broad regulatory theme rather than a single pathway. Overall, a label emphasizing transcriptional regulation and signaling in immune development best fits the shared functions.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0007519","count":3},{"id":"GO:2001200","count":3},{"id":"GO:0043627","count":2}]},{"hash":"2212863020232130134","title":"Unknown","description":"The set of GO terms shows a mix of host-symbiont interactions, protein regulation, and disparate development/morphogenesis processes across plants and animals, plus membrane maintenance and cardiac function. There is no clear unifying function or pathway that ties these proteins together, so a specific, representative label cannot be confidently assigned beyond Unknown.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046597","count":3},{"id":"GO:0031397","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0060463","count":2},{"id":"GO:0043380","count":2}]},{"hash":"603538603976672369","title":"Bacterial cell wall biosynthesis and antibiotic production","description":"Most terms converge on peptidoglycan/LPS biosynthesis, cell wall organization, and antibiotic biosynthetic/response processes, indicating a module focused on bacterial envelope assembly and antibiotic-related activity; a few terms (e.g., anthocyanin biosynthesis) likely reflect annotation noise rather than core function.","confidence":"Medium","size":29,"edges":19,"triangles":10,"max_degree":4,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0017000","count":9},{"id":"GO:0055114","count":8},{"id":"GO:0071555","count":8},{"id":"GO:0006564","count":7},{"id":"GO:0009103","count":7}]},{"hash":"855265851597069572","title":"Diverse Biosynthetic Processes","description":"The top GO terms point to a range of biosynthetic activities: androgen and testosterone biosynthesis, L-glutamine metabolism, methylation, and the biosynthesis of PHB, lipopolysaccharide, menaquinone, and antibiotics. This suggests the cluster captures proteins involved in producing diverse metabolites rather than a single pathway, justifying a label of broad biosynthetic processes. Confidence: Medium","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0008209","count":5},{"id":"GO:0061370","count":4},{"id":"GO:0006541","count":4},{"id":"GO:0042619","count":4}]},{"hash":"2217496874404083306","title":"Hematopoiesis and cytokine signaling","description":"The top GO terms center on hematopoiesis (hemopoiesis), interleukin-related responses (IL-4 production, cellular response to IL-7) and PI3K-AKT signaling, suggesting a theme of immune cell development and cytokine-mediated signaling. Some terms are obsolete, and others (like ubiquitination and spindle assembly) are broader, but the core cluster points to immune/cytokine regulation in hematopoietic contexts.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0051225","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0007205","count":2},{"id":"GO:2001275","count":2}]},{"hash":"1090454802825117531","title":"Unknown","description":"The GO terms cover diverse areas\u2014immune signaling, muscle and skeletal development, neural development, transcription, cell cycle, and protein degradation\u2014without a single dominant process, so a cohesive, intuitive label is not supported.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050853","count":3},{"id":"GO:0007519","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0030900","count":2},{"id":"GO:0050830","count":2}]},{"hash":"14188234923405792","title":"Immune and neural development signaling","description":"The cluster shows strong representation of immune-related GO terms (B cell receptor signaling pathway, T cell proliferation, interleukin-12 response) alongside neural/neuronal development terms (axon fasciculation, axon regeneration, planar polarity, skeletal development). This suggests a broad developmental signaling module that spans immune signaling and neural development, rather than a single cohesive pathway. Therefore the label captures a common theme of developmentally coordinated signaling across systems, though the connection is broad rather than highly specific.","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050853","count":6},{"id":"GO:0001501","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0048680","count":5},{"id":"GO:0046641","count":5}]},{"hash":"628155157003129368","title":"Unknown","description":"The term set spans DNA replication, proteostasis, vesicle trafficking (Golgi and peroxisome), protein oligomerization, transformation competence, and microtubule remodeling, which do not point to a single coherent function for the cluster. This diversity suggests no common theme tying all proteins together.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0071218","count":2},{"id":"GO:0048219","count":2},{"id":"GO:0070414","count":2},{"id":"GO:0051260","count":2}]},{"hash":"278664625622777385","title":"Chromatin-associated transcription regulators","description":"This cluster is dominated by terms pointing to nuclear regulation of gene expression and chromatin state, including DNA-templated transcription, protein localization to chromatin, and histone modification-related activity. The presence of transcription factor regulation and chromatin-associated processes suggests these proteins act as chromatin-based regulators of transcription, with occasional annotations (like male gonad development) reflecting tissue-specific regulatory roles. Some outlier terms (ion transport/ stress responses) may reflect annotation breadth or pleiotropy, but the central theme remains chromatin-mediated transcription control.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0043433","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0071168","count":2},{"id":"GO:0051567","count":2}]},{"hash":"198958943603826283","title":"Lipid catabolism and endocannabinoid signaling","description":"The dominant GO terms reflect lipid catabolic processes (triglyceride, diacylglycerol, monoacylglycerol, phosphatidylserine) and the endocannabinoid signaling pathway, indicating a cohesive lipid metabolism/signaling cluster. Some outlier terms (cellulose, cobalamin, antibiotic biosynthesis) are present but do not override the lipid-centric theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":8},{"id":"GO:2000124","count":7},{"id":"GO:0030245","count":7},{"id":"GO:0042136","count":6},{"id":"GO:0046340","count":6}]},{"hash":"863494732529942155","title":"Unknown","description":"The cluster includes GO terms from diverse biological areas: immune signaling (B cell receptor signaling, germinal center formation), ubiquitination regulation (K33-linked ubiquitination, negative regulation of ubiquitination), receptor activity, protein homooligomerization, renal functions (sodium absorption, distal tubule morphogenesis), and muscle development (skeletal muscle fiber and tissue development). There is no single coherent process tying these terms together, suggesting the proteins participate in multiple independent pathways rather than a specific shared function. Therefore no clear functional theme can be assigned; label Unknown.","confidence":"","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0031397","count":2},{"id":"GO:2000312","count":2},{"id":"GO:1990390","count":2}]},{"hash":"158984349665576077","title":"Innate Immune and Stress-Response Signaling","description":"This cluster shows a prominent innate immune term (innate immune response) alongside diverse regulatory processes (transcription, cell cycle, telomere maintenance, cadmium response, proteasomal degradation, and signaling like Wnt/NF-kB), suggesting a broad stress and immune signaling module rather than a single cohesive pathway. Confidence is moderate given the heterogeneous GO terms.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0071276","count":6},{"id":"GO:0090263","count":5}]},{"hash":"1391821552644652959","title":"Bacterial cell wall and envelope biosynthesis","description":"The top terms are dominated by biosynthesis of envelope components such as lipoteichoic acid, peptidoglycan, and glycolipids, with supporting terms on cell division and regulation of cell shape. This points to a cohesive cluster of enzymes involved in building and remodeling the bacterial cell wall/envelope, rather than disparate metabolic pathways.","confidence":"High","size":29,"edges":21,"triangles":3,"max_degree":5,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0070395","count":8},{"id":"GO:0017000","count":8},{"id":"GO:0009247","count":7},{"id":"GO:0051301","count":7},{"id":"GO:0030259","count":6}]},{"hash":"1931240755726421089","title":"Unknown","description":"The GO terms are a mix of developmental (zygotic axis), cellular processes (receptor-mediated endocytosis, vacuolar proteolysis), organismal traits (stomatal morphogenesis), and peptide processing, with no clear shared function linking the proteins. This prevents a coherent, specific label.","confidence":"","size":29,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007354","count":1},{"id":"GO:0007323","count":1},{"id":"GO:0006898","count":1},{"id":"GO:0030435","count":1},{"id":"GO:1905596","count":1}]},{"hash":"13715941161799515","title":"DNA Damage Response and Cell Cycle Regulation","description":"Top GO terms strongly point to DNA damage response and cell cycle control (ionizing radiation response, meiotic DSB processing, DNA replication, G2 checkpoint, and mitotic re-entry). While some terms touch on development and signaling, the DDR/cell cycle theme is the most coherent across the cluster.","confidence":"Medium","size":29,"edges":102,"triangles":118,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071479","count":29},{"id":"GO:0000706","count":29},{"id":"GO:0048701","count":29},{"id":"GO:0006260","count":29},{"id":"GO:0048680","count":28}]},{"hash":"1248321984306396306","title":"Bacterial fatty acid biosynthesis and lipoteichoic acid biosynthesis","description":"Top GO terms indicate fatty acid biosynthesis, long-chain and medium-chain fatty acid metabolism and transport, and lipoteichoic acid biosynthesis, suggesting a module focused on lipid production and Gram-positive bacterial cell envelope assembly. Some seed-related terms may be annotations noise, but the core signal is lipid metabolism and lipoteichoic acid production.","confidence":"High","size":29,"edges":392,"triangles":3310,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006633","count":12},{"id":"GO:1902987","count":8},{"id":"GO:0044539","count":8},{"id":"GO:0070395","count":8},{"id":"GO:0043041","count":8}]},{"hash":"574891823182149683","title":"Developmental Transcriptional Regulation","description":"The top GO terms center on chromatin remodeling and DNA-templated transcription, indicating this cluster groups proteins involved in governing gene expression at the chromatin level. Additional terms point to developmental morphogenesis processes (otic vesicle formation, atrial septum morphogenesis, embryonic digestive tract morphogenesis) and regulation of cell proliferation and apoptosis, suggesting a role in tissue development and homeostasis. The combination implies a functional theme around transcriptional control during development and associated signaling (e.g., TGF-beta).","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043044","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0071560","count":4},{"id":"GO:0071866","count":3},{"id":"GO:0048557","count":3}]},{"hash":"475979087594790327","title":"Unknown","description":"The top terms span diverse, seemingly unrelated themes (immune regulation, DNA replication regulation, circadian rhythms, cell proliferation, brain development, toxin responses, synapse assembly, microtubule dynamics, and ubiquitination) with no cohesive biological process or clear connections, and there are no edges linking these proteins, so no single representative function emerges.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":1},{"id":"GO:0030174","count":1},{"id":"GO:0042752","count":1},{"id":"GO:0008285","count":1},{"id":"GO:0021678","count":1}]},{"hash":"1204867941744563733","title":"SCF-Dependent Ubiquitin-Proteasome Degradation","description":"This cluster is dominated by GO terms for ubiquitination and proteasomal degradation, especially the SCF-dependent ubiquitin-proteasome pathway, indicating a core function in tagging proteins for destruction. Peripheral terms relate to circadian rhythm regulation, DNA replication initiation, and cell cycle checkpoints, which can be linked to ubiquitin signaling in cell-cycle control and stress responses. Overall, the proteins appear to function primarily in ubiquitin-mediated protein turnover via the proteasome.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":3},{"id":"GO:0042787","count":3},{"id":"GO:1902916","count":2},{"id":"GO:0030174","count":2},{"id":"GO:0042752","count":2}]},{"hash":"871805319312105374","title":"DNA Damage Checkpoints and Cell Cycle Regulation","description":"The dominant signals are mitotic G1 and G2 DNA damage checkpoint signaling and re-entry into the mitotic cell cycle, indicating a strong emphasis on DNA damage response and cell cycle control. While there are some terms related to cytokine signaling and immune processes, the cluster clearly centers on regulatory mechanisms that monitor and respond to DNA damage to manage cell cycle progression. This pattern supports naming the cluster around DNA damage checkpoints and cell cycle regulation.","confidence":"High","size":29,"edges":173,"triangles":0,"max_degree":20,"top_function":"DNA repair","top_go_terms":[{"id":"GO:1902564","count":20},{"id":"GO:0071276","count":11},{"id":"GO:0031571","count":11},{"id":"GO:0048680","count":9},{"id":"GO:0007095","count":9}]},{"hash":"1850342071505991807","title":"Cytokine-driven hematopoietic and developmental signaling","description":"The top GO terms point to signaling pathways that regulate cytokine production (IL-4, GM-CSF) and erythropoietin-mediated signaling, along with developmental processes (cardiac neural crest cell development). While some terms touch on cell-cycle regulation and transcription, the strongest and most coherent theme is cytokine/growth factor signaling guiding hematopoiesis and development, making this a representative label for the cluster.","confidence":"Medium","size":29,"edges":194,"triangles":505,"max_degree":23,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":29},{"id":"GO:0007095","count":29},{"id":"GO:0000320","count":29},{"id":"GO:0010954","count":29},{"id":"GO:0038162","count":29}]},{"hash":"1238560740709345324","title":"Unknown","description":"The top GO terms are scattered across immune regulation, secretory pathway (ER-Golgi transport and Golgi retention), protein processing, metabolism, and cell signaling, with no clear single function tying the proteins together. Additionally, there are no observed edges or interactions to support a cohesive role, making it hard to assign a specific label. Therefore, Unknown with no confidence.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":3},{"id":"GO:0045053","count":2},{"id":"GO:0039573","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0045470","count":1}]},{"hash":"559141625505492453","title":"Ubiquitin-Proteasome Antiviral Innate Immunity","description":"This cluster is dominated by ubiquitin-dependent proteolysis terms (ubiquitin-dependent protein catabolic process, SCF-dependent proteasomal ubiquitin-dependent protein catabolic process, protein polyubiquitination, ERAD pathway) and innate immune/defense to virus terms, indicating proteins coordinating proteostasis with antiviral defense; other terms reflect broader stress responses but the core theme is ubiquitin-proteasome\u2013mediated immune function.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0042787","count":5},{"id":"GO:0051607","count":4},{"id":"GO:0051092","count":3},{"id":"GO:0030433","count":3}]},{"hash":"1494644729473904413","title":"Unknown","description":"The top terms are highly diverse, spanning muscle cell homeostasis, neuron development, autophagy, RNA processing (transcription elongation, mRNA export, stabilization), and developmental/regulatory processes, with no clear shared pathway. The lack of edges and triangles further suggests little functional connectivity, so a cohesive, specific label cannot be justified beyond Unknown. ","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046716","count":2},{"id":"GO:0048666","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0032968","count":2},{"id":"GO:0006406","count":2}]},{"hash":"1635981841332004650","title":"Cytokine and Growth Factor Signaling","description":"The top GO terms cluster around signaling pathways activated by cytokines and growth factors (B cell receptor signaling, IL-4 production, GM-CSF production, erythropoietin signaling, KIT signaling) and downstream events like STAT phosphorylation, with additional neural development/regeneration hints (axon guidance and regeneration). This points to a cohesive theme of cytokine/growth factor\u2013driven signal transduction across immune and neural contexts, hence the label. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0042220","count":6},{"id":"GO:0050853","count":5},{"id":"GO:0048680","count":4},{"id":"GO:0010954","count":4},{"id":"GO:0038162","count":4}]},{"hash":"511531135995750376","title":"DNA replication and cell cycle regulation","description":"Dominated by GO terms for DNA replication and DNA repair (26 counts each), along with mitotic G2 DNA damage checkpoint signaling and re-entry into the mitotic cell cycle, this cluster centers on genome maintenance and cell-cycle control. Additional terms related to transcriptional regulation and signaling are present but less represented. The overall theme is coherent around DNA synthesis/maintenance and progression through mitosis.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":26},{"id":"GO:0006281","count":26},{"id":"GO:0048680","count":25},{"id":"GO:0007095","count":25},{"id":"GO:0000320","count":25}]},{"hash":"786074945721502252","title":"RNA processing and translation regulation","description":"The GO terms cluster around RNA maturation and handling\u2014splicing (spliceosome, splice site recognition, cis splicing) and RNA export\u2014together with control of translation initiation (eIF4F assembly, translational initiation regulation, IRES-dependent initiation) and miRNA-mediated silencing. This suggests a functional cluster centered on RNA processing and translation regulation.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035278","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0075522","count":1},{"id":"GO:0048026","count":1},{"id":"GO:1903586","count":1}]},{"hash":"562488196730590164","title":"Proteostasis and Innate Immune Response","description":"The cluster's top GO terms are dominated by ubiquitin-dependent protein turnover (ERAD, ubiquitin-dependent protein catabolic process) and autophagy, indicating a proteostasis focus. There is also clear enrichment for innate immune and antiviral defense terms (innate immune response, defense response to virus), suggesting immune signaling linked to quality-control pathways. While some cell-cycle/microtubule-related terms appear, they do not define the cluster, so the proteostasis\u2013innate immunity theme is the best overarching label.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0035372","count":4},{"id":"GO:0051092","count":4}]},{"hash":"1566729783532583647","title":"Unknown","description":"The terms are a mixed bag: immune signaling (B cell receptor signaling; memory T cell differentiation), ubiquitination regulation, and plant/ development processes (gravitropism; phototropism; distal tubule development), plus other odd terms. There is no single cohesive function tying all 29 proteins together, so a reliable, representative label cannot be assigned.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0031397","count":5},{"id":"GO:0043380","count":4},{"id":"GO:0009958","count":4},{"id":"GO:0045497","count":4}]},{"hash":"514175741475498649","title":"Unknown","description":"The Top Terms span mitochondria-related processes (membrane insertion, cristae formation, translation) but also diverge into plant stress responses (high light, desiccation, ABA regulation), DNA repair, apoptosis, and even cardiac differentiation, with no clear single function uniting them. The diversity and lack of a cohesive theme suggest no reliable, specific label can be assigned.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051204","count":1},{"id":"GO:0009644","count":1},{"id":"GO:0009269","count":1},{"id":"GO:0030007","count":1},{"id":"GO:0042407","count":1}]},{"hash":"1089852531658012530","title":"Unknown","description":"The top GO terms cover immune differentiation, plant tropisms, kidney development, and ubiquitination with no clear common function, suggesting the cluster does not reflect a single coherent biological process.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":25},{"id":"GO:0009958","count":25},{"id":"GO:0045497","count":25},{"id":"GO:0009638","count":25},{"id":"GO:0050853","count":25}]},{"hash":"1799464532123994824","title":"Unknown","description":"The GO terms are highly heterogeneous across immune signaling (B cell receptor, memory T cell differentiation), development (muscle), plant tropisms (gravitropism, phototropism), and ubiquitination/transport, with no clear single biological theme linking them. This suggests no coherent cluster function can be inferred.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0050853","count":7},{"id":"GO:0007519","count":7},{"id":"GO:0043380","count":6},{"id":"GO:0009958","count":6},{"id":"GO:0045497","count":6}]},{"hash":"25859771909255446","title":"Immune-ECM Interaction and Coagulation","description":"This cluster shows enrichment in immune-related and cell-matrix interaction terms: T cell activation via antigen presentation, complement activation, and blood coagulation highlight immune and coagulation pathways, while integrin-mediated signaling and calcium-independent cell-matrix adhesion point to ECM interactions and remodeling. Negative regulation of extracellular matrix assembly also supports ECM dynamics. DNA replication and proteasome assembly appear less specific but may reflect general cellular housekeeping. Overall, the dominant theme is immune signaling coupled with ECM adhesion/remodeling and related coagulation processes.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:1901202","count":2},{"id":"GO:0035987","count":2},{"id":"GO:0002291","count":2},{"id":"GO:0007161","count":2}]},{"hash":"861299825453570325","title":"Unknown","description":"The cluster presents a broad mix of GO terms, including B cell receptor signaling, ubiquitination regulation, renal ion transport, circadian rhythm, and oxidative stress responses, with no evident shared pathway or interaction pattern (edges/triangles absent). The presence of outdated/obsolete terms and disparate biological themes prevents a cohesive, specific label.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":3},{"id":"GO:0031397","count":3},{"id":"GO:2000312","count":3},{"id":"GO:0071447","count":3},{"id":"GO:1990390","count":3}]},{"hash":"1750913394356442008","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":27,"triangles":0,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0070816","count":1},{"id":"GO:0071218","count":1},{"id":"GO:0035520","count":1},{"id":"GO:0002031","count":1},{"id":"GO:0006293","count":1}]},{"hash":"1985651471993314322","title":"Embryonic Neural Development and Transcription","description":"This cluster is dominated by GO terms related to developmental processes and neural formation, including forebrain development, neural tube closure, and multicellular organism development, alongside DNA-templated transcription and related regulation. While there are some stress- and cell-cycle-related terms present (ER stress\u2013induced apoptosis, cadmium response, mitotic cell cycle), the overarching theme appears to center on embryonic/neural development and transcriptional regulation.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0006349","count":2}]},{"hash":"1456808095743678329","title":"Energy metabolism and respiration","description":"The dominant GO terms cluster around energy production: aerobic respiration, proton transmembrane transport, and mitochondrial electron transport (ubiquinol to cytochrome c), which together describe cellular respiration and energy generation. Additional terms touch on related biosynthetic processes (PHB biosynthesis, lipopolysaccharide core biosynthesis) and some immune signaling, likely reflecting annotation noise or species-specific nuances, but the core signal points to energy metabolism.","confidence":"Medium","size":28,"edges":9,"triangles":1,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042619","count":6},{"id":"GO:0055114","count":6},{"id":"GO:0009060","count":5},{"id":"GO:0008209","count":4},{"id":"GO:0061370","count":4}]},{"hash":"718470605303639721","title":"Adaptive immune receptor signaling and angiogenesis","description":"This cluster centers on receptor-mediated signaling, highlighted by B cell receptor signaling, T cell receptor signaling, and VEGF receptor signaling pathways, along with associated serine/threonine kinase signaling and NF-kappaB regulation. Together these terms point to a cohesive theme of receptors transducing signals for adaptive immune responses and blood vessel formation, with a few development-related terms suggesting broader roles. Confidence: Medium","confidence":"","size":28,"edges":211,"triangles":946,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050853","count":6},{"id":"GO:0022038","count":5},{"id":"GO:0001525","count":5},{"id":"GO:0050852","count":5},{"id":"GO:0051092","count":5}]},{"hash":"1410841623838614258","title":"LPS-Responsive Innate Immune Signaling","description":"The top terms center on innate immune response and cellular response to lipopolysaccharide, plus related signaling like B cell receptor signaling, suggesting an immune-focused cluster; the developmental and microtubule localization terms appear incidental support rather than a core function.","confidence":"Medium","size":28,"edges":12,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0071222","count":2},{"id":"GO:0031663","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0050853","count":2}]},{"hash":"541812041594786512","title":"Neural development and cell proliferation","description":"This cluster combines strong signals for brain and forebrain development with core growth and biosynthetic processes (cell division, DNA replication, ribosome biogenesis, transcription, rRNA maturation). The coexistence of developmental terms with essential cellular machinery suggests genes active in neural development that require high protein synthesis and proliferative capacity. A minor defense-related term appears incidental rather than defining the cluster. ","confidence":"Medium","size":28,"edges":241,"triangles":1514,"max_degree":22,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0042254","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0006260","count":3}]},{"hash":"377464841890834000","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000447","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0000920","count":1},{"id":"GO:0009553","count":1}]},{"hash":"763070363327616488","title":"Antiviral Innate Immune Response and Gene Regulation","description":"The cluster is dominated by GO terms related to innate immunity and antiviral defense (innate immune response, defense response to virus, negative regulation of viral genome replication), suggesting an antiviral signaling and response function. While there are also terms tied to gene expression processes (mRNA processing, DNA-templated transcription, DNA replication) and microtubule localization, these appear supplementary, likely reflecting transcriptional reprogramming and intracellular transport that accompany immune activation. Overall, the strongest, most coherent signal points to antiviral innate immunity with concurrent gene regulation.","confidence":"Medium","size":28,"edges":5,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0006397","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0051607","count":3},{"id":"GO:0042220","count":3}]},{"hash":"122501284940893070","title":"Unknown","description":"The top GO terms span neural development, reproduction, cell cycle control, apoptosis, signaling, and immune response, with no clear unifying function tying the proteins together. Additionally, there are no edges among the proteins, suggesting a lack of a cohesive cluster-level function. ","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021987","count":2},{"id":"GO:0048240","count":2},{"id":"GO:0045793","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0048680","count":1}]},{"hash":"906468869684957763","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0015074","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0075713","count":1}]},{"hash":"1556272215677691917","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000623","count":1},{"id":"GO:0031120","count":1},{"id":"GO:0048025","count":1},{"id":"GO:1900745","count":1},{"id":"GO:0042254","count":1}]},{"hash":"463722242110901123","title":"Unknown","description":"The top GO terms are a mixed bag (detox and redox-related responses, biotin biosynthesis, xenobiotic and lipid catabolism, plant development, and signaling regulation) with no clear, cohesive biological theme tying them together. Therefore there is no single representative function for this cluster.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":14},{"id":"GO:0055114","count":14},{"id":"GO:0009102","count":13},{"id":"GO:0019260","count":12},{"id":"GO:0019433","count":12}]},{"hash":"164633115910899962","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1901621","count":4},{"id":"GO:0001707","count":4},{"id":"GO:0071374","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0045956","count":3}]},{"hash":"211230705356481300","title":"Unknown","description":"The top terms span reproductive development, plant hormone/homeostasis, detoxification, and vitamin D biosynthesis, with no clear, single biological theme tying all proteins together. This dispersion makes it hard to assign a precise, cohesive label to the cluster.","confidence":"","size":28,"edges":12,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":22},{"id":"GO:0046232","count":18},{"id":"GO:0031408","count":17},{"id":"GO:0017143","count":17},{"id":"GO:0010268","count":17}]},{"hash":"1387551806615306475","title":"Acetylation of proteins and polyamines","description":"The cluster\u2019s top GO terms are dominated by various acetylation processes, including N-terminal peptidyl-serine acetylation, propionylation, peptidyl-lysine N6-acetylation, and acetylation of polyamines such as putrescine, spermidine, and spermine (and their catabolism). This points to a coherent theme of acetylation-based regulation of protein function and small-molecule metabolism, with some chromatin-related terms (subtelomeric heterochromatin formation, centromeric cohesion) suggesting a chromatin-context aspect influenced by acetylation. The presence of an outlier like angiogenesis does not overturn the central acetylation signal. Overall, the cluster seems best described by acetylation-focused regulation of proteins and polyamines, possibly extending to chromatin dynamics.","confidence":"High","size":28,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":7},{"id":"GO:0017198","count":6},{"id":"GO:0032920","count":6},{"id":"GO:0071962","count":6},{"id":"GO:0032919","count":6}]},{"hash":"1865027023174364293","title":"Ubiquitin-Proteasome Regulation and Stress Response","description":"These proteins cluster around ubiquitin-dependent proteolysis (positive regulation of polyubiquitination; SCF-dependent proteasomal ubiquitin-dependent degradation) and stress- and cell-cycle\u2013related signaling (oxidative stress response, cadmium/methylmercury responses, G1 DNA damage checkpoint, G1/S transcription), with a note of circadian rhythm regulation. The common thread appears to be protein turnover control linked to stress and cell-cycle regulation, making this a proteostasis/stress-response module with cell-cycle links.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":1},{"id":"GO:0030174","count":1},{"id":"GO:0042752","count":1},{"id":"GO:0031146","count":1},{"id":"GO:1903378","count":1}]},{"hash":"296507352428598648","title":"Ubiquitin-Proteasome Regulation with Circadian and Stress Response","description":"The cluster is enriched for ubiquitination and proteasomal degradation terms (positive regulation of polyubiquitination; SCF-dependent proteasomal ubiquitin-dependent protein catabolic process), plus regulation of circadian rhythm and stress-response pathways (cadmium and methylmercury exposure, oxidative stress-related neuronal signaling). This points to a cohesive theme centered on proteostasis via ubiquitin-proteasome pathways, intertwined with circadian control and cellular stress responses, justifying the label.","confidence":"Medium","size":28,"edges":13,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":7},{"id":"GO:0030174","count":7},{"id":"GO:0042752","count":7},{"id":"GO:0031146","count":7},{"id":"GO:1903378","count":7}]},{"hash":"582834704015336578","title":"Immune signaling and apoptosis regulators","description":"The GO terms cluster around regulation of apoptosis, immune signaling (TNF, RIG-I), and ubiquitin-dependent proteolysis, plus V(D)J recombination, suggesting a set of proteins that modulate immune responses and programmed cell death.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042981","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0033209","count":1},{"id":"GO:0070512","count":1},{"id":"GO:0039536","count":1}]},{"hash":"2017199496826874468","title":"Developmental and immune signaling","description":"This cluster\u2019s terms span neuronal and heart development (axon regeneration, neural crest\u2013related heart development), hematopoietic/immune signaling (erythropoietin pathway, IL-4 and GM-CSF production), and broad transcriptional/calcineurin-NFAT regulation, plus cell cycle checkpoint control. The common thread is regulation of signaling and transcription across developmental and immune contexts, rather than a single, cohesive pathway, so the label reflects a broad regulators-of-signaling theme. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":28},{"id":"GO:0007095","count":28},{"id":"GO:0000320","count":28},{"id":"GO:0010954","count":28},{"id":"GO:0038162","count":28}]},{"hash":"1303326875930307150","title":"Unknown","description":"The top terms span immune signaling, development across multiple tissues, plant tropisms, and ubiquitination regulation, with no network connectivity, so there is no coherent shared function to name this cluster beyond Unknown.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0007519","count":4},{"id":"GO:0051092","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0045087","count":3}]},{"hash":"1100361406504657112","title":"Immune and Neural Signaling Pathways","description":"GO terms include B cell receptor signaling, T cell proliferation regulation, IL-12 response, integrin signaling, and erythropoietin signaling, indicating immune signaling pathways. Additional terms relate to axon fasciculation, axon regeneration, and planar polarity, pointing to neural development/guidance signaling. Together, these terms suggest a cluster enriched for signaling processes across immune and nervous system contexts rather than a single pathway.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:0048680","count":1},{"id":"GO:0046641","count":1},{"id":"GO:0008285","count":1},{"id":"GO:0097156","count":1}]},{"hash":"1002976533260084659","title":"Synapse Assembly and Glycosylation","description":"The dominant terms point to synaptic development and function (neuron cell-cell adhesion, postsynaptic membrane assembly, regulation of terminal button organization, acetylcholine catabolic process in the synaptic cleft). Concurrently, dolichol-linked oligosaccharide biosynthetic and GPI anchor biosynthetic processes indicate protein glycosylation pathways essential for membrane proteins and secreted factors that support synaptic architecture. A few terms are less directly connected (pollen tube guidance, iodide transport, glucocorticoid response) but do not override the core synaptic/glycosylation theme.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010183","count":1},{"id":"GO:0006488","count":1},{"id":"GO:0006506","count":1},{"id":"GO:0008285","count":1},{"id":"GO:0007158","count":1}]},{"hash":"271850591809147809","title":"Unknown","description":"The GO terms span immune signaling (memory T cell differentiation regulation and B cell receptor signaling), ubiquitination-related processes, plant tropisms (phototropism, gravitropism), kidney function (renal sodium ion absorption), and a chromosome passenger complex localization term, with some obsolete entries. They do not reveal a single coherent biological theme for this protein cluster, so a label of Unknown is most appropriate.","confidence":"","size":28,"edges":26,"triangles":14,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":2},{"id":"GO:0009958","count":2},{"id":"GO:0045497","count":2},{"id":"GO:0009638","count":2},{"id":"GO:0050853","count":2}]},{"hash":"554683688455462098","title":"Regulatory Signaling and Transcription Control","description":"The dominant GO terms are all regulatory in nature: positive regulation of various signaling and transcriptional processes (cytokine production, erythropoietin signaling, NFAT signaling), along with cell cycle and developmental regulation. Because there isn't a single coherent pathway but a broad set of regulatory functions across contexts, a high-level label that captures \u201cregulatory signaling and transcription control\u201d best represents the cluster.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":28},{"id":"GO:0007095","count":28},{"id":"GO:0000320","count":28},{"id":"GO:0010954","count":28},{"id":"GO:0038162","count":28}]},{"hash":"1047357314380421624","title":"Amino acid and small-molecule transporter cluster","description":"This cluster is dominated by GO terms for transmembrane transport of amino acids and related small molecules (methionine, ornithine, lysine, D-alanine, GABA, polyamines) and by terms related to cell volume/osmoregulation, indicating a cohesive group of plasma membrane transporters; a single NO production term is peripheral and does not define the cluster.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044690","count":1},{"id":"GO:1902269","count":1},{"id":"GO:0035826","count":1},{"id":"GO:0042941","count":1},{"id":"GO:0002537","count":1}]},{"hash":"1456061723550855092","title":"Steroid hormone biosynthesis and retinoid metabolism","description":"The top GO terms cluster around steroid hormone biosynthesis (glucocorticoids, estrogen, C21-steroid metabolism) and retinoid metabolism (retinoic acid, retinol), with accompanying lipid-related processes, indicating a cohesive theme of hormonal and retinoid lipid metabolism.","confidence":"High","size":28,"edges":283,"triangles":1470,"max_degree":26,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0031427","count":27},{"id":"GO:0006704","count":27},{"id":"GO:0046677","count":27},{"id":"GO:0008207","count":27},{"id":"GO:0002138","count":27}]},{"hash":"416643183340246996","title":"Growth and cytoskeletal remodeling","description":"The top GO terms point to actin nucleation (Arp2/3), ribosome biogenesis, cell division, and multicellular development, suggesting a theme of cellular growth and morphogenesis with cytoskeletal dynamics. Metal ion homeostasis terms appear less central to the cluster\u2019s core function. Overall, the cluster seems to group proteins involved in growth and cytoskeleton-related processes.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016539","count":2},{"id":"GO:0034314","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0007275","count":2}]},{"hash":"1926924217345568934","title":"Ubiquitin-Dependent Proteolysis and Signaling","description":"The top GO terms are dominated by ubiquitin-dependent protein catabolic process and regulation of ubiquitination, suggesting the cluster centers on the ubiquitin-proteasome system\u2019s role in protein turnover and signaling (e.g., NF-kappaB, B cell receptor signaling). The inclusion of development-related terms likely reflects ubiquitin pathways\u2019 broad involvement in tissue development, making ubiquitin-mediated regulation the core theme of this cluster.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0031397","count":4},{"id":"GO:0007519","count":4},{"id":"GO:0007399","count":4}]},{"hash":"1929815008156305946","title":"Unknown","description":"The top GO terms cover immune signaling (B cell receptor signaling, germinal center formation), ubiquitination regulation (negative regulation of ubiquitination, K33-linked ubiquitination), kidney development (renal sodium absorption, distal tubule morphogenesis), muscle development (skeletal muscle fiber/tissue development), and circadian rhythm, with no single unifying process linking them. The absence of edges also suggests a lack of functional connectivity among the proteins, so a cohesive functional label isn\u2019t supported. ","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":11},{"id":"GO:0031397","count":9},{"id":"GO:2000312","count":9},{"id":"GO:1990390","count":9},{"id":"GO:0070294","count":9}]},{"hash":"2253730828072770787","title":"Developmental transcriptional regulators","description":"This cluster centers on transcriptional control (DNA-templated transcription and regulation of transcription by RNA polymerase II/III) and includes several developmental morphogenesis terms (otic vesicle formation, lacrimal gland development, atrial septum morphogenesis, embryonic digestive tract morphogenesis) plus regulation of cell proliferation and apoptosis, suggesting proteins that regulate gene expression during development and tissue homeostasis.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0071866","count":1},{"id":"GO:0048557","count":1},{"id":"GO:0060784","count":1},{"id":"GO:0030916","count":1}]},{"hash":"596934305725293584","title":"Unknown","description":"These proteins touch on immune signaling (B cell receptor signaling, germinal center formation), membrane maintenance (plasma membrane repair), ubiquitination regulation (negative regulation of ubiquitination, K33-linked ubiquitination), and tissue-specific processes (kidney function, circadian rhythm, muscle development). The top GO terms span diverse, seemingly unrelated pathways rather than a single coherent function or pathway, so a specific, representative label isn\u2019t supported. ","confidence":"","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"autophagy","top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0001778","count":5},{"id":"GO:0031397","count":4},{"id":"GO:2000312","count":4},{"id":"GO:1990390","count":4}]},{"hash":"1468872055657198768","title":"ER protein quality control and ubiquitin-mediated degradation","description":"The terms cluster around ERAD/ubiquitination, aggresome assembly, and autophagy/ER stress regulation, all indicating ER proteostasis and clearance of misfolded proteins; tail-anchored membrane protein insertion into ER supports this ER-centered handling theme.","confidence":"High","size":27,"edges":349,"triangles":2875,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":14},{"id":"GO:0051865","count":13},{"id":"GO:1901340","count":12},{"id":"GO:1901097","count":12},{"id":"GO:0000753","count":12}]},{"hash":"1377032174668482699","title":"Erythroid and Megakaryocyte Differentiation Regulators","description":"The strongest terms express positive regulation of megakaryocyte differentiation, regulation of primitive erythrocyte differentiation, and positive regulation of erythrocyte differentiation, consistent with a hematopoietic lineage differentiation program. Supporting terms include chromatin remodeling and DNA methylation, often linked to lineage commitment; other terms suggest broader metabolic roles. Overall, the cluster appears enriched for proteins involved in blood cell differentiation, particularly erythroid/megakaryocyte pathways.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045654","count":8},{"id":"GO:0055114","count":8},{"id":"GO:0043046","count":7},{"id":"GO:0010725","count":6},{"id":"GO:0045648","count":6}]},{"hash":"483204977103924422","title":"Oxidative Stress Response and Regeneration","description":"The top GO terms are dominated by detoxification and redox-related processes (cellular oxidant detoxification, redox homeostasis, glutathione metabolism, toxin catabolic process, detoxification of nitrogen compounds), with additional signals for prostaglandin biosynthesis, calcium signaling, cell cycle regulation, and animal organ regeneration. This pattern suggests a cohesive cluster centered on oxidative stress management and detoxification, with associated pathways linking to inflammation and tissue repair/regeneration.","confidence":"Medium","size":27,"edges":282,"triangles":2012,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":23},{"id":"GO:0045454","count":22},{"id":"GO:0031100","count":21},{"id":"GO:0009636","count":21},{"id":"GO:0070458","count":21}]},{"hash":"1166906414336204176","title":"Unknown","description":"There is no single coherent function tying these GO terms together; they span lipid signaling (oxylipin), xenobiotic and metal responses (insecticide metabolism, copper ion response), plant and animal hormone/biosynthesis (brassinosteroid, calcitriol), reproductive development (maternal process in parturition, prostate growth), and general metabolic regulation (methylation, oxidative/deethylation). This heterogeneity suggests no clear cluster-specific function.","confidence":"","size":27,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0031408","count":2},{"id":"GO:0017143","count":2},{"id":"GO:0010268","count":2},{"id":"GO:0071280","count":2},{"id":"GO:0060137","count":2}]},{"hash":"451613045301749146","title":"Transcriptional Regulation and Development","description":"These proteins appear to cluster around controlling gene expression and developmental processes. The top GO terms are centered on DNA-templated transcription and negative regulation of transcription by RNA polymerase II, with supporting terms related to gene expression regulation, growth, and multicellular development (e.g., cerebral cortex development, centrosome cycle). The combination suggests a group of transcriptional regulators that influence cell growth and organism development. The network metrics (Edges: 1, Max Degree: 1) imply sparse direct interactions in the data, but the functional theme remains centered on transcriptional control and development.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0046826","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0007098","count":2}]},{"hash":"2083616328058052458","title":"Methylation-linked biosynthesis pathways","description":"The top GO terms cluster around biosynthetic processes (antibiotic, polyamine, cobalamin) and multiple methylation/modification events (peptidyl-arginine methylation, N-terminal trimethylation, mRNA capping, histone methylation), suggesting a theme of methylation-linked biosynthetic and gene-expression modification activities.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":13},{"id":"GO:0090398","count":11},{"id":"GO:0006596","count":11},{"id":"GO:0009236","count":11},{"id":"GO:0019919","count":11}]},{"hash":"122778064195071575","title":"Developmental Stress Response and Apoptosis","description":"These proteins cluster around transcriptional control, developmental signaling, and cell fate decisions under stress. Terms include DNA-templated transcription, forebrain development, regulation of Wnt signaling, and both pro- and anti-apoptotic pathways (including ER-stress\u2013 and DNA-damage\u2013related apoptosis), with additional links to stress responses (cadmium, glucose limitation) and immune defense. The common thread is transcriptional regulation and signaling that govern development and stress-induced cell fate changes, justifying a Developmental Stress Response and Apoptosis label.","confidence":"Medium","size":27,"edges":18,"triangles":3,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0030900","count":8},{"id":"GO:0090090","count":8},{"id":"GO:0043065","count":8},{"id":"GO:0050830","count":8}]},{"hash":"2184811897828506560","title":"Developmental signaling and cell cycle regulation","description":"The top GO terms point to signaling roles in development across diverse systems (B cell signaling, germinal center formation, nervous and skeletal muscle development, plant flowering and brassinosteroid signaling) and a cell-cycle related term (chromosome passenger complex localization to spindle midzone). This suggests the cluster groups proteins involved in general developmental signaling with coordination of cell division rather than a single tissue-specific pathway.","confidence":"Medium","size":27,"edges":26,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":15},{"id":"GO:0042752","count":14},{"id":"GO:0009911","count":14},{"id":"GO:0002467","count":14},{"id":"GO:0009742","count":14}]},{"hash":"915829266430353020","title":"RNA processing and translation regulation","description":"The top GO terms cluster around post-transcriptional control: regulation of mRNA stability in response to stress, regulation and initiation of translation (including IRES-dependent and translation reinitiation), miRNA-mediated translational silencing, and mRNA splicing via the spliceosome. This combination points to a cohesive theme of RNA processing and control of gene expression at the translational level, potentially involving both nuclear splicing factors and cytoplasmic translation regulators, with some hints of stress-responsive and viral translation contexts. ","confidence":"High","size":27,"edges":34,"triangles":44,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":10},{"id":"GO:0006446","count":8},{"id":"GO:0075522","count":8},{"id":"GO:0075525","count":8},{"id":"GO:0002188","count":8}]},{"hash":"1999826176550195887","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":31,"triangles":8,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0034729","count":8},{"id":"GO:0051568","count":8},{"id":"GO:0000466","count":7},{"id":"GO:0000398","count":7}]},{"hash":"562149554605497450","title":"Unknown","description":"The top GO terms span both animal developmental and neural response terms (retina development, response to morphine) and a set of bacterial biosynthetic processes (peptidoglycan, LPS, H2S, FAD, ADP-L-glycero...), with no single unifying function. This cross-kingdom mix suggests there isn't a coherent, representative biological theme for the cluster, so a specific label cannot be assigned beyond Unknown.","confidence":"","size":27,"edges":62,"triangles":62,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":3},{"id":"GO:0043278","count":3},{"id":"GO:0070814","count":3},{"id":"GO:0097171","count":3},{"id":"GO:0006747","count":3}]},{"hash":"1788595193092140186","title":"Metabolism and chromatin remodeling cluster","description":"The top GO terms span diverse metabolic processes (formaldehyde catabolism, fatty acid biosynthesis/omega-oxidation, retinol metabolism, fructose biosynthesis) and a separate chromatin remodeling term, suggesting proteins with metabolic roles that may also influence chromatin state. This combination points to a broader theme of metabolic regulation intersecting with chromatin dynamics rather than a single, cohesive pathway, justifying a label centered on both metabolism and chromatin remodeling.","confidence":"Medium","size":27,"edges":17,"triangles":5,"max_degree":11,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0046294","count":6},{"id":"GO:0043044","count":5},{"id":"GO:0019518","count":4},{"id":"GO:0046370","count":4},{"id":"GO:0006116","count":4}]},{"hash":"1158032982039390184","title":"Unknown","description":"The top GO terms span immunology, cell division localization, ubiquitination regulation, a tRNA wybutosine biosynthesis pathway, protein oligomerization, kidney tubule function, and viral latency\u2014very diverse functions with no clear common theme. The network has almost no connectivity (one edge, zero triangles), suggesting the proteins do not share a cohesive biological process. Therefore the cluster is best labeled Unknown with None confidence.","confidence":"","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":12},{"id":"GO:0035853","count":12},{"id":"GO:0031397","count":12},{"id":"GO:2000312","count":12},{"id":"GO:0051260","count":12}]},{"hash":"2162263337313649829","title":"Immune signaling and cytoskeleton dynamics","description":"The top GO terms cluster around actin cortex/cytoskeleton assembly, endocytosis, and receptor-mediated signaling (integrin and Fc receptor pathways), plus interleukin-4 production, pointing to cytoskeleton remodeling coupled with immune signaling. Additional terms for ribosome biogenesis, telomerase assembly, and apoptosis suggest broader housekeeping and turnover in proliferating cells, but the strongest signal is immune-receptor\u2013driven cytoskeletal dynamics.","confidence":"Medium","size":27,"edges":51,"triangles":0,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0000147","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0042254","count":2},{"id":"GO:1905323","count":2},{"id":"GO:0006897","count":2}]},{"hash":"2236074840089830394","title":"B cell signaling and DNA repair","description":"This cluster centers on B cell biology and DNA damage response, with GO terms for B cell receptor signaling, somatic hypermutation of immunoglobulin genes, gamma radiation response, and DNA repair pathways (base-excision and nucleotide-excision repair). The co-occurrence of immune signaling and DNA repair processes suggests proteins involved in antibody diversification and DNA processing during B cell activation, with some broader growth/DNA synthesis terms reflecting general cellular activity.","confidence":"Medium","size":27,"edges":50,"triangles":27,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":3},{"id":"GO:0050853","count":3},{"id":"GO:1904431","count":3},{"id":"GO:0006297","count":3},{"id":"GO:0010332","count":3}]},{"hash":"2039098203582345023","title":"Germline Development and Meiosis","description":"This cluster centers on germline-related processes: meiotic cell cycle, germarium-derived germ-line cyst encapsulation, and stem cell population maintenance in the germline, with karyogamy indicating sexual reproduction. Some RNA-processing terms (e.g., primary miRNA processing, RNA editing) may reflect germline post-transcriptional regulation, but the dominant theme is germline development and meiosis.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061157","count":1},{"id":"GO:0051321","count":1},{"id":"GO:0030708","count":1},{"id":"GO:0019827","count":1},{"id":"GO:0007329","count":1}]},{"hash":"2018168651557005990","title":"DNA Damage Response and Cell Cycle Control","description":"Most top GO terms cluster around mitotic checkpoints and DNA damage signaling (G1 and G2 checkpoints), re-entry into mitosis, and regulation of cell proliferation and ubiquitin ligase activity during mitosis, indicating a cohesive theme of DNA damage response and cell cycle control under stress (cadmium exposure). Some terms for cytokine signaling appear as broader signaling roles but do not override the primary theme.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0071276","count":14},{"id":"GO:0031571","count":14},{"id":"GO:0051436","count":10},{"id":"GO:0008285","count":10},{"id":"GO:0048680","count":9}]},{"hash":"1217354815310448115","title":"Stress Response and Cell Cycle Regulation","description":"The cluster shows a mix of stress-related GO terms (cellular response to cadmium ion, unfolded protein response, chaperone-associated folding) and cell cycle stuff (mitotic cell cycle, positive regulation of mitotic metaphase/anaphase transition, cell division), suggesting proteins tied to stress responses that intersect with cell division control. Some terms like photosynthesis or dopamine response appear less connected and may reflect broader or genome-wide annotations. Overall, the dominant theme centers on stress response alongside cell cycle regulation.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071276","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0045842","count":3},{"id":"GO:0051301","count":3}]},{"hash":"70058929271556729","title":"Unknown","description":"This cluster mixes immune-related processes (B cell receptor signaling, germinal center formation) with ubiquitination and diverse developmental pathways (kidney tubule morphogenesis, circadian rhythm, and skeletal muscle development), suggesting a non-cohesive, multisystem set rather than a single functional module.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:0031397","count":2},{"id":"GO:2000312","count":2},{"id":"GO:1990390","count":2},{"id":"GO:0070294","count":2}]},{"hash":"2105747487322373950","title":"Neural development and neuron maturation","description":"Most top GO terms point to neural development and maturation, including positive regulation of neural precursor cell proliferation, neuron projection extension, and neuron maturation, suggesting the cluster may be enriched for proteins involved in neural differentiation and maturation. Some terms are unrelated or broad (e.g., regulation of histone deacetylation, replication fork regulation), which lowers confidence somewhat but does not negate the neural-development theme.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031063","count":2},{"id":"GO:0050768","count":1},{"id":"GO:0010725","count":1},{"id":"GO:2000179","count":1},{"id":"GO:0031496","count":1}]},{"hash":"1984884610902694931","title":"NMJ assembly and skeletal muscle development","description":"This cluster is characterized by terms related to neuromuscular junction development and skeletal muscle tissue development, including acetylcholine-gated channel clustering and NMJ formation, supported by cytoskeletal modification terms (tubulin deacetylation) and related signaling processes. A few terms such as B cell receptor signaling and pheromone maturation appear less connected and may reflect annotation noise or cross-species annotations, but the dominant themes point to neuromuscular junction assembly and muscle development.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:0007519","count":2},{"id":"GO:0007323","count":1},{"id":"GO:0071340","count":1},{"id":"GO:0051770","count":1}]},{"hash":"1619305178200259532","title":"Developmental transcription factors for organogenesis","description":"These proteins are enriched for transcription-related activity (DNA-templated transcription) and key organ development processes (heart and forebrain development, myoblast fusion, multicellular organism development). The convergence on regulation of gene expression during development and muscle/heart formation suggests they function as developmental transcription regulators coordinating organogenesis, despite a few outlier terms.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0007275","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0030900","count":5},{"id":"GO:0007520","count":5}]},{"hash":"1536706516322121381","title":"RNA processing and translation initiation","description":"This cluster centers on post-transcriptional RNA metabolism\u2014mRNA splicing/spliceosome recognition, mRNA export, and eIF4F-mediated translation initiation\u2014along with miRNA-mediated translational silencing and IRES-driven initiation, indicating proteins involved in RNA processing and regulation of translation.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035278","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0075522","count":1},{"id":"GO:0048026","count":1},{"id":"GO:1903586","count":1}]},{"hash":"442609238834604387","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900625","count":1},{"id":"GO:0009444","count":1},{"id":"GO:0038097","count":1},{"id":"GO:0060005","count":1},{"id":"GO:0032765","count":1}]},{"hash":"611264637645241668","title":"Embryonic morphogenesis and transcription regulation","description":"This cluster centers on developmental processes across multiple embryonic tissues (otic vesicle, lacrimal gland, atrial septum morphogenesis, digestive tract morphogenesis) and on regulation of transcription by RNA polymerases II and III. The occasional mentions of apoptotic regulation align with developmental control of cell survival, supporting a theme of morphogenesis with transcriptional governance.","confidence":"Medium","size":27,"edges":26,"triangles":0,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0071866","count":1},{"id":"GO:0048557","count":1},{"id":"GO:0060784","count":1},{"id":"GO:0030916","count":1},{"id":"GO:0001195","count":1}]},{"hash":"1179312833731822283","title":"Metabolic Signaling and Tissue Remodeling","description":"The top GO terms point to metabolic signaling (macrophage foam cell differentiation; adiponectin-activated signaling) and lipid-related biosynthesis, alongside chromatin remodeling and cellular remodeling processes (endothelial tube morphogenesis; liver regeneration). Phosphorylation events (peptidyl-threonine/serine phosphorylation) further suggest dynamic regulation. Together these hints imply a cluster of proteins involved in metabolic signaling that interfaces with gene expression control and tissue remodeling, rather than a single narrow function. Given the diversity of terms, the label captures the broad theme without overcommitting to a single pathway.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010742","count":2},{"id":"GO:0035948","count":2},{"id":"GO:0043044","count":2},{"id":"GO:0033211","count":1},{"id":"GO:0018107","count":1}]},{"hash":"646880376506664879","title":"ER-Golgi trafficking and ER stress response","description":"These proteins cluster around the secretory pathway: transport from ER to Golgi and the cellular response to unfolded proteins, with an emphasis on vesicle budding. The anthocyanin/cyanidin biosynthesis terms hint at plant-specific pigment metabolism that may involve secretory compartments, but the core signal is vesicular trafficking and ER quality control.","confidence":"Medium","size":27,"edges":64,"triangles":31,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0006986","count":2},{"id":"GO:0007114","count":2},{"id":"GO:0070980","count":1},{"id":"GO:0006711","count":1}]},{"hash":"1515869394571128837","title":"RNA processing and RNA interference machinery","description":"The cluster is dominated by RNA-centric processes: rRNA and tRNA processing, snoRNA processing, miRNA metabolism, and RNAi-related antiviral immunity, indicating cohesive roles in RNA maturation and RNA silencing pathways. ","confidence":"High","size":27,"edges":350,"triangles":2900,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0090502","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0045589","count":2},{"id":"GO:0010586","count":2},{"id":"GO:0033168","count":2}]},{"hash":"1880035681383542028","title":"Neuroimmune Signaling and Synapse Morphogenesis","description":"The terms span immune signaling (interleukin-4 production, T cell receptor signaling, Fc receptor signaling) and neuronal/synaptic pathways (dendritic spine morphogenesis, neurotrophin TRK signaling, Wnt signaling). This pattern suggests a neuroimmune signaling theme influencing synapse development. Confidence: Medium","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010954","count":2},{"id":"GO:0032633","count":2},{"id":"GO:0007229","count":2},{"id":"GO:2000251","count":2},{"id":"GO:0060997","count":2}]},{"hash":"1603289177171384950","title":"Immune signaling and nervous system development","description":"This cluster shows enrichment for immune-related GO terms (B cell receptor signaling, defense response to Gram-positive bacteria, LPS signaling, interferon-beta production) as well as neural development and function terms (nervous system development, corpus callosum development, dopamine response, pain behavior). The proteins appear to be linked to both immune signaling pathways and neural development/function, suggesting a multisystem role. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0007519","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0022038","count":3},{"id":"GO:0050830","count":3}]},{"hash":"1032046661681870636","title":"Ubiquitin-Dependent Protein Degradation","description":"The top GO terms are dominated by ubiquitin-related processes: ubiquitin-dependent protein catabolic process, negative regulation of protein ubiquitination, and K33-linked ubiquitination, indicating a central theme of ubiquitin-mediated protein modification and turnover. A few terms (gravitropism, phototropism, certain development and signaling terms) appear unrelated and may reflect annotation noise or multi-function proteins. Overall, the cluster seems best described by ubiquitin-dependent protein degradation/regulation.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0043380","count":4},{"id":"GO:0009958","count":4},{"id":"GO:0045497","count":4},{"id":"GO:0009638","count":4}]},{"hash":"2275924599606990300","title":"Ubiquitin-regulated immune signaling","description":"The cluster shows strong enrichment for protein ubiquitination and its regulation, together with immune-related signaling (defense against Gram-positive bacteria, B cell receptor signaling, and interferon-beta production), suggesting roles in ubiquitin-mediated control of immune pathways. While development and GPCR signaling are present, the dominant theme is ubiquitination-linked immune signaling.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0007519","count":3}]},{"hash":"1881185396602054650","title":"Unknown","description":"The listed GO terms span highly diverse processes: immune signaling (B cell receptor signaling), endocrine signaling (growth hormone receptor signaling; renin secretion), development (skeletal muscle fiber development; zygotic axis determination), cellular processes (receptor-mediated endocytosis; protein catabolic process in the vacuole), sporulation, and pheromone maturation. With no shared narrow function or pathway tying these terms together, and no edges in the cluster, there isn't a coherent biological theme. Therefore the cluster is best labeled Unknown.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:0060396","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0007354","count":1},{"id":"GO:0007323","count":1}]},{"hash":"2076498181114143198","title":"Unknown","description":"Top GO terms are highly diverse (negative regulation of protein ubiquitination; RNA polymerase II transcription; B cell receptor signaling; memory T cell differentiation; gravitropism/phototropism; kainate receptor activity; protein K33-linked ubiquitination; renal sodium absorption), suggesting no cohesive function characterizes this cluster.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031397","count":3},{"id":"GO:0006366","count":2},{"id":"GO:0043380","count":2},{"id":"GO:0009958","count":2},{"id":"GO:0045497","count":2}]},{"hash":"1024688562745865911","title":"Cell signaling, transcription, and membrane transport","description":"The terms suggest involvement in multiple regulatory processes: signaling pathways (mitotic checkpoint signaling, Wnt regulation, B cell receptor signaling), transcriptional control (DNA-templated transcription), development (skeletal muscle), and several membrane transport activities (potassium, nitrate, phosphate). This points to a broad regulatory hub rather than a single, cohesive function, justifying a label that captures signaling, transcription, and transport aspects. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007095","count":2},{"id":"GO:0090090","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0007519","count":2}]},{"hash":"946412808579400054","title":"Unknown","description":"No common GO terms or network connections are evident for this cluster; the Top Terms field is empty and there are no edges or triangles. Only one protein was re-added by ReCIPE, indicating little clustering signal to infer a function.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1903850520369879861","title":"Unknown","description":"The top GO terms are scattered across immune signaling (B cell receptor pathway), oxidative stress regulation, neuronal death regulation, phosphorylation regulation, and even plant tropisms, with no single cohesive biological theme linking all 27 proteins. The graph has no edges or triangles, indicating a lack of a shared pathway or interaction pattern among the proteins. Therefore, there isn\u2019t a clear, representative function to name this cluster beyond Unknown.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0071447","count":3},{"id":"GO:1902083","count":3},{"id":"GO:1903204","count":3},{"id":"GO:0033138","count":3}]},{"hash":"169618299195435423","title":"Unknown","description":"Top terms are a mix of immune signaling, ubiquitination, plant tropisms, and kidney development, with one likely erroneous term. The disparate GO terms do not point to a single cohesive biological function or process for this cluster, so a specific label cannot be justified beyond Unknown.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0043380","count":6},{"id":"GO:0009958","count":6},{"id":"GO:0045497","count":6},{"id":"GO:0009638","count":6},{"id":"GO:0050853","count":6}]},{"hash":"1547077463548278819","title":"Neural differentiation and axon guidance","description":"Clustering shows a coherent theme around neural development, including oligodendrocyte differentiation, motor neuron axon fasciculation, axon regeneration, and planar polarity establishment, with Wnt signaling regulation supporting neural patterning. A few immune-related terms appear but are secondary to the neural development signals, suggesting the core function is neural differentiation and axon guidance.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0090090","count":2},{"id":"GO:0048709","count":2},{"id":"GO:0048680","count":2},{"id":"GO:0046641","count":2}]},{"hash":"2171347639015164146","title":"Neural Development and Embryogenesis","description":"This cluster is enriched for neural and broader embryonic development terms (forebrain development, neural tube closure, skeletal system development, multicellular organism development) and for DNA-templated transcription, suggesting a group of transcriptionally active proteins driving developmental programs. Some terms point to stress responses and apoptosis (ER stress, cadmium response, intrinsic apoptotic signaling), but the dominant signal is developmental regulation in neural/embryonic contexts.","confidence":"Medium","size":26,"edges":8,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0001501","count":10},{"id":"GO:0000278","count":10},{"id":"GO:0050830","count":9},{"id":"GO:0030900","count":9}]},{"hash":"405404429367065567","title":"Unknown","description":"The top terms span immune signaling, muscle development, plant growth responses, ubiquitination, and renal transport, with no cohesive shared function or interaction pattern seen (edges are absent), so a single representative label isn\u2019t supported.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":11},{"id":"GO:0007519","count":9},{"id":"GO:0043380","count":7},{"id":"GO:0009958","count":7},{"id":"GO:0045497","count":7}]},{"hash":"1022734395197500391","title":"Developmental transcription and epigenetic regulation","description":"The prominent terms point to transcriptional activity (DNA-templated transcription; negative regulation of RNA Pol II) and methylation-based regulation (rRNA methylation; peptidyl-lysine dimethylation). Developmental processes such as atrial septum morphogenesis and endodermal fate determination, along with IL-4\u2013responsive signaling and lens proliferation, suggest these proteins function in gene expression regulation during development. Therefore the cluster is best described as developmental transcriptional and epigenetic regulation.","confidence":"Medium","size":26,"edges":170,"triangles":491,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071353","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0031167","count":5},{"id":"GO:0018027","count":5},{"id":"GO:0003290","count":4}]},{"hash":"156259058748486602","title":"Pyrimidine nucleotide salvage","description":"The cluster's top terms center on salvage of pyrimidine nucleotides (CMP, UMP, CTP salvage) and pyrimidine nucleobase metabolism, suggesting a core metabolic theme. CoA biosynthesis also appears, indicating broader metabolism but the strongest signal is nucleotide salvage. A few terms (retina vasculature development, histamine transport, axonogenesis regulation) are likely outliers or annotation noise. Overall, the label captures the primary shared function.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0050771","count":3},{"id":"GO:0016310","count":3},{"id":"GO:0061298","count":3},{"id":"GO:0006238","count":2}]},{"hash":"1759021084831434714","title":"CNS axon guidance and synaptogenesis","description":"The cluster shows multiple GO terms centered on neural development and synaptic processes, including axon guidance/axonogenesis (retinal ganglion and CNS projection neurons), corpus callosum development, dendritic spine morphogenesis, and trans-synaptic signaling, indicating coherent involvement in CNS neural wiring and synapse formation. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":2},{"id":"GO:0022038","count":2},{"id":"GO:0020021","count":2},{"id":"GO:0031290","count":2},{"id":"GO:0070374","count":2}]},{"hash":"1572589825248205036","title":"Calcium signaling and cytoskeletal dynamics","description":"The terms point to calcium-dependent adhesion and signaling, autophosphorylation and its regulation, and cytoskeletal remodeling (myosin II filament disassembly). Growth factor responses (prolactin, BDNF) and stress-related processes (anoxia, necroptosis) suggest a module where signal transduction interfaces with cytoskeletal control and cell\u2013matrix interactions, potentially in neuronal or muscle contexts. Magnesium ion homeostasis is a supportive background factor for signaling. Overall, a coherent theme of signaling coupled to cytoskeletal dynamics emerges. ","confidence":"Medium","size":26,"edges":11,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0010961","count":2},{"id":"GO:1990637","count":2},{"id":"GO:0016340","count":2},{"id":"GO:1990416","count":2},{"id":"GO:0051262","count":2}]},{"hash":"1329868148503123330","title":"Collagen-ECM Biosynthesis and Development","description":"Many terms converge on collagen production and extracellular matrix organization (collagen biosynthetic process, collagen fibril organization, cuticle development involving collagen), plus tissue morphogenesis (endodermal differentiation, tendon development, podocyte development, lymphangiogenesis). This suggests a cohesive theme of ECM construction guiding developmental processes, with a few outliers like complement activation that seem less central. ","confidence":"High","size":26,"edges":23,"triangles":1,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":1},{"id":"GO:0051873","count":1},{"id":"GO:0030199","count":1},{"id":"GO:0001867","count":1},{"id":"GO:0035989","count":1}]},{"hash":"1275338786746494768","title":"Developmental signaling and transcription regulation","description":"This cluster centers on regulatory processes across development and signaling, including axon regeneration, cell-cycle checkpoints, transcriptional regulation, and immune- and hematopoietic-related signaling. The GO terms point to a broad set of regulatory proteins coordinating signaling cascades and gene expression in diverse contexts (development, immune responses, and cell cycle). The connection is plausible but not tightly specific to one pathway, hence a medium confidence label.","confidence":"Medium","size":26,"edges":240,"triangles":1049,"max_degree":24,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":26},{"id":"GO:0007095","count":26},{"id":"GO:0000320","count":26},{"id":"GO:0010954","count":26},{"id":"GO:0038162","count":26}]},{"hash":"2073580273682488833","title":"Ubiquitin-Proteasome-Mediated Protein Degradation","description":"This cluster is dominated by GO terms describing ubiquitin-dependent protein catabolic processes, including SCF-dependent ubiquitination, ubiquitin-linked degradation via ERAD, and autoubiquitination, pointing to a core proteostasis module. A few terms such as TNF signaling and photomorphogenesis appear context-specific, but the shared theme is tagging substrates for proteasomal degradation and turnover.","confidence":"High","size":26,"edges":76,"triangles":92,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":4},{"id":"GO:0030433","count":3},{"id":"GO:0070911","count":3},{"id":"GO:0070979","count":3},{"id":"GO:0042787","count":3}]},{"hash":"2285186412056049539","title":"Methylation and Ribosome Biogenesis","description":"The top GO terms are dominated by methylation-related processes (rRNA methylation, peptidyl-lysine methylation, peptidyl-arginine methylation, and mRNA capping) along with ribosome biogenesis. This points to a shared theme of RNA/protein modification and assembly of the translational machinery. While other terms pertain to broader biosynthetic pathways, the strongest cohesive signal in the cluster is methylation-linked ribosome biogenesis.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0031167","count":2},{"id":"GO:0036068","count":2},{"id":"GO:0018026","count":2},{"id":"GO:0009236","count":2}]},{"hash":"446857553242717110","title":"Cell cycle control and transcription regulation","description":"These proteins show enrichment for mitotic cell cycle, cell division, regulation of DNA-templated transcription, and telomerase holoenzyme complex assembly, pointing to a core function in coordinating cell division with gene expression. Additional terms such as cellular response to xenobiotic stimulus, sporulation, and trabecula morphogenesis appear at lower frequencies, suggesting secondary or context-specific roles rather than a single dominant theme.","confidence":"Medium","size":26,"edges":7,"triangles":0,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035690","count":4},{"id":"GO:0006355","count":3},{"id":"GO:0051291","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1525071865981920865","title":"Developmental Morphogenesis and Transcription Regulation","description":"The GO terms include embryonic morphogenesis in multiple organs (digestive tract, atrial septum, lacrimal gland, otic vesicle) and regulation of transcription by RNA polymerase II/III, along with apoptosis control. This points to a broad theme of developmental regulation intertwined with transcriptional control across tissues, rather than a single cohesive pathway, justifying a general but specific-enough label.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071866","count":1},{"id":"GO:0048557","count":1},{"id":"GO:0060784","count":1},{"id":"GO:0030916","count":1},{"id":"GO:0001195","count":1}]},{"hash":"425519212554563394","title":"Antiviral Interferon Response and dsRNA Sensing","description":"The top GO terms point to innate antiviral defenses, especially type I interferon response and dsRNA sensing, with innate immune activity and virus-related defense regulation. Some terms (RNA Pol III transcription, protein trimerization) fit into the mechanistic pathway leading to interferon signaling, reinforcing a cohesive antiviral innate-immunity theme, despite a few outliers. ","confidence":"Medium","size":26,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":3},{"id":"GO:0039573","count":2},{"id":"GO:0071357","count":2},{"id":"GO:0070206","count":1},{"id":"GO:0001041","count":1}]},{"hash":"869530000852850554","title":"Cytokine signaling and hematopoietic regulation","description":"The top GO terms center on regulation and production of immune- and blood-related signals (negative regulation of neutrophil activation; IL-4 production; GM-CSF production; erythropoietin signaling), pointing to immune regulation and hematopoietic processes. Additional terms about axon regeneration and heart development suggest broader growth-factor signaling in development, but the strongest theme is cytokine signaling and hematopoietic regulation. Confidence: Medium","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:1902564","count":26},{"id":"GO:0048680","count":17},{"id":"GO:0007095","count":17},{"id":"GO:0000320","count":17},{"id":"GO:0010954","count":17}]},{"hash":"1967164000323799949","title":"Developmental and immune signaling pathways","description":"This cluster combines growth factor and cytokine signaling (erythropoietin pathway, IL-4 and GM-CSF production) with development-related processes (axon regeneration, cardiac neural crest development) and regulatory controls on transcription and the cell cycle (mitotic G2 checkpoint, re-entry into mitosis, NFAT signaling). The shared theme appears to be regulatory signaling modules that coordinate development, immune responses, and cellular proliferation.","confidence":"Medium","size":26,"edges":7,"triangles":0,"max_degree":6,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":26},{"id":"GO:0007095","count":26},{"id":"GO:0000320","count":26},{"id":"GO:0010954","count":26},{"id":"GO:0038162","count":26}]},{"hash":"425986259291345334","title":"Ubiquitin-Proteasome Regulation and Stress Response","description":"Proteostasis and stress-response cluster dominated by ubiquitination and proteasome pathways, with secondary links to DNA damage control, circadian regulation, and neuronal stress. The prominent GO terms\u2014positive regulation of polyubiquitination, SCF-dependent proteasomal ubiquitin-dependent protein catabolic process\u2014point to a core ubiquitin\u2013proteasome system module. Additional terms for circadian rhythm regulation and mitotic DNA damage checkpoint signaling suggest coordination between cell cycle, timing, and stress responses. The presence of cellular responses to cadmium and methylmercury, as well as oxidative stress\u2013induced neuronal apoptotic signaling and synapse assembly, expands this into neuronal stress signaling and synaptic remodeling context. Overall, the cluster appears to capture proteostasis coupled with cellular stress responses, particularly in neural-related processes.","confidence":"High","size":26,"edges":316,"triangles":2403,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":5},{"id":"GO:0030174","count":5},{"id":"GO:0042752","count":5},{"id":"GO:0031146","count":5},{"id":"GO:1903378","count":5}]},{"hash":"1795274933504953080","title":"Regulated Kinase and GTPase Signaling","description":"The top GO terms converge on signaling regulation\u2014positive regulation of serine/threonine kinase activity and GTPase activity, plus autophosphorylation\u2014indicating a core theme of signaling pathway control. Additional terms point to broader coordination with translation initiation, mitotic spindle assembly, and actin dynamics, suggesting integration of signaling with cell cycle and cytoskeletal regulation, with a developmental signaling context (vulval cell fate). Overall, this cluster appears to group regulatory signaling components rather than a single enzymatic function.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0071902","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0001731","count":2}]},{"hash":"435343899854206309","title":"Methylation and Hydroxylation in Biosynthesis","description":"The top GO terms point to a mix of biosynthetic processes (vitamin E, ubiquinone, cobalamin, sterol, antibiotic biosynthesis) alongside enzymatic modification activities (peptidyl-arginine hydroxylation, arginine methylation, rRNA methylation). This suggests a cluster of proteins involved in both the synthesis of small molecules and post-translational or RNA modifications, supporting a cohesive theme of biosynthesis coupled with molecular modification.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001300","count":4},{"id":"GO:0090398","count":4},{"id":"GO:0010189","count":4},{"id":"GO:0006744","count":4},{"id":"GO:0030961","count":4}]},{"hash":"1556588996404003229","title":"Regulated signaling and development","description":"This cluster centers on regulatory signaling across diverse contexts, including axon regeneration, immune cytokine production (IL-4, GM-CSF), erythropoietin signaling, and developmental processes (cardiac neural crest development, transcription regulation). The presence of cell-cycle regulatory terms (mitotic checkpoints, re-entry into mitosis) further supports a broad theme of signaling control tied to growth, differentiation, and development, rather than a single specific pathway. Confidence: Medium","confidence":"Medium","size":26,"edges":127,"triangles":234,"max_degree":21,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":26},{"id":"GO:0007095","count":26},{"id":"GO:0000320","count":26},{"id":"GO:0010954","count":26},{"id":"GO:0038162","count":26}]},{"hash":"2125026696333156294","title":"Unknown","description":"The terms include vertebrate immune signaling (dendritic cell differentiation, B cell receptor signaling, TLR4 signaling, memory T cell differentiation, neutrophil clearance) but also plant tropism and other unrelated topics (gravitropism, phototropism, skeletal development, ubiquitination regulation, female analia development). This mix shows no single cohesive biological function or pathway linking the cluster, so a specific label isn\u2019t supported. ","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001200","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0034145","count":2},{"id":"GO:0097350","count":2},{"id":"GO:0001501","count":2}]},{"hash":"995600451112984319","title":"RNA Pol II termination and RNA processing","description":"The cluster's top GO terms include termination of RNA polymerase II transcription (poly(A)-coupled and exosome-dependent) and RNA Pol II CTD dephosphorylation, which point to a shared function in transcription termination and RNA processing. Other terms like unfolded protein response and glycogen metabolism are broader or secondary annotations; overall the dominant signal is transcription termination/RNA processing.","confidence":"High","size":26,"edges":209,"triangles":886,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030846","count":7},{"id":"GO:0030847","count":7},{"id":"GO:1905213","count":7},{"id":"GO:0048741","count":7},{"id":"GO:0070940","count":7}]},{"hash":"2124374468392539104","title":"Regulation of signaling and development","description":"The cluster features GO terms across diverse regulatory functions: positive regulation of signaling pathways (erythropoietin signaling, IL-4 and GM-CSF production), transcription and protein processing regulation, axon regeneration, and developmental processes (cardiac neural crest development) plus cell-cycle regulation (G2 checkpoint, re-entry into mitosis). This combination points to a broad set of regulatory roles rather than a single, cohesive pathway, so a general label for regulatory signaling and development fits best. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":26},{"id":"GO:0007095","count":26},{"id":"GO:0000320","count":26},{"id":"GO:0010954","count":26},{"id":"GO:0038162","count":26}]},{"hash":"2114542339512315669","title":"Unknown","description":"This cluster shows a mix of disparate GO terms, including several catabolic processes for nucleotides and cofactors, plus RNA editing/processing and some DNA repair terms. There isn\u2019t a single clear function or pathway unifying these terms, so a precise, representative label isn\u2019t evident.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046067","count":1},{"id":"GO:0015938","count":1},{"id":"GO:2000233","count":1},{"id":"GO:0071544","count":1},{"id":"GO:0006382","count":1}]},{"hash":"981444662325701756","title":"Tyrosine kinase signaling in axon regeneration","description":"This cluster centers on axon growth and guidance, with strong representation of positive regulation of axon regeneration and retinal ganglion cell axon guidance, and multiple tyrosine kinase receptor pathways (KIT, collagen-activated TK signaling) plus downstream STAT phosphorylation. The presence of focal adhesion regulation and related growth factor signaling supports a cohesive theme of tyrosine kinase\u2013mediated neural growth and regeneration, even though some cytokine production terms appear tangential. Overall, the terms cohere around neural growth factor signaling via tyrosine kinases.","confidence":"High","size":26,"edges":8,"triangles":0,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048680","count":10},{"id":"GO:0010954","count":10},{"id":"GO:0038162","count":10},{"id":"GO:0032633","count":10},{"id":"GO:0045425","count":10}]},{"hash":"53470652366373899","title":"Ubiquitin-Proteasome Regulation of Cell Cycle","description":"The cluster is dominated by ubiquitin-dependent processes (ubiquitin-dependent proteasomal degradation and protein polyubiquitination, including SCF-dependent pathways), pointing to protein turnover as the central theme. Additional terms point to regulation of DNA replication initiation and circadian rhythm, suggesting a link between ubiquitination, cell cycle control, and timing. Other terms reflect broader stress responses and synapse-related functions, but the core signal is ubiquitin-mediated regulation of cell cycle-related processes.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0031146","count":6},{"id":"GO:0030174","count":5},{"id":"GO:0042752","count":5},{"id":"GO:0071406","count":5}]},{"hash":"354991257285399810","title":"Neuronal Proteostasis and Stress Response","description":"The cluster is enriched for ubiquitin-mediated protein turnover (protein polyubiquitination, SCF-dependent proteasomal degradation) and DNA damage/checkpoint signaling, along with neuronal stress responses to metals (methylmercury, arsenic) and oxidative stress. The presence of synapse assembly terms suggests a neuronal context where proteostasis and stress signaling intersect with neuronal function. Taken together, these terms point to a coherent theme of neuronal proteostasis linked to stress response and damage signaling.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030174","count":2},{"id":"GO:0042752","count":2},{"id":"GO:0071406","count":2},{"id":"GO:0060386","count":2},{"id":"GO:1902916","count":2}]},{"hash":"1531256844807171414","title":"Chromatin remodeling and genome maintenance","description":"The cluster\u2019s top GO terms cluster around chromatin dynamics and genome stability, including chromatin remodeling, double-strand break repair, regulation of the cell cycle, and centromere/heterochromatin regulation. These points together suggest a theme of chromatin regulation and genome maintenance, even though a couple of terms are peripheral or obsolete. Overall, the dominant signal supports a chromatin/genome stability function. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0048821","count":1},{"id":"GO:0016239","count":1},{"id":"GO:0051726","count":1},{"id":"GO:0006338","count":1}]},{"hash":"1419029609358686391","title":"P-bodies, stress granules, and mRNA decay","description":"The cluster is characterized by GO terms linked to post-transcriptional regulation, including P-body assembly, stress granule assembly, deadenylation-dependent decay, and translational initiation control. This points to a shared role in mRNA processing and turnover rather than signaling or metabolic pathways. Other terms like interleukin-1 response and DNA damage signaling seem peripheral to the core RNA-processing theme.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002091","count":1},{"id":"GO:1900271","count":1},{"id":"GO:0045671","count":1},{"id":"GO:0045947","count":1},{"id":"GO:0071347","count":1}]},{"hash":"1014211380494943480","title":"Chromatin regulation and RNA processing factors","description":"This cluster is enriched for chromatin modification (histone methylation), transcription, RNA processing (splicing), and translation initiation, indicating a cohesive function in gene expression regulation at multiple nuclear steps; some annotations are obsolete or metabolic outliers, but the core theme centers on nuclear gene expression control.","confidence":"Medium","size":25,"edges":17,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0034729","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051568","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0001731","count":2}]},{"hash":"668881381915006182","title":"Developmental and innate immunity with ubiquitin-mediated degradation","description":"The cluster combines developmental processes (multicellular development, skin development, growth) with innate immune defenses (innate immune response, defense against Gram-positive bacteria) and ubiquitin-associated degradation (ubiquitin-dependent ERAD and protein catabolic processes). These recurring themes suggest a module of proteins coordinating development and immune responses, modulated by ubiquitin-mediated proteolysis. Confidence: Medium.","confidence":"","size":25,"edges":8,"triangles":1,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0045087","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0043588","count":4},{"id":"GO:0000278","count":4}]},{"hash":"431457427443510794","title":"Ubiquitin-Regulated Signaling and Development","description":"The cluster shows multiple ubiquitination-related terms (negative regulation of protein ubiquitination, K33-linked ubiquitination, ubiquitin-dependent protein catabolic process) alongside diverse signaling and development terms (B cell receptor signaling, germinal center formation, skeletal muscle development, distal tubule morphogenesis), suggesting a central theme of ubiquitin-mediated regulation affecting immune signaling and tissue development.","confidence":"Medium","size":25,"edges":58,"triangles":6,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0007519","count":5},{"id":"GO:0031397","count":4},{"id":"GO:2000312","count":4},{"id":"GO:1990390","count":4}]},{"hash":"1614326361258233179","title":"Neural development and cell proliferation","description":"This cluster is dominated by neural development terms (forebrain development, neural tube closure, multicellular organism development) along with core cell-cycle and transcriptional processes (DNA replication, DNA-templated transcription, mitotic cell cycle). This combination points to proteins involved in proliferating neural progenitors and developmental gene regulation, with some secondary stress/defense terms appearing but not central to the main theme.","confidence":"High","size":25,"edges":141,"triangles":396,"max_degree":21,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006349","count":8},{"id":"GO:0006260","count":8},{"id":"GO:0050830","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0030900","count":7}]},{"hash":"546272164466974227","title":"ER Targeting and Stress-Response Proteins","description":"Based on the top GO terms, the cluster is enriched for SRP-dependent cotranslational targeting to membranes and related membrane translocation processes, indicating a core role in directing proteins to membranes and the ER. Additional terms point to regulation of ER stress\u2013related apoptotic signaling and cellular stress responses, suggesting these proteins participate in ER homeostasis and stress modulation. Some terms (DNA replication, fungal cell wall biosynthesis) appear divergent, but the prevailing theme centers on membrane targeting and ER-associated quality control.","confidence":"Medium","size":25,"edges":292,"triangles":2127,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":10},{"id":"GO:0006880","count":9},{"id":"GO:0031204","count":9},{"id":"GO:0070389","count":9},{"id":"GO:1903382","count":9}]},{"hash":"45694823407731544","title":"Unknown","description":"The top GO terms are very diverse (immune signaling, ubiquitination, plant tropism, and renal development) with only single-term associations and no shared functional theme among the proteins. There is no coherent, common biological process linking the cluster, so a meaningful label cannot be assigned.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":1},{"id":"GO:0009958","count":1},{"id":"GO:0045497","count":1},{"id":"GO:0009638","count":1},{"id":"GO:0050853","count":1}]},{"hash":"1185183211050694421","title":"Broad-spectrum membrane transporters","description":"This cluster's GO annotations center on transmembrane transport of diverse substrates, including ions (potassium, sodium), nutrients (nitrate, phosphate, arabinose, vitamin), xenobiotics, and even vesicular neurotransmitter loading. The shared theme is membrane transport activity across a wide range of substrates, suggesting a transporter-family cluster rather than a single substrate pathway.","confidence":"High","size":25,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":4},{"id":"GO:0098700","count":4},{"id":"GO:0015706","count":4},{"id":"GO:0035435","count":4},{"id":"GO:0042891","count":4}]},{"hash":"1882636198657976168","title":"Immune-vascular development signaling","description":"The set shows enrichment in immune receptor pathways (T cell and B cell signaling), vascular growth signaling (VEGF receptor signaling and angiogenesis), and development-related processes (corpus callosum development, cranial skeleton morphogenesis). This points to proteins functioning via cell-surface receptor signaling to coordinate neural, vascular, and immune system development. The pollen recognition term may be an annotation artifact, but the core theme remains receptor-mediated signaling in development and immunity.","confidence":"Medium","size":25,"edges":299,"triangles":2277,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0022038","count":6},{"id":"GO:0001525","count":6},{"id":"GO:0050852","count":6},{"id":"GO:0051092","count":6},{"id":"GO:0048544","count":6}]},{"hash":"1364426162825305925","title":"Post-transcriptional RNA processing and translation regulation","description":"This cluster prominently features terms for mRNA splicing via the spliceosome, ncRNA- and miRNA-mediated gene silencing, and multiple steps of translation initiation and reinitiation, including IRES-dependent initiation. The shared theme is coordinated post-transcriptional control of gene expression, at both RNA processing (splicing, stability) and translational levels.","confidence":"High","size":25,"edges":219,"triangles":1016,"max_degree":24,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":17},{"id":"GO:0031047","count":17},{"id":"GO:0010610","count":14},{"id":"GO:1901407","count":13},{"id":"GO:0002188","count":13}]},{"hash":"501869557373791677","title":"Retinoid Metabolism","description":"This cluster is clearly centered on retinoid metabolism, with strong representation of retinol and retinal metabolic processes and regulation of retinoic acid biosynthesis. Additional terms for bile acid catabolism, urine volume regulation, and biosynthesis of ascorbic acid and fructose suggest broader metabolic context, but the retinoid-related terms dominate, indicating a cohesive theme around vitamin A processing and related metabolic regulation.","confidence":"High","size":25,"edges":213,"triangles":1191,"max_degree":24,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0042572","count":20},{"id":"GO:0042574","count":20},{"id":"GO:0055114","count":20},{"id":"GO:0051897","count":19},{"id":"GO:0030573","count":19}]},{"hash":"802446485387420557","title":"Unknown","description":"The top GO terms span DNA replication, mRNA export, centrosome cycle, toxin responses, and broad development/immunity signals without a single cohesive function. This mixture suggests a heterogeneous cluster rather than a defined pathway, so a specific label cannot be confidently assigned.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0046677","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0007098","count":3},{"id":"GO:0050853","count":3}]},{"hash":"1175551453069334939","title":"Transcriptional Regulation and Cytokine Signaling","description":"The cluster is dominated by DNA-templated transcription and multiple terms that regulate transcription, suggesting a core role in gene expression control. Additionally, several GO terms point to cytokine-related signaling and production (e.g., IL-4, GM-CSF, erythropoietin pathways), indicating the proteins may participate in immune/hematopoietic signaling alongside transcriptional regulation. Some cell-cycle and axon-regeneration terms appear, but the strongest shared theme appears to be transcriptional control coupled with cytokine signaling processes.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":22},{"id":"GO:0046826","count":22},{"id":"GO:0048680","count":21},{"id":"GO:0007095","count":21},{"id":"GO:0000320","count":21}]},{"hash":"500040766909480496","title":"Ubiquitin-Dependent Degradation and RNA Processing","description":"These proteins cluster around ubiquitin-dependent degradation pathways (proteasomal, ERAD, MVB/phagolysosome) and RNA processing (spliceosome-mediated splicing, 5.8S rRNA maturation) with nuclear pore localization, suggesting a shared role in protein quality control linked to RNA metabolism and trafficking. An incidental development term appears among the annotations, but the dominant theme is degradation coupled with RNA processing.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0000398","count":3},{"id":"GO:0031081","count":3},{"id":"GO:0001845","count":3},{"id":"GO:0030433","count":3}]},{"hash":"1911451085270956473","title":"Neural development and synapse assembly","description":"The GO terms cluster around neural development and connectivity, including nerve branching morphogenesis, tangential neuronal migration to the olfactory bulb, and synapse assembly in innervation, with related neuronal processes like circadian rhythm regulation and neuron-related stress responses. This suggests the proteins collectively participate in neural development and synaptic organization rather than a single metabolic or immune pathway. Confidence: Medium","confidence":"","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":1},{"id":"GO:1905289","count":1},{"id":"GO:1903215","count":1},{"id":"GO:0030174","count":1},{"id":"GO:0042752","count":1}]},{"hash":"682884173199124792","title":"Ubiquitin-Mediated Proteostasis and Cell Cycle Control","description":"The cluster centers on ubiquitin-proteasome pathways, with multiple terms for polyubiquitination and SCF-dependent proteasomal degradation, pointing to a core role in protein turnover. It also includes regulation of DNA replication initiation and the mitotic G1 DNA damage checkpoint, linking to cell cycle control. Additional terms reflect stress and detox responses (cadmium, methylmercury) and circadian rhythm regulation, plus neuronal synapse assembly, suggesting broader connections to neuronal proteostasis and stress signaling. Overall, the dominant theme is ubiquitin-mediated proteostasis coupled with cell cycle and stress-response processes.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":3},{"id":"GO:0030174","count":3},{"id":"GO:0042752","count":3},{"id":"GO:0031146","count":3},{"id":"GO:1903378","count":3}]},{"hash":"1445306715578678107","title":"Unknown","description":"The GO terms are highly diverse (detoxification, glycosylation, cell wall biosynthesis, lipid and xenobiotic catabolism, plant development, and signaling), with several entries labeled obsolete. There is no clear, single functional theme tying these proteins together, so a concise, representative label cannot be justified.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0006487","count":3},{"id":"GO:0000032","count":3},{"id":"GO:0019260","count":2}]},{"hash":"1734923251521648753","title":"Ubiquitin-Proteasome Pathway","description":"This cluster is dominated by ubiquitination and proteasome-mediated protein degradation processes (SCF-dependent ubiquitin-dependent protein catabolic process; protein polyubiquitination; positive regulation of polyubiquitination), which explains the prominence of GO:0031146, GO:0000209, and GO:1902916. Additional terms point to cell-cycle and DNA damage-related regulation (mitotic G1 checkpoint signaling, regulation of DNA replication) and stress/temporal responses (circadian rhythm regulation, responses to arsenic and methylmercury), suggesting ubiquitin signaling as a central theme tying proteostasis, cell-cycle control, and stress adaptation together.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":9},{"id":"GO:0030174","count":8},{"id":"GO:0042752","count":8},{"id":"GO:0008285","count":8},{"id":"GO:0071406","count":8}]},{"hash":"981590908836777963","title":"Ubiquitin-Proteasome Proteolysis and DNA Damage Response","description":"The proteins are enriched for ubiquitin-dependent proteolysis and proteasome-mediated degradation, including polyubiquitination, and for cell-cycle/DNA damage checkpoint signaling (G1/S transition and replication initiation). This suggests a core role in proteostasis linked to genome integrity, with additional signals of metal- and oxidative-stress responses that extend to a general stress-response context. Overall, the cluster centers on ubiquitin-proteasome\u2013mediated proteolysis intertwined with cell-cycle and DNA-damage regulation under stress.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":4},{"id":"GO:0071406","count":3},{"id":"GO:0031571","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0000083","count":3}]},{"hash":"158281834697882122","title":"Cytokine signaling and neutrophil regulation","description":"This cluster is dominated by GO terms related to cytokine signaling and immune modulation, including erythropoietin-mediated signaling, interleukin-4 production, and GM-CSF production, as well as negative regulation of neutrophil activation. While a few terms touch on cell cycle and transcription regulation, the strongest, recurring theme centers on immune/cytokine pathways and neutrophil activity, suggesting the proteins function together in immune signaling rather than a single metabolic or structural process.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:1902564","count":25},{"id":"GO:0008285","count":7},{"id":"GO:0048680","count":6},{"id":"GO:0007095","count":6},{"id":"GO:0000320","count":6}]},{"hash":"1203179564575301460","title":"Immune Signaling and Cytoskeletal Dynamics","description":"The top GO terms point to regulation and activation of several signaling cascades (ERK/MAPK, NF-kappaB, Rho) and processes that control the actin cytoskeleton, along with immune-related pathways (B cell receptor signaling, myeloid differentiation) and inflammatory/coagulation-related signaling (thrombin receptor). This combination suggests proteins in this cluster coordinate signal transduction with cytoskeletal remodeling in immune and inflammatory contexts.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":3},{"id":"GO:0035023","count":2},{"id":"GO:0070493","count":2},{"id":"GO:0048680","count":2},{"id":"GO:0020021","count":2}]},{"hash":"1582909681634749338","title":"Unknown","description":"The top GO terms span plant development, broad metabolism (biosynthesis and catabolism of various molecules), signaling responses, and even neurotransmitter-related terms, with no clear single shared function. There is no cohesive theme to assign a specific label.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030245","count":10},{"id":"GO:0042136","count":9},{"id":"GO:0046340","count":9},{"id":"GO:0017000","count":9},{"id":"GO:0009102","count":9}]},{"hash":"226639928323698996","title":"Unknown","description":"The top GO terms span immune signaling (B cell receptor signaling pathway, germinal center formation), ubiquitination processes, and diverse tissue/physio-logistic roles (kidney tubule development and sodium absorption, circadian rhythm, skeletal muscle development). There is no clear, single function or pathway that ties all 25 proteins together, so a cohesive label is not supported.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":8},{"id":"GO:0031397","count":7},{"id":"GO:2000312","count":7},{"id":"GO:1990390","count":7},{"id":"GO:0070294","count":7}]},{"hash":"1902831623766788642","title":"Ubiquitin-Proteasome Regulation and Circadian Control","description":"This cluster is dominated by terms for ubiquitin-dependent proteolysis and SCF-mediated proteasomal degradation, with several entries related to regulation of circadian rhythm. Additional terms touch on neuronal stress responses and synapse development, suggesting a common theme of regulated protein turnover affecting circadian and neuronal functions.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0042752","count":4},{"id":"GO:1903378","count":4},{"id":"GO:0000083","count":4},{"id":"GO:0030174","count":3}]},{"hash":"1992239902605549025","title":"Protein quality control and degradation","description":"The top GO terms point to proteostasis-related processes: negative regulation of autophagosome maturation, ER-associated degradation (ERAD), ubiquitin-dependent protein catabolic processes, and protein deglycosylation, suggesting the cluster centers on protein quality control and turnover. While a few terms reference signaling pathways (e.g., Hippo signaling) or RNA silencing, the strongest coherent theme across the terms is maintaining protein homeostasis via degradation and processing pathways.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901340","count":1},{"id":"GO:0035278","count":1},{"id":"GO:1901097","count":1},{"id":"GO:0035329","count":1},{"id":"GO:1904378","count":1}]},{"hash":"1707151549212858471","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031120","count":1},{"id":"GO:1990481","count":1},{"id":"GO:0031119","count":1},{"id":"GO:0002377","count":1},{"id":"GO:0015693","count":1}]},{"hash":"2011427588611167518","title":"Developmental transcriptional regulation and chromatin remodeling","description":"Top terms point to chromatin remodeling and transcriptional regulation by RNA polymerases II and III, with additional signals for developmental morphogenesis across multiple tissues. Together these terms suggest proteins that modulate chromatin state and transcription during development, rather than a single, tissue-specific function. Therefore the cluster is best described as developmental transcriptional regulation and chromatin remodeling.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":3},{"id":"GO:0071866","count":2},{"id":"GO:0048557","count":2},{"id":"GO:0060784","count":2},{"id":"GO:0030916","count":2}]},{"hash":"862656691805130630","title":"Chromatin remodeling and epigenetic regulation","description":"The cluster's top GO terms center on nucleosome assembly, histone exchange, covalent chromatin modification, and negative regulation of DNA demethylation, indicating a chromatin-structural / epigenetic regulation theme. A few development-related terms are present but appear ancillary to the dominant chromatin signals.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901536","count":2},{"id":"GO:0043486","count":1},{"id":"GO:0016569","count":1},{"id":"GO:2000270","count":1},{"id":"GO:0006334","count":1}]},{"hash":"1556411664112966739","title":"Developmental transcriptional regulation and organogenesis","description":"This cluster centers on transcriptional control and chromatin remodeling (DNA-templated transcription, negative regulation of transcription by RNA Pol II) alongside diverse embryonic development processes (endocrine pancreas development, otic vesicle formation, neural crest migration, ureteric bud branching, digestive tract morphogenesis). The common theme is regulation of gene expression during development and organ formation, so the label reflects the cluster\u2019s overall function.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043044","count":7},{"id":"GO:0048557","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0031018","count":5}]},{"hash":"1573297445900332659","title":"Unknown","description":"The top GO terms cover many unrelated areas: intracellular trafficking (ER-Golgi and endosome-Golgi transport), membrane repair, immune signaling (interferon production, viral transport), development in plants and animals, cardiac electrical activity, synapse assembly, and responses to caffeine. The lack of a unifying function or shared biological context suggests no cohesive cluster theme. ","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":1},{"id":"GO:0034498","count":1},{"id":"GO:0001501","count":1},{"id":"GO:0060776","count":1},{"id":"GO:0001778","count":1}]},{"hash":"1360196994070015732","title":"Muscle development and actin dynamics","description":"The top GO terms emphasize actin cytoskeleton remodeling (Arp2/3-mediated nucleation), regulation of GTPase activity, and skeletal muscle fiber development, plus broader multicellular development, suggesting a cohesive theme around muscle differentiation and cytoskeletal regulation. A smaller subset involves phosphate transport and autophagy, but these are less central to the dominant signal. Thus, the cluster likely groups proteins linked to muscle development and actin-driven cytoskeletal dynamics.","confidence":"Medium","size":24,"edges":236,"triangles":1276,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:2000601","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0035435","count":1}]},{"hash":"740949106557761540","title":"Cell Division and Golgi-ER Trafficking","description":"The set of GO terms centers on mitosis and cell cycle progression (mitotic cell cycle, spindle assembly, cell division, growth) together with multiple Golgi-ER and endocytic trafficking processes (COPII budding, Golgi-to-ER and Golgi-to-plasma membrane transport, endocytic recycling). This combination suggests a shared theme of coordinating cell proliferation with membrane trafficking and organelle biogenesis during division.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0006893","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0032456","count":3}]},{"hash":"594357437439381387","title":"Innate antiviral defense and ER protein quality control","description":"The GO terms include defense response to virus and innate immune response, indicating antiviral roles, while ERAD-related terms and aggresome assembly point to endoplasmic reticulum\u2013associated protein quality control and handling of misfolded proteins; together they suggest a cluster of proteins linking innate antiviral defense with ER quality-control mechanisms.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0009086","count":2}]},{"hash":"919965965966678081","title":"Proteostasis and stress response","description":"The cluster is dominated by terms related to protein folding, misfolded protein handling, ERAD, proteasomal degradation, and stress granule dynamics, plus mitochondrial protein targeting and vesicle transport, indicating a coordinated proteome quality-control program across compartments. Occasional DNA replication/transcription terms are likely background cellular activity rather than core features of the cluster.","confidence":"Medium","size":24,"edges":80,"triangles":122,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":14},{"id":"GO:0070389","count":13},{"id":"GO:0034620","count":10},{"id":"GO:0035617","count":9},{"id":"GO:0006351","count":9}]},{"hash":"1617405462192775964","title":"ER quality control and autophagy regulation","description":"The top terms cluster around ubiquitin-dependent ERAD, ER-associated unfolded protein maintenance, protein deglycosylation, and autophagy-related processes (aggrephagy, autophagosome maturation), with SUMOylation as a regulatory modifier. Together these point to a proteostasis module governing protein quality control and degradation via ERAD and autophagy, with attachment/removal of ubiquitin and SUMO influencing these pathways. Some endocytosis and cell division terms appear peripheral, but the dominant theme is proteostasis regulation.","confidence":"Medium","size":24,"edges":32,"triangles":5,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":9},{"id":"GO:0016925","count":8},{"id":"GO:1900186","count":6},{"id":"GO:1904378","count":6},{"id":"GO:0030474","count":6}]},{"hash":"2106596425471252040","title":"Protein quality control and mitophagy","description":"This cluster centers on protein quality control mechanisms (aggresome assembly, protein autoubiquitination) and stress responses (response to toxic substances, TNF signaling), together with mitochondrial quality control processes (mitophagy and regulation of mitochondrial fusion). The combination suggests a cohesive theme around managing protein and mitochondrial homeostasis under stress, linking aggresome formation, ubiquitination, and mitophagy pathways.","confidence":"High","size":24,"edges":144,"triangles":386,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070842","count":11},{"id":"GO:0051865","count":11},{"id":"GO:0097237","count":11},{"id":"GO:1904049","count":11},{"id":"GO:0010636","count":11}]},{"hash":"912608085150317249","title":"Gene Expression Regulation and Signaling","description":"Top GO terms include transcriptional regulation (positive regulation of transcription by RNA polymerase II; termination of RNA polymerase I transcription) and ncRNA-mediated gene silencing, along with signaling-related responses such as NF-kappaB activation, and stimuli responses (brain-derived neurotrophic factor stimulus, prolactin). Additional terms touch on DNA replication, intracellular magnesium homeostasis, calcium-dependent cell-matrix adhesion, and protein tetramerization. Together these suggest a cluster of proteins involved in coordinating gene expression regulation with signaling and broader cellular processes, rather than a single, narrowly defined pathway.","confidence":"Medium","size":24,"edges":26,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1990416","count":3},{"id":"GO:0006363","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0043123","count":2}]},{"hash":"1914250525787512283","title":"Unknown","description":"The top terms span immune signaling, plant movement responses, kidney development, and ubiquitination with no clear shared function, and there are no edges connecting proteins to support a cohesive theme. Therefore Unknown.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":10},{"id":"GO:0009958","count":10},{"id":"GO:0045497","count":10},{"id":"GO:0009638","count":10},{"id":"GO:0050853","count":10}]},{"hash":"380115322706461150","title":"ER stress response and chaperone-mediated folding","description":"This cluster is enriched for GO terms tied to unfolded protein response, ER chaperone activity, and ER-related protein folding/refolding, indicating a shared role in ER stress management and quality control of protein folding. Despite a few peripheral terms, the dominant theme centers on chaperone-assisted folding under ER stress.","confidence":"High","size":24,"edges":53,"triangles":42,"max_degree":22,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070389","count":12},{"id":"GO:0006986","count":9},{"id":"GO:0006469","count":9},{"id":"GO:0045842","count":8},{"id":"GO:0036494","count":8}]},{"hash":"447079627977015820","title":"Vacuolar amino acid transport","description":"The top GO terms focus on transmembrane import into the vacuole for several amino acids and an export from the vacuole, with related nitrogen transport regulation, suggesting this cluster comprises vacuolar amino acid transport proteins in plants.","confidence":"High","size":24,"edges":36,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0090515","count":2},{"id":"GO:0090518","count":2},{"id":"GO:0048829","count":2},{"id":"GO:2000487","count":2},{"id":"GO:0090517","count":2}]},{"hash":"1056900846961025452","title":"DNA Replication and Damage Response","description":"Most of the top GO terms cluster around core DNA replication and processing (DNA replication, primer synthesis, DNA topological changes, unwinding) and DNA damage signaling (SOS response) plus RNA surveillance (nonsense-mediated decay). A few terms touch on neural/immune differentiation, likely peripheral noise. Overall, the cluster is best described as related to DNA replication and repair/damage response mechanisms.","confidence":"Medium","size":24,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1990416","count":2},{"id":"GO:0006269","count":2},{"id":"GO:0006265","count":2},{"id":"GO:0000184","count":2},{"id":"GO:0006268","count":2}]},{"hash":"333493624581581831","title":"Plant transcription, splicing, and chromatin remodeling","description":"Based on enriched GO terms such as DNA-templated transcription, chromatin remodeling, and catalytic spliceosome formation, the cluster seems centered on nuclear gene expression and RNA processing in plants, with cytokinin signaling and photosynthesis suggesting plant-specific regulatory context.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009736","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0043044","count":2},{"id":"GO:0000350","count":2},{"id":"GO:0043653","count":1}]},{"hash":"1862352870829838228","title":"Developmental signaling and transcription regulation","description":"This cluster centers on development-related processes (retina vasculature development, mammary gland development, sex differentiation) and transcriptional control (DNA-templated transcription), with a noted regulatory role in Wnt signaling. While there are some miscellaneous terms (mitochondrial translation, cell cycle checkpoints), the dominant theme links developmental regulation and gene expression, supporting this label.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090090","count":2},{"id":"GO:0061298","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0007548","count":2},{"id":"GO:0030879","count":2}]},{"hash":"1230904313863727575","title":"Gene expression and RNA processing during cell cycle","description":"The cluster centers on transcriptional regulation by RNA polymerase II, RNA processing/export, and cell-cycle\u2013related processes (DNA replication, cell division, translation initiation), indicating a cohesive theme of gene expression control and RNA metabolism coordinated with cell cycle progression.","confidence":"High","size":24,"edges":235,"triangles":1461,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0045899","count":2},{"id":"GO:0032968","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006260","count":2}]},{"hash":"2170468154537625085","title":"Xenobiotic and Secondary Metabolite Metabolism","description":"This cluster shows a mixture of biosynthetic (antibiotic, menaquinone, poly-hydroxybutyrate) and catabolic processes (aromatic compound degradation, xenobiotic like 1,2-dichloroethane), including the epoxygenase P450 pathway. The unifying theme is metabolism of diverse small molecules, both in making and breaking down secondary metabolites and xenobiotics. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0017000","count":6},{"id":"GO:0042619","count":6},{"id":"GO:0019380","count":5},{"id":"GO:0009234","count":5}]},{"hash":"2159892409766154795","title":"Excitatory Synapse Formation and Plasticity","description":"This cluster centers on neuronal synapses, with multiple terms pointing to excitatory postsynaptic signaling, dendritic spine morphogenesis, NMDA receptor clustering, and long-term synaptic plasticity, suggesting a shared role in shaping and modulating excitatory synapses. Additional terms related to striatal neuron differentiation and social behavior imply involvement in basal ganglia circuits, while ubiquitination regulation may modulate synaptic proteins.","confidence":"High","size":24,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000463","count":2},{"id":"GO:2000769","count":2},{"id":"GO:0060997","count":2},{"id":"GO:0032005","count":2},{"id":"GO:0097114","count":2}]},{"hash":"504483563852209552","title":"Translation Initiation Complex Assembly and Regulation","description":"Most of the top GO terms point to formation of translation initiation complexes (preinitiation and cytoplasmic) and regulation of translational initiation, suggesting the cluster is centered on translation initiation processes. A few other terms (DNA repair, proteasome assembly, nuclear RNA tethering) may reflect pleiotropic annotations or secondary associations, but the primary signal is translation initiation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":2},{"id":"GO:0034260","count":2},{"id":"GO:1990414","count":2},{"id":"GO:0001732","count":1},{"id":"GO:0006446","count":1}]},{"hash":"297695619561333771","title":"B Cell Receptor Signaling and Endocytosis","description":"Top terms cluster around B cell\u2013related signaling (B cell receptor and Fc receptor pathways) and endocytosis, with supporting notes on IL-4 production and actin/cytoskeletal remodeling. A related term on synapse assembly suggests immunological synapse formation. Overall, the proteins appear tied to immune receptor signaling linked to endocytic and cytoskeletal processes, characteristic of activated B cells.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:0007416","count":1},{"id":"GO:0006897","count":1},{"id":"GO:0060368","count":1},{"id":"GO:0060988","count":1}]},{"hash":"1845179189761066441","title":"Unknown","description":"The top GO terms reflect a highly diverse mix of developmental and metabolic processes (uterus development, maternal parturition, prostate gland growth, oxylipin and brassinosteroid metabolism, calcitriol biosynthesis, insecticide metabolism, copper response, methylation). There is no single unifying function or pathway that ties these terms together across proteins, suggesting the cluster does not represent a cohesive, well-defined biological module.","confidence":"","size":24,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":23},{"id":"GO:0031408","count":22},{"id":"GO:0017143","count":22},{"id":"GO:0010268","count":22},{"id":"GO:0071280","count":22}]},{"hash":"223478981684648927","title":"Steroid and lipid hormone biosynthesis","description":"This cluster is driven by GO terms centering on the biosynthesis and homeostasis of lipid-derived signaling molecules and steroids across organisms (androgen metabolism, 9-cis-retinoic acid, oxylipins, brassinosteroids, calcitriol), suggesting a common theme of hormone and lipid signaling metabolism. Some terms related to detoxification and reproductive processes are present, but the core pattern points to hormone/lipid biosynthesis and regulation.","confidence":"Medium","size":24,"edges":29,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":14},{"id":"GO:0042904","count":14},{"id":"GO:0031408","count":13},{"id":"GO:0017143","count":13},{"id":"GO:0010268","count":13}]},{"hash":"108204533137673116","title":"ER Stress and Apoptosis Regulation","description":"The top GO terms cluster around ER-associated protein handling and stress responses, including SRP-dependent targeting to membranes, protein refolding, and negative regulation of ER stress-induced and intrinsic apoptotic signaling, plus heat response and inclusion body regulation. Although there are some outliers (DNA replication, fungal cell wall biosynthesis), the dominant theme ties to ER quality control and stress-triggered apoptosis. ","confidence":"Medium","size":24,"edges":253,"triangles":1771,"max_degree":22,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":12},{"id":"GO:0006880","count":12},{"id":"GO:0031204","count":12},{"id":"GO:0070389","count":12},{"id":"GO:1903382","count":12}]},{"hash":"263890567261130870","title":"Neuronal ubiquitin-proteasome regulation and circadian rhythm","description":"The cluster strongly features ubiquitin-related processes (protein polyubiquitination, SCF-dependent proteasomal degradation) and neuronal stress responses (oxidative stress-induced apoptosis), along with synapse assembly and regulation of circadian rhythm. This points to a coherent theme of ubiquitin-mediated proteostasis in neurons, possibly modulated by the circadian clock. Some DNA-damage related terms are present, but they complement the broader proteostasis/circadian theme rather than define it.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030174","count":2},{"id":"GO:0042752","count":2},{"id":"GO:0071406","count":2},{"id":"GO:0060386","count":2},{"id":"GO:1902916","count":2}]},{"hash":"1725411754563560479","title":"Neuronal ubiquitin-proteasome regulation and stress response","description":"The proteins are enriched for ubiquitin-proteasome\u2013mediated turnover and regulation of ubiquitination, with signals of neuronal stress responses (heavy metals, oxidative stress) and synapse assembly, plus hints of circadian and cell-cycle\u2013related signaling. Together they suggest a neuronal proteostasis and stress-response cluster.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":4},{"id":"GO:1902916","count":3},{"id":"GO:0030174","count":3},{"id":"GO:0042752","count":3},{"id":"GO:1903378","count":3}]},{"hash":"1823066568290055887","title":"Proteostasis via Ubiquitination and Autophagy","description":"The GO terms emphasize ubiquitin-mediated degradation (SCF-dependent, K48-linked) and autophagy upregulation, indicating a core role in protein turnover and degradation pathways, with additional links to growth signaling, apoptosis, and development.","confidence":"Medium","size":24,"edges":21,"triangles":0,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":3},{"id":"GO:0060669","count":2},{"id":"GO:0010508","count":2},{"id":"GO:0070936","count":2},{"id":"GO:0045869","count":2}]},{"hash":"1759800248727925701","title":"Steroid and retinoid metabolism","description":"Most of the Top Terms describe steroid and retinoid metabolism: glucocorticoid biosynthesis; C21-steroid hormone metabolism; retinoic acid and retinol metabolism. This points to a cluster of proteins involved in steroid and vitamin A metabolism. Some terms (sporulation, response to drugs, propylene/fatty acid catabolism) are less directly connected but reflect broader metabolic roles in these proteins.","confidence":"Medium","size":24,"edges":12,"triangles":0,"max_degree":12,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0031427","count":3},{"id":"GO:0030435","count":3},{"id":"GO:0006704","count":3},{"id":"GO:0046677","count":3}]},{"hash":"673273058977800580","title":"Ubiquitin-Proteasome Degradation","description":"The top GO terms are dominated by ubiquitin-dependent protein catabolic processes, including ERAD, SCF-dependent proteasomal degradation, and K6-linked ubiquitination, indicating a core function in ubiquitin-mediated proteostasis and proteasome-mediated degradation. Some ancillary terms (e.g., viral process, MyD88-TLR signaling) are present but do not define the main theme; the central connection across terms is ubiquitin tagging and subsequent degradation. ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0002755","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0016032","count":2},{"id":"GO:0007143","count":2}]},{"hash":"1100587953013485990","title":"Mitochondrial Metabolism and Stress Response","description":"This cluster combines mitochondrial-related activities (protein import into the mitochondrial matrix), energy metabolism (fatty acid oxidation, glucose metabolism, cholesterol biosynthesis) and redox/toxic-stress responses (oxidation-reduction process, response to toxic substances, cadmium exposure), suggesting a coherent module governing mitochondrial energy production and cellular defense, with some regulatory transcriptional and nuclear export control links.","confidence":"Medium","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0030150","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0071372","count":2}]},{"hash":"1041186431444377577","title":"Ubiquitin-dependent proteolysis in innate immunity","description":"The cluster is enriched for ubiquitin-dependent protein catabolic process and innate immune response, with additional signals of dsRNA response and antiviral regulation, suggesting a set of proteins involved in ubiquitin-mediated turnover linked to immune signaling. While terms like B cell receptor signaling and Wnt regulation show broader signaling connections, the consistent theme centers on protein degradation pathways functioning within immune contexts.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0045087","count":4},{"id":"GO:1902564","count":3},{"id":"GO:0071360","count":3},{"id":"GO:0030433","count":3}]},{"hash":"386313283444174819","title":"Cerebellar development and neural signaling","description":"The top GO terms are strongly centered on cerebellar biology, notably Bergmann glial cell differentiation and cerebellar cortex formation, with supporting neural differentiation and axon-related regulation terms. While there are some other pathway terms (insulin signaling, T cell signaling, kinetochore localization) present, the cerebellar development signals dominate, suggesting a cluster focused on cerebellar neurodevelopment and associated neural signaling processes. ","confidence":"Medium","size":24,"edges":231,"triangles":1338,"max_degree":23,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060020","count":19},{"id":"GO:2001275","count":19},{"id":"GO:0050852","count":19},{"id":"GO:0008286","count":19},{"id":"GO:0034501","count":19}]},{"hash":"1070235966866719221","title":"Mitochondrial inner membrane biogenesis","description":"The cluster\u2019s GO terms are dominated by mitochondrial processes: import of proteins into the mitochondrial matrix, inner membrane organization, insertion of proteins into the inner membrane, and assembly of respiratory chain components, including Complex II and NADH-driven electron transport. This pattern points to biogenesis and maintenance of the mitochondrial inner membrane and its protein machinery. A few non-mitochondrial terms appear as minor noise, but the core signal supports mitochondrial inner membrane biogenesis.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":2},{"id":"GO:0046294","count":1},{"id":"GO:0031508","count":1},{"id":"GO:0046944","count":1},{"id":"GO:0002949","count":1}]},{"hash":"792927356819654167","title":"Ribosome biogenesis and cell division","description":"This cluster is driven by ribosome-related processes (ribosome biogenesis, ribosomal subunit export from the nucleus, and tRNA modification) along with cell cycle and cell division signals (cell cycle and cell septum assembly). The convergence on both ribosome assembly and division-related GO terms suggests proteins involved in production of ribosomes and coordination with cell division, with a few supplementary stress-response terms likely representing peripheral associations. Overall, a coherent theme around ribosome biogenesis linked to cell division. ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000747","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0042254","count":4},{"id":"GO:1901001","count":3},{"id":"GO:0000055","count":3}]},{"hash":"2150283719889616655","title":"Cell Wall and Carbohydrate Biosynthesis","description":"The top GO terms cluster around biosynthesis of cell wall components (lipoteichoic acid, peptidoglycan) and cell wall organization, plus general carbohydrate metabolic processes, suggesting a focus on biosynthesis of biopolymers and related carbohydrates. The presence of plant-specific secondary metabolite terms (lignin, anthocyanin/cyanidin glucoside, flavonoid glucuronidation) indicates broader metabolic pathways connected to phenylpropanoids, but the shared theme remains biosynthetic processes tied to cell wall and carbohydrate metabolism across organisms.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070395","count":2},{"id":"GO:0030259","count":2},{"id":"GO:0009718","count":2},{"id":"GO:0009808","count":2},{"id":"GO:0009252","count":2}]},{"hash":"292415930756501632","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":28,"triangles":8,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0044205","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0032805","count":1}]},{"hash":"151369745637256142","title":"Immune signaling and cytokine production","description":"Most high-frequency GO terms point to immune signaling: positive regulation of NF-\u03baB, B cell receptor signaling, ERK cascade, and innate immune response. Additional terms involve cytokine production (IL-4, GM-CSF) and hematopoietic signaling (erythropoietin). A few neural-related terms (axon regeneration, retinal ganglion cell guidance) may reflect cross-talk or multifunctional roles, but the dominant pattern is immune activation and cytokine signaling.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0048680","count":2}]},{"hash":"1880766242158877384","title":"Ubiquitin-Proteasome Regulation and Stress Response","description":"This cluster is dominated by ubiquitin-proteasome proteolysis and regulation of ubiquitination, implying a core focus on protein quality control. Additional terms point to cell-cycle and DNA damage responses (regulation of DNA replication initiation, mitotic G1 DNA damage checkpoint signaling), as well as various stress responses (cadmium and methylmercury exposure, oxidative stress-induced apoptotic signaling) and broader signaling processes like circadian rhythm regulation and synapse assembly. Together these terms suggest a cohesive theme around proteostasis coupled with cellular stress and regulatory signaling. Confidence: Medium","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":6},{"id":"GO:1902916","count":4},{"id":"GO:0030174","count":4},{"id":"GO:0042752","count":4},{"id":"GO:1903378","count":4}]},{"hash":"2302608340241883056","title":"Transmembrane Transporters for Xenobiotics and Ions","description":"The top GO terms are dominated by transmembrane transport functions: xenobiotic, vitamin, and potassium ion transport, with supporting signals like cellular response to cAMP and salt stress. Developmental terms may reflect tissue expression contexts but do not define a function beyond transporter activity. Taken together, this cluster most coherently represents membrane transporter proteins with broad substrate specificity.","confidence":"High","size":24,"edges":23,"triangles":0,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0071320","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0042891","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0035461","count":2}]},{"hash":"252824873489527231","title":"Innate Antiviral Immunity and Inflammation","description":"The top GO terms cluster around innate immune defense against viruses, TLR signaling, interferon production, cytokine (IL-6) regulation, and xenophagy, indicating a cohesive module of innate antiviral defense and inflammatory signaling; the other terms (e.g., Gram-positive defense, Th17 differentiation, actin remodeling) fit within a broad immune response context.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045842","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0045087","count":2},{"id":"GO:2000321","count":1},{"id":"GO:0034166","count":1}]},{"hash":"1780484759041506023","title":"Protein quality control and secretory pathway","description":"The cluster\u2019s top terms center on unfolded protein response and chaperone-mediated folding (response to unfolded protein, chaperone-related regulation), alongside processes in the secretory pathway (positive regulation of protein secretion, peptidyl-tyrosine sulfation) and membrane-related lipid biosynthesis. Occasional cell-cycle/centrosome terms (cell division, maintenance of centrosome location) suggest added housekeeping roles but the strongest common theme links protein folding quality control with secretion and post-translational modification, possibly in a photosynthetic context where chloroplast-associated processes are present. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:1903646","count":3},{"id":"GO:0051661","count":3},{"id":"GO:0006986","count":3},{"id":"GO:0015979","count":3}]},{"hash":"725860003783401847","title":"Ubiquitin-Dependent Proteolysis and Cell Cycle Control","description":"This cluster emphasizes ubiquitin-mediated protein degradation (ubiquitin-dependent catabolic processes and regulation of ubiquitination) and cell cycle-related terms, suggesting a core function in regulating substrate turnover during cell division, with some pleiotropic notes on circadian and signaling processes.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0010745","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0042752","count":2},{"id":"GO:0009911","count":2}]},{"hash":"332339970495922313","title":"Unknown","description":"The top GO terms span immune signaling, plant development and brassinosteroid signaling, circadian rhythm regulation, mitotic spindle localization, ubiquitination regulation, and tRNA modification, showing no single cohesive function across all proteins. This suggests either heterogeneous roles or cross-species annotation noise, making a unified label inappropriate.","confidence":"","size":24,"edges":110,"triangles":199,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":15},{"id":"GO:0002467","count":15},{"id":"GO:0042752","count":14},{"id":"GO:0009911","count":14},{"id":"GO:0009742","count":14}]},{"hash":"331560915900912439","title":"Unknown","description":"The top GO terms cover translation initiation, transcriptional regulation, RNA Pol II tethering, chromatin/heterochromatin formation, proteasome assembly, and meiosis, which are diverse and not pointing to a single cohesive function or pathway. This suggests the cluster does not hinge on one clear biological theme.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001732","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0048140","count":1},{"id":"GO:0000973","count":1},{"id":"GO:0075522","count":1}]},{"hash":"1199453137372686284","title":"Innate Immune Signaling and Autophagy","description":"The cluster centers on innate immune recognition and response, with multiple GO terms for innate immune response, TLR signaling, Toll signaling, NLRP3 inflammasome assembly, and regulation of xenophagy and interferon production, indicating a cohesive theme of immune signaling and autophagic processes. A few outlier terms (e.g., brassinosteroid detection) may be non-core or noise, but do not override the dominant theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0044546","count":1},{"id":"GO:0009729","count":1},{"id":"GO:2000321","count":1},{"id":"GO:1902350","count":1}]},{"hash":"842597573876198891","title":"Unknown","description":"The Top Terms cover a wide and unrelated mix of processes (meiosis/cell division, chromosome segregation, wound healing/scab formation and coagulation, melanin production and melanization, and neuroblast proliferation) with no clear shared function and no edges connecting proteins, so there is no coherent theme to name a specific cluster; label as Unknown.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051455","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0007059","count":1},{"id":"GO:0035314","count":1},{"id":"GO:0042381","count":1}]},{"hash":"1940416279187565465","title":"Ubiquitin-Dependent Proteolysis in Mitosis","description":"The terms are dominated by ubiquitin-dependent protein catabolic processes, APC/C-mediated degradation, and mitotic cell cycle, indicating a cohesive role for protein turnover in regulating mitosis, despite some noise from unrelated terms.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0030433","count":5},{"id":"GO:0071276","count":5},{"id":"GO:0070979","count":5},{"id":"GO:0051301","count":5}]},{"hash":"1357472175799679120","title":"Nuclear Transport and Envelope Dynamics","description":"The GO terms cluster around nuclear transport and envelope-related processes, including nuclear pore complex assembly, nuclear envelope organization, tRNA export from the nucleus, and general protein transport, along with mitotic nuclear membrane disassembly. This points to a cohesive role in nuclear transport machinery and envelope remodeling, despite a few outliers.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007077","count":1},{"id":"GO:0010827","count":1},{"id":"GO:0006409","count":1},{"id":"GO:0075733","count":1},{"id":"GO:0015031","count":1}]},{"hash":"654439212245582854","title":"Unknown","description":"The GO terms are highly diverse: axon regeneration and axon fasciculation (neural), T cell proliferation and IL-12 response (immune), spermatid differentiation (reproductive), piRNA processing (germline), and general regulation of cell proliferation; there is no single unifying function that ties these proteins together, so a cohesive label cannot be assigned beyond Unknown.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":1},{"id":"GO:0071866","count":1},{"id":"GO:0046641","count":1},{"id":"GO:0048557","count":1},{"id":"GO:0008285","count":1}]},{"hash":"368204963107516568","title":"Immune signaling and ubiquitination regulation","description":"This cluster is dominated by immune-related terms (B cell receptor signaling, innate immune response) alongside ubiquitination processes (negative regulation of protein ubiquitination, K33-linked ubiquitination), indicating a coherent theme around immune signaling and ubiquitin-mediated regulation. Other terms like circadian rhythms and renal development are less represented and likely secondary annotations.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":3},{"id":"GO:0061298","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0031397","count":2}]},{"hash":"650123280031834892","title":"Mitotic spindle regulation and cell proliferation","description":"Top GO terms are dominated by mitosis-related processes (mitotic spindle assembly, distributive segregation, regulation of mitotic spindle organization) with activation of kinase activity, suggesting a core function in mitotic control and cell proliferation; the other terms (hemopoiesis, T cell proliferation, axon growth) may reflect broader signaling or differentiation contexts but are less central to the main theme. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032147","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0032837","count":2},{"id":"GO:0060236","count":2},{"id":"GO:0030097","count":2}]},{"hash":"1242420995841286428","title":"Unknown","description":"The GO terms in this cluster are highly diverse (cell wall/macromolecule and peptidoglycan catabolic processes, defense to bacteria, viral release and GPCR signaling, photoreceptor maintenance/retina development, and protein polyglutamylation), with no clear shared function or pathway. There are no edges, and only isolated terms appear, which suggests annotation noise or a mixed set rather than a cohesive biological module.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016998","count":1},{"id":"GO:0006940","count":1},{"id":"GO:0044659","count":1},{"id":"GO:0019076","count":1},{"id":"GO:0007189","count":1}]},{"hash":"277730905464172486","title":"Transcription Regulation and Chromatin Remodeling in Neural Development","description":"The top terms cluster around transcription by RNA polymerase II and its regulation, chromatin remodeling, and protein ubiquitination, with developmental hints in brain, retina, and cranial skeleton morphogenesis. This suggests proteins involved in controlling gene expression through chromatin-level mechanisms during neural development, rather than a single, isolated function. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0060041","count":3},{"id":"GO:0070086","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0032425","count":2}]},{"hash":"650721496407478633","title":"mRNA processing and translation regulation","description":"This cluster centers on post-transcriptional control of gene expression, with terms spanning miRNA-mediated silencing, regulation of translational initiation (including IRES-dependent translation and eIF4F complex assembly), spliceosome-mediated splicing and splice site recognition, and mRNA export. The collection suggests a coherent theme of mRNA maturation and subsequent regulation of translation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035278","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0048026","count":2},{"id":"GO:1903586","count":2}]},{"hash":"2022204158955506486","title":"Unknown","description":"The top GO terms span development, skin and tissue processes, plant tropisms, immune signaling, and ubiquitin pathways, with no single functional thread binding the proteins. The graph has no edges, suggesting the proteins do not assemble into a cohesive module. This set appears noise or multi-species annotations rather than a defined cluster.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0030433","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0043588","count":5},{"id":"GO:0043380","count":4},{"id":"GO:0009958","count":4}]},{"hash":"175564665927645281","title":"Cell envelope and surface biosynthesis","description":"The GO terms are dominated by pathways for building and modifying the bacterial cell envelope and surface components, including lipopolysaccharide and lipid A biosynthesis, spore wall/surface assembly, and undecaprenyl phosphate\u2013dependent glycan biosynthesis, plus biofilm formation. Some terms (e.g., nervous system development, ascospore wall chitin catabolic process) appear as noise from cross-species annotations, but the core signal points to envelope and surface structure construction.","confidence":"Medium","size":23,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":4},{"id":"GO:0007399","count":3},{"id":"GO:0019428","count":3},{"id":"GO:0036108","count":3},{"id":"GO:0042710","count":3}]},{"hash":"1074159807225084018","title":"Potassium Transport and Development","description":"The cluster centers on potassium ion transport and homeostasis (potassium transport/export/homeostasis) and broad development-related processes (multicellular development, angiogenesis, endothelial cell migration), suggesting a theme where ion balance regulates tissue growth and vascular/neural development. Some terms like sensory pain and sperm capacitation appear as outliers, but the dominant signal integrates ion handling with developmental processes. ","confidence":"Medium","size":23,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0019233","count":9},{"id":"GO:0048240","count":9},{"id":"GO:0006813","count":9},{"id":"GO:0007275","count":9},{"id":"GO:0097623","count":8}]},{"hash":"791112632048516198","title":"ER quality control and ERAD","description":"Top terms cluster around protein deglycosylation and ubiquitin-dependent ERAD pathways, suggesting involvement in endoplasmic reticulum\u2013associated protein quality control and degradation of misfolded glycoproteins. Additional terms touch on related processes like autophagy regulation and membrane trafficking, which can intersect with ER stress responses. Overall, the strongest theme is ERAD/ER quality control, with some peripheral regulatory terms.","confidence":"Medium","size":23,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006517","count":5},{"id":"GO:1903071","count":4},{"id":"GO:0030433","count":4},{"id":"GO:1901340","count":3},{"id":"GO:1901097","count":3}]},{"hash":"247367258774862625","title":"Polysaccharide and cell wall biosynthesis","description":"The Top Terms show enrichment for glycogen and starch biosynthesis, sucrose metabolism, teichoic acid biosynthesis, and cell wall organization, indicating a cluster centered on carbohydrate biosynthesis and cell wall construction. Some terms (DNA replication, chromatin assembly) are less clearly connected and may reflect annotation noise, but the dominant theme supports a polysaccharide/cell wall biosynthesis cluster.","confidence":"High","size":23,"edges":137,"triangles":303,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0005978","count":4},{"id":"GO:0061641","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0001824","count":3},{"id":"GO:0046939","count":3}]},{"hash":"643961701526995379","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":25,"triangles":7,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070935","count":6},{"id":"GO:0033129","count":6},{"id":"GO:0010610","count":6},{"id":"GO:0000278","count":5},{"id":"GO:0001843","count":5}]},{"hash":"2290133420994405563","title":"Unknown","description":"The top GO terms are highly diverse, spanning spermatogenesis, behavioral responses to starvation, circadian sleep regulation, RNA silencing, immune differentiation, plant leaf morphogenesis and gravitropism, and membrane repair. There is no clear shared biological process or pathway connecting these terms, and the cluster has no edges, suggesting no cohesive functional theme. Therefore a specific label cannot be assigned beyond Unknown.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007283","count":1},{"id":"GO:0042595","count":1},{"id":"GO:0042321","count":1},{"id":"GO:0016246","count":1},{"id":"GO:0007630","count":1}]},{"hash":"1326136977320375985","title":"B cell receptor signaling and isotype switching","description":"The top GO terms include clear B cell\u2013related processes, notably B cell receptor signaling pathway and isotype switching, suggesting the cluster centers on B cell immune signaling and antibody maturation. Other terms are more divergent (e.g., cyclic nucleotide biosynthesis, ubiquitin-dependent turnover, plant ABA biosynthesis), but the immune-related terms dominate, supporting a B cell\u2013focused function despite heterogeneity.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009190","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0010961","count":2},{"id":"GO:0019233","count":2}]},{"hash":"1561926140784299361","title":"Vertebrate neural and embryonic development","description":"Most of the top GO terms point to developmental processes in vertebrates, especially forebrain development, neural tube closure, and skeletal system development, along with multicellular organism development and DNA-templated transcription. While there are some stress or defense-related terms, the dominant signal centers on embryonic/neuronal development, suggesting this cluster mainly comprises proteins involved in vertebrate development and neural formation.","confidence":"High","size":23,"edges":5,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050830","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0006349","count":4}]},{"hash":"235171212955746825","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":250,"triangles":1711,"max_degree":22,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":15},{"id":"GO:0000398","count":14},{"id":"GO:0090503","count":13},{"id":"GO:0016120","count":12},{"id":"GO:2000627","count":12}]},{"hash":"1781985868728201166","title":"Translation Machinery and mRNA Decay","description":"This cluster is dominated by GO terms tied to protein synthesis, including translation, translational initiation/elongation/termination, and selenocysteine incorporation, plus a related term on cytoplasmic translation regulation and a deadenylation-dependent mRNA decay term. These point to a cohesive theme around the core translation machinery and mRNA turnover, with a couple secondary associations (glial proliferation, cell division) likely representing broader cellular contexts. ","confidence":"High","size":23,"edges":243,"triangles":1577,"max_degree":22,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":10},{"id":"GO:0001514","count":3},{"id":"GO:2000767","count":3},{"id":"GO:0014009","count":3},{"id":"GO:0006415","count":3}]},{"hash":"1171232115655113587","title":"Tyrosine kinase signaling and axon regeneration","description":"These terms converge on tyrosine kinase receptor signaling pathways (KIT, collagen-activated RTKs) and downstream STAT phosphorylation, together with regulators of cell adhesion. They also highlight neuronal growth processes (axon regeneration and retinal ganglion cell guidance) and cytokine-driven signaling (erythropoietin, IL-4, GM-CSF) that modulate immune and growth responses. The shared annotation across many proteins suggests a coherent module of RTK/cytokine signaling promoting neurite outgrowth and adhesion, justifying the label.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048680","count":22},{"id":"GO:0010954","count":22},{"id":"GO:0038162","count":22},{"id":"GO:0032633","count":22},{"id":"GO:0045425","count":22}]},{"hash":"1579090067334512994","title":"Developmental signaling and cell cycle regulation","description":"The cluster shows a mix of development-related GO terms (nervous system development, skeletal muscle development, cardiac neural crest development) and cell cycle/DNA replication terms (DNA replication, mitotic G2 checkpoint, re-entry into mitotic cell cycle). This suggests a broad theme around developmental processes intertwined with cell cycle control, rather than a single specific pathway. There is an outlier term (B cell receptor signaling) that may reflect annotation noise or multifunctional proteins. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0030517","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0007519","count":4},{"id":"GO:0006260","count":4}]},{"hash":"904245325193080470","title":"Ribosome Biogenesis and RNA Processing","description":"The proteins in this cluster are enriched for GO terms tied to ribosome assembly and RNA processing, including rRNA processing, ribosomal subunit export from the nucleus, large subunit export, and tRNA modification. These consistently point to functions in ribosome biogenesis and translation-related RNA maturation. A few terms refer to metabolism or protein ubiquitination regulation, but they are less represented, so the main theme remains RNA processing/gene expression machinery.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001172","count":2},{"id":"GO:0090180","count":2},{"id":"GO:0007527","count":2},{"id":"GO:1903212","count":2},{"id":"GO:0006364","count":1}]},{"hash":"1024730792227057963","title":"Glycosylation-driven development and cell adhesion","description":"Many top GO terms center on glycan biosynthesis and glycosylation (arabinogalactan protein metabolism, hydroxyproline O-linked glycosylation, poly-N-acetyllactosamine biosynthesis, Lewis a epitope biosynthesis) and on developmental and adhesion-related processes (root hair development, follicle epithelium polarity/adhesion, seed coat mucilage biosynthesis, infection-structure formation). This points to a coherent theme of extracellular glycoproteins and glycans shaping cell surface interactions during development across kingdoms.","confidence":"Medium","size":23,"edges":63,"triangles":21,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0042248","count":1},{"id":"GO:0080147","count":1},{"id":"GO:0010405","count":1},{"id":"GO:0030311","count":1},{"id":"GO:0010493","count":1}]},{"hash":"86260717061354778","title":"Redox-Linked Lipid Metabolism","description":"The cluster shows strong representation of redox-related terms (oxidation-reduction, NADH oxidation) and lipid metabolism (fatty acid biosynthesis and omega-oxidation, retinol metabolism), with additional carbohydrate and amino acid metabolism signals (fructose biosynthesis, threonine catabolism). While some entries touch on stress responses (copper ion, lipopolysaccharide), the dominant theme is metabolic pathways centered on redox chemistry and lipid processing, justifying a lipid/redox metabolism label.","confidence":"High","size":23,"edges":15,"triangles":20,"max_degree":5,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0019518","count":4},{"id":"GO:0046370","count":4},{"id":"GO:0006116","count":4},{"id":"GO:0003016","count":4}]},{"hash":"2021398385193217657","title":"Embryonic organogenesis and tissue development","description":"The top GO terms span multiple organ and tissue development processes (pancreas, neural crest, retina, bone, ureteric bud morphogenesis, etc.) and include morphogenesis and differentiation, suggesting the proteins collectively participate in broad embryonic development rather than a single pathway. The regulatory term (negative regulation of transcription by RNA Pol II) aligns with general gene expression control during differentiation. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0048557","count":5},{"id":"GO:0031018","count":5},{"id":"GO:0090190","count":5},{"id":"GO:0001755","count":5}]},{"hash":"84267097767797105","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":1},{"id":"GO:0036450","count":1},{"id":"GO:0071050","count":1},{"id":"GO:0042245","count":1},{"id":"GO:0046677","count":1}]},{"hash":"236386558521049007","title":"ER Protein Targeting and Quality Control","description":"This cluster is dominated by GO terms related to targeting nascent proteins to membranes (SRP-dependent and cotranslational translocation), and to protein folding/refolding and quality control under stress (ER stress responses, regulation of apoptotic signaling). These point to a cohesive theme of membrane-associated protein maturation and surveillance, particularly within the secretory/ER pathway, with stress-responsive regulation. Some terms (like DNA replication or fungal cell wall synthesis) seem peripheral or misannotated in this cluster but do not override the central pattern. ","confidence":"Medium","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0006880","count":5},{"id":"GO:0031204","count":5},{"id":"GO:0070389","count":5},{"id":"GO:1903382","count":5}]},{"hash":"2232947406330872078","title":"Ubiquitin-Proteasome Regulation and Stress Response","description":"This cluster centers on ubiquitin-mediated protein turnover, highlighted by terms for polyubiquitination and SCF-dependent proteasomal degradation. The co-occurrence of circadian rhythm regulation and cell cycle checkpoint signaling suggests links to cell-cycle control and clock regulation via proteostasis. Additional terms reflect cellular stress responses to metals (cadmium, methylmercury) and oxidative stress\u2013induced apoptotic pathways, as well as synapse-associated remodeling, all of which can be tied to ubiquitin-driven regulation of proteins under stress. Overall, ubiquitin-proteasome\u2013driven regulation appears to be the dominant theme across the terms.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":2},{"id":"GO:0030174","count":2},{"id":"GO:0042752","count":2},{"id":"GO:0031146","count":2},{"id":"GO:1903378","count":2}]},{"hash":"490632214816357757","title":"Unknown","description":"The top GO terms are highly diverse, centering on negative regulation of neutrophil activation, with additional terms about mitotic cell cycle and various signaling pathways. The mix includes obsolete terms and no clear, shared biological function linking the proteins, so a specific, representative label cannot be reliably assigned.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1902564","count":23},{"id":"GO:0060068","count":6},{"id":"GO:0010863","count":6},{"id":"GO:0043433","count":6},{"id":"GO:0000278","count":6}]},{"hash":"508911411038525520","title":"Unknown","description":"The GO terms are scattered across immune regulation, development, transcription, and stress responses, with no unifying function. The dominant term (negative regulation of neutrophil activation) contrasts with several unrelated terms (forebrain and skeletal development, cadmium response, ER stress\u2013related apoptosis), suggesting no single cohesive function or pathway characterizes this cluster.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1902564","count":21},{"id":"GO:0030900","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0006349","count":5}]},{"hash":"475442645610361515","title":"Neural axon growth and RTK signaling","description":"The cluster is dominated by terms tying neural growth and guidance to receptor tyrosine kinase signaling (e.g., KIT and collagen-activated RTK pathways), positive regulation of axon regeneration, and focal adhesion dynamics, suggesting a cohesive module governing axon growth, guidance, and related signaling cascades. Immune cytokine-related terms (IL-4, GM-CSF production, erythropoietin signaling) may reflect coordinated cytokine signaling interfaces, but the strongest signal centers on neural axon growth and RTK-mediated pathways.","confidence":"High","size":23,"edges":107,"triangles":215,"max_degree":21,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":23},{"id":"GO:0010954","count":23},{"id":"GO:0038162","count":23},{"id":"GO:0032633","count":23},{"id":"GO:0045425","count":23}]},{"hash":"1344504554127861737","title":"Unknown","description":"The GO terms span ubiquitin-dependent proteolysis, immune signaling, plant tropisms, development, spindle localization, and oxidative stress responses, a highly diverse set with little shared function. This makes it unlikely there is a single representative function for the cluster.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0043380","count":2},{"id":"GO:0009958","count":2},{"id":"GO:0045497","count":2},{"id":"GO:0009638","count":2}]},{"hash":"1352156707473393082","title":"Unknown","description":"The GO terms are highly diverse, including immune signaling (B cell receptor signaling; memory T cell differentiation), development (skeletal muscle, nervous system, female analia), metabolic signaling (insulin receptor pathway), and even plant responses (phototropism, gravitropism) plus ubiquitination regulation. There is no single coherent biological process tying these proteins together, so a concise, representative label cannot be determined.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0007519","count":5},{"id":"GO:0008286","count":4},{"id":"GO:0007399","count":4},{"id":"GO:1902083","count":4}]},{"hash":"653977733362542230","title":"Protein quality control and trafficking","description":"Core themes point to protein handling and trafficking, with terms for import into peroxisomes, inter-Golgi vesicle transport, and responses to misfolded proteins, complemented by protein oligomerization. DNA repair and cell division appear as less cohesive outliers, suggesting broader cellular maintenance rather than a single pathway.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0071218","count":1},{"id":"GO:0048219","count":1},{"id":"GO:0070414","count":1}]},{"hash":"518132397133135561","title":"Unknown","description":"The top GO terms span neuronal regeneration, cell-cycle regulation, transcriptional control, and diverse signaling pathways (erythropoietin, IL-4, GM-CSF) as well as cardiac neural crest development and NFAT signaling, with no clear, single functional theme tying all proteins together. This lack of a cohesive biological process makes a precise label unlikely.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":23},{"id":"GO:0007095","count":23},{"id":"GO:0000320","count":23},{"id":"GO:0010954","count":23},{"id":"GO:0038162","count":23}]},{"hash":"1314871164806470384","title":"Axon growth and neurotrophic signaling","description":"The prominent GO terms cluster around axon regeneration and guidance (positive regulation of axon regeneration, retinal ganglion cell axon guidance) alongside multiple growth-factor receptor signaling pathways (erythropoietin signaling, KIT signaling, collagen-activated RTK signaling) and downstream responses (STAT phosphorylation, focal adhesion regulation). This points to a coherent theme of neuronal growth, survival, and axon regrowth driven by growth-factor signaling networks.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":23},{"id":"GO:0010954","count":23},{"id":"GO:0038162","count":23},{"id":"GO:0032633","count":23},{"id":"GO:0045425","count":23}]},{"hash":"1483515392304520846","title":"Neural Axon Guidance and CNS Development","description":"The top GO terms are dominated by neural connectivity processes: retinal ganglion cell axon guidance, fasciculation of motor and sensory neuron axons, CNS projection neuron axonogenesis, corpus callosum development, and regulation of synapse assembly. These collectively point to neural wiring and CNS development, with a few peripheral terms (FSH response, axial mesoderm formation, type IV hypersensitivity) that are less central but do not override the main theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031290","count":4},{"id":"GO:0097156","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0097155","count":4},{"id":"GO:0071372","count":4}]},{"hash":"2270071534895895320","title":"Neuronal proteostasis and stress signaling","description":"The cluster is dominated by ubiquitin-dependent proteolysis and SCF-mediated proteasomal degradation, with enrichment for protein ubiquitination and oxidative/toxin stress responses, plus neuron-related synaptic and apoptotic signaling terms. This points to a core theme of proteostasis and stress-response pathways in neural contexts, despite some broader cell-cycle terms that may be incidental.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":4},{"id":"GO:1903378","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0030174","count":3},{"id":"GO:0042752","count":3}]},{"hash":"1773499532371873749","title":"Unknown","description":"Top GO terms are regulation of DNA-templated transcription and negative regulation of protein localization to centrosome, each with count 1, and there are no edges connecting proteins. With only isolated annotations and no shared process, there is no clear theme to bind these proteins into a single function label.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":1},{"id":"GO:1904780","count":1}]},{"hash":"1030091042928798082","title":"Neural and immune signaling modulators","description":"The proteins show signals across neural development (axon fasciculation, regeneration, planar polarity) and immune pathways (IL-12/IL-4 signaling, T cell proliferation) plus related signaling (erythropoietin, integrin). They appear as broad regulators of signaling in neural and immune contexts rather than a single cohesive pathway.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":1},{"id":"GO:0046641","count":1},{"id":"GO:0008285","count":1},{"id":"GO:0097156","count":1},{"id":"GO:0070671","count":1}]},{"hash":"275787003082271918","title":"Insect LPS sensing and innate inflammatory signaling","description":"Dominated by GO terms for LPS detection and signaling (cellular response to lipopolysaccharide, positive regulation of LPS-mediated signaling), peptidoglycan recognition signaling, necroptosis, and TNF production, indicating an insect innate immune module responding to bacterial components; metabolic terms like ecdysteroid/cholesterol processes appear peripheral.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051345","count":4},{"id":"GO:0061057","count":4},{"id":"GO:0032497","count":4},{"id":"GO:0070266","count":4},{"id":"GO:0045456","count":4}]},{"hash":"2170930106955751945","title":"Unknown","description":"This cluster shows highly disparate GO terms, including Notch signaling (animal), bacterial cell wall biosynthesis (lipoteichoic acid, peptidoglycan), and plant secondary metabolism (lignin, anthocyanin, cyanidin glucoside), with no single biological theme linking them. The lack of cohesive function, together with zero edges and only partial re-added proteins, suggests the cluster is not functionally unified, so Unknown with None.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007219","count":2},{"id":"GO:0070395","count":1},{"id":"GO:0030259","count":1},{"id":"GO:0009718","count":1},{"id":"GO:0009808","count":1}]},{"hash":"1425445824380676713","title":"Unknown","description":"Top terms span disparate processes across immune signaling, plant tropisms, development, ubiquitination, and renal morphogenesis; there is no single shared function tying the proteins together, and there are no observed interactions (Edges 0, Triangles 0). ","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":13},{"id":"GO:0009958","count":13},{"id":"GO:0045497","count":13},{"id":"GO:0009638","count":13},{"id":"GO:0050853","count":13}]},{"hash":"1113991703244869057","title":"SRP-dependent cotranslational protein targeting to membrane","description":"The top GO terms point to SRP-dependent cotranslational targeting to membranes (translocation), i.e., the SRP-mediated delivery of nascent polypeptides to the membrane during translation, which explains the shared annotation among these proteins. The absence of other dominant terms suggests a cohesive SRP-targeting function across this cluster.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006616","count":1},{"id":"GO:0006614","count":1}]},{"hash":"622854065006757354","title":"Ubiquitin-Dependent Proteolysis and Mitosis","description":"GO terms show a strong focus on ubiquitin-dependent protein degradation (including K11-linked ubiquitination), unfolded protein response, and mitotic cell cycle regulation, suggesting a cluster centered on protein quality control that interfaces with cell-cycle progression. Some terms like photosynthesis or steroid receptor assembly appear ancillary, but do not change the core theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0006986","count":4},{"id":"GO:0070979","count":4},{"id":"GO:0045842","count":4}]},{"hash":"2082955368130736235","title":"Unknown","description":"The terms are scattered across diverse processes (salt stress response, sex determination, muscle development, digestion, and protein regulation) with no clear shared function or interaction linking the proteins, and there are no edges or triangles to indicate a cohesive cluster. Therefore, a coherent, specific label cannot be assigned.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071472","count":1},{"id":"GO:0042004","count":1},{"id":"GO:0051493","count":1},{"id":"GO:0007586","count":1},{"id":"GO:0019099","count":1}]},{"hash":"1417964353710669576","title":"Aminoacyl-tRNA Synthetases","description":"The dominant signals are specific aminoacylation of tRNAs (Leu, Met, Ile, Val) and translation-related terms, pointing to a cluster of aminoacyl-tRNA synthetases that charge tRNAs and maintain translational fidelity; a single intron-splicing term is likely noise.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006429","count":1},{"id":"GO:0000372","count":1},{"id":"GO:0006431","count":1},{"id":"GO:0006428","count":1},{"id":"GO:0006412","count":1}]},{"hash":"1904232202299924253","title":"Unknown","description":"The top GO terms are highly heterogeneous: Toll-like receptor signaling, type II interferon production (immune signaling); neural development terms like branching morphogenesis and migration; plant hormone response and various stress/drug-related processes; and organ size regulation. There isn\u2019t a single cohesive function tying all proteins together, so a specific, representative label cannot be determined.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905289","count":1},{"id":"GO:1903215","count":1},{"id":"GO:0009729","count":1},{"id":"GO:2000172","count":1},{"id":"GO:1902350","count":1}]},{"hash":"1651103524657607206","title":"Unknown","description":"The listed GO terms are heterogeneous: immune signaling (memory T cell differentiation, B cell receptor signaling), ubiquitination processes, kidney/tubule development, and plant responses (gravitropism, phototropism). With no clear shared function or pathway across the cluster and no connecting edges, there isn\u2019t a cohesive theme to name instead of Unknown.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":6},{"id":"GO:0009958","count":6},{"id":"GO:0045497","count":6},{"id":"GO:0009638","count":6},{"id":"GO:0050853","count":6}]},{"hash":"2285520229544435295","title":"Ribosome biogenesis and translation","description":"The top GO terms are dominated by ribosome-related processes (ribosome biogenesis, ribosomal large subunit assembly, cytoplasmic translation) and SRP-dependent cotranslational targeting to membranes, pointing to the protein synthesis machinery. Other terms about transcription and lipid biosynthesis are present but less representative, so the core signal favors ribosome assembly and translation.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071353","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0002181","count":1},{"id":"GO:0006614","count":1}]},{"hash":"1888828334686969892","title":"Unknown","description":"This set spans diverse and seemingly unrelated functions: sugar metabolism (galactose and glucose processing), chromatin modification (histone deubiquitination and ubiquitination regulation), cell cycle/mitosis (chromosome passenger complex localization), several signaling pathways (B cell receptor, IGF receptor), RNA silencing (RITS complex assembly), and oxidative stress response. With 23 proteins and no edges or shared enriched terms (most terms appear once, and some are obsolete), there is no clear common function linking the cluster. Hence, Unknown with no confidence in a specific functional label.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033499","count":1},{"id":"GO:0006006","count":1},{"id":"GO:1904802","count":1},{"id":"GO:0016578","count":1},{"id":"GO:0043569","count":1}]},{"hash":"807700805556587712","title":"Unknown","description":"The top terms cover immune signaling (memory T cell differentiation regulation, B cell receptor signaling), protein ubiquitination, plant growth responses (gravitropism/phototropism), and kidney development, which do not form a cohesive shared function. This heterogeneity makes it unclear to assign a single, meaningful label beyond Unknown.","confidence":"","size":22,"edges":21,"triangles":0,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":5},{"id":"GO:0009958","count":5},{"id":"GO:0045497","count":5},{"id":"GO:0009638","count":5},{"id":"GO:0050853","count":5}]},{"hash":"286005229542293008","title":"Ubiquitin-Dependent Protein Regulation","description":"The cluster is dominated by GO terms tied to ubiquitin pathways\u2014ubiquitin-dependent protein catabolic process, negative regulation of ubiquitination, and K33-linked ubiquitination\u2014suggesting a core theme of ubiquitin-mediated protein regulation, with some non-ubiquitin terms likely reflecting context-specific roles of ubiquitin machinery.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0050853","count":4},{"id":"GO:0035853","count":4},{"id":"GO:0031397","count":4},{"id":"GO:2000312","count":4}]},{"hash":"2267314291378897156","title":"Innate immune sensing and inflammatory signaling","description":"This cluster is dominated by GO terms for detecting bacterial components (lipopolysaccharide, peptidoglycan), signaling in response to these cues, and downstream inflammatory responses such as TNF production and necroptosis. Together they point to a module of pathogen recognition and inflammatory signaling, with a few metabolic terms that are less representative. ","confidence":"High","size":22,"edges":41,"triangles":21,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0051345","count":2},{"id":"GO:0061057","count":2},{"id":"GO:0032497","count":2},{"id":"GO:0070266","count":2},{"id":"GO:0045456","count":2}]},{"hash":"1965922503671708558","title":"Neurotransmitter Metabolism and Brain Stress Response","description":"These terms cluster around dopaminergic and serotonergic signaling, with active processes in dopamine metabolism, dopamine catabolism, and negative regulation of serotonin secretion. They are complemented by brain-related stress responses (response to corticosterone and ethanol) and oxidative stress (hydrogen peroxide biosynthetic process). Substantia nigra development points to a neural context, while quinolinate and thiamine biosynthesis reflect metabolic routes important for neural energy and NAD metabolism. Taken together, the proteins likely participate in neuronal neurotransmitter regulation and brain stress responses.","confidence":"High","size":22,"edges":22,"triangles":2,"max_degree":19,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0021762","count":14},{"id":"GO:0009228","count":14},{"id":"GO:0019805","count":13},{"id":"GO:0045471","count":13},{"id":"GO:0032496","count":13}]},{"hash":"593029866165522326","title":"Synapse Assembly and Cytoskeletal Signaling","description":"Based on the strongest signals in the set\u2014synapse assembly, endocytosis, actin cortical patch assembly, and regulation of excitatory postsynaptic potential\u2014the cluster appears centered on neuronal synapse formation and associated membrane trafficking with cytoskeletal remodeling. Immune and vascular terms are present but seem secondary to the core synaptic/endocytic theme.","confidence":"Medium","size":22,"edges":15,"triangles":3,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0001568","count":3},{"id":"GO:0007416","count":2},{"id":"GO:0006897","count":2},{"id":"GO:0060368","count":2},{"id":"GO:0060988","count":2}]},{"hash":"1131237136418192692","title":"Transcription Regulation & Antibiotic Biosynthesis","description":"Top GO terms indicate a core focus on transcription regulation (DNA-templated transcription, regulation of transcription, positive regulation of transcription by RNA polymerase II) alongside antibiotic biosynthetic processes (phosphinothricin biosynthetic process, antibiotic biosynthetic process). This suggests a cluster of proteins involved in controlling gene expression and secondary metabolite production, with a few additional, less central terms (e.g., mitotic spindle checkpoint signaling, amino acid starvation response) likely representing peripheral annotations. The ReCIPE re-added proteins imply a curated, cohesive group rather than random neighbors.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901766","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0031342","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0017000","count":1}]},{"hash":"725461931224705441","title":"Membrane Ion Transport and Homeostasis","description":"The top GO terms point to transport of multiple ions (sodium, potassium, calcium, copper, protons) across plasma membranes and the maintenance of intracellular ion balance, with an additional hint of energy involvement (ATP biosynthetic process). This combination fits a cluster of membrane transporters and ion homeostasis proteins.","confidence":"High","size":22,"edges":21,"triangles":0,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:1990938","count":2},{"id":"GO:0006883","count":2},{"id":"GO:0097623","count":2},{"id":"GO:0010107","count":2},{"id":"GO:0051208","count":2}]},{"hash":"1033083493387440600","title":"Cardiovascular development and angiogenic signaling","description":"The top GO terms cluster around developmental processes with a focus on heart and vascular development (skeletal muscle development, cardiac neural crest contribution to heart development, VEGF response, and angiogenesis). Retinoic acid signaling and cell-cycle related terms also appear, but the dominant theme is cardiovascular development and angiogenic signaling, with some noise from unrelated terms like immune signaling. Confidence: Medium","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0050853","count":8},{"id":"GO:0007519","count":8},{"id":"GO:0071300","count":6},{"id":"GO:0045766","count":6},{"id":"GO:0007095","count":6}]},{"hash":"1842637558518209866","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":229,"triangles":1501,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2001295","count":7},{"id":"GO:0042759","count":7},{"id":"GO:0006099","count":7},{"id":"GO:0033512","count":7},{"id":"GO:0006096","count":6}]},{"hash":"697799916788526544","title":"Unknown","description":"The GO terms span translation initiation, actin regulation, synaptic vesicle endocytosis, pigmentation, and retinal development, with no single dominant function linking all proteins; thus Unknown.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0002188","count":2},{"id":"GO:0046549","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0048488","count":2}]},{"hash":"329465724924425943","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":21,"triangles":0,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0042752","count":2},{"id":"GO:0006986","count":1},{"id":"GO:0045454","count":1},{"id":"GO:0006458","count":1},{"id":"GO:0090084","count":1}]},{"hash":"1692551553941113774","title":"RNA Pol II Transcription Regulation & Chromatin Remodeling","description":"The dominant GO terms center on transcription control (DNA-templated transcription; negative regulation of transcription by RNA polymerase II) and chromatin remodeling, with several condition-specific regulations of transcription from RNA Pol II promoters, indicating a cohesive theme of transcriptional regulation tied to chromatin state.","confidence":"High","size":22,"edges":5,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0000122","count":4},{"id":"GO:0043044","count":3},{"id":"GO:1901714","count":3},{"id":"GO:0061414","count":3}]},{"hash":"751527719981230797","title":"Ribosome Biogenesis and RNA Processing","description":"The top GO terms cluster around ribosome biology and RNA metabolism: export of the small ribosomal subunit, cytoplasmic translation, tRNA modification, and rRNA methylation, pointing to functions in ribosome assembly and RNA processing. Additional terms related to protein quality control and aging may reflect cellular stress contexts but do not override the primary ribosome/RNA theme.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0000056","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0006400","count":2},{"id":"GO:0006289","count":2}]},{"hash":"279596872798004135","title":"Dendritic spine morphogenesis and synaptic organization","description":"The top GO terms cluster around neuronal synapse development and function: dendritic spine morphogenesis, protein localization to the synapse, receptor clustering, and related signaling pathways (Rho, JNK). While mitotic cell cycle and transcription terms appear (likely from shared developmental programs), the dominant theme is synapse formation and regulation of neuronal signaling.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0006351","count":8},{"id":"GO:0032436","count":7},{"id":"GO:0046329","count":7},{"id":"GO:0007266","count":6}]},{"hash":"957681555795851951","title":"Mitochondrial transport and metabolic regulation","description":"The top terms cluster around mitochondrial transport: L-ornithine, phosphate, pyrimidine nucleotides, and thiamine pyrophosphate transmembrane transport into or across mitochondrial membranes, plus related metabolic regulatory terms (fatty acid response, insulin secretion, liver regeneration). This suggests a cohesive role in mitochondrial metabolite handling rather than a single specific pathway.","confidence":"Medium","size":22,"edges":19,"triangles":6,"max_degree":7,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0070542","count":11},{"id":"GO:0060546","count":11},{"id":"GO:0000066","count":10},{"id":"GO:0035435","count":10},{"id":"GO:1990519","count":10}]},{"hash":"1669253032304186923","title":"Immune Receptor Signaling and Apoptotic Stress Response","description":"The cluster shows enrichment for T cell and B cell receptor signaling, downstream stress-signaling (JNK, NF-kB), and intrinsic apoptotic pathways in response to ER stress, with some cell cycle terms likely reflecting shared signaling modules; overall, it points to immune receptor signaling integrated with stress-induced apoptosis.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0007254","count":3},{"id":"GO:0050853","count":3}]},{"hash":"1428862883026425616","title":"Regulatory Signaling and Development","description":"This cluster is enriched for terms involving regulation of signaling pathways (e.g., erythropoietin signaling, NFAT regulation, cytokine production) and developmental processes (cardiac neural crest\u2013related heart development), alongside cell cycle regulatory steps (mitotic G2 checkpoint, re-entry into mitosis). The common thread appears to be proteins that modulate signaling cascades and developmental programs, rather than a single specific pathway, justifying a broad label that emphasizes regulatory signaling in development and cell cycle control.","confidence":"Medium","size":22,"edges":93,"triangles":107,"max_degree":15,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":22},{"id":"GO:0007095","count":22},{"id":"GO:0000320","count":22},{"id":"GO:0010954","count":22},{"id":"GO:0038162","count":22}]},{"hash":"1067344447544264956","title":"Unknown","description":"The set of top GO terms spans axon regeneration, various cell-cycle and DNA damage checkpoint processes, multiple cytokine signaling and production (erythropoietin, IL-4, GM-CSF), transcriptional regulation, and development (cardiac neural crest). This breadth shows no single cohesive function or pathway linking the proteins, suggesting a mixed or non-specific cluster rather than a distinct biological module, hence Unknown with no clear label.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":22},{"id":"GO:0007095","count":22},{"id":"GO:0000320","count":22},{"id":"GO:0010954","count":22},{"id":"GO:0038162","count":22}]},{"hash":"1056366159552363574","title":"DNA Damage Response and Apoptosis","description":"The cluster is enriched in terms related to DNA repair, p53-mediated apoptotic signaling, transcription, and calcium signaling, pointing to a cellular stress response axis that governs survival vs. death. Metabolic catabolic terms may reflect broader stress adaptation, but the core theme ties to DNA damage response and apoptotic pathways.","confidence":"Medium","size":22,"edges":50,"triangles":63,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0009154","count":1},{"id":"GO:0006915","count":1},{"id":"GO:0044240","count":1},{"id":"GO:0006694","count":1},{"id":"GO:0072332","count":1}]},{"hash":"799150300433226321","title":"Innate Immunity and Interferon Response Modulators","description":"This cluster is driven by innate-immune GO terms, notably negative regulation of neutrophil activation, innate immune response, and cellular response to type I interferon, with an additional term about virus-mediated suppression of complement activation. Together these imply proteins that modulate host immune defenses and interferon signaling, potentially including virus interaction/immune evasion. Some terms like protein trimerization, RNA polymerase III transcription, and mitotic cell cycle may reflect broader cellular roles or annotation noise but do not override the central immune-related signal.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1902564","count":22},{"id":"GO:0039573","count":8},{"id":"GO:0070206","count":7},{"id":"GO:0001041","count":7},{"id":"GO:0071357","count":7}]},{"hash":"563241323911377099","title":"Neuronal ubiquitin-dependent proteolysis","description":"The top GO terms are dominated by ubiquitin-dependent protein catabolic processes (SCF-dependent and general proteasomal degradation), suggesting a cluster centered on ubiquitin-proteasome\u2013mediated proteolysis. Several neural-related terms (synapse assembly, neuronal apoptosis, circadian rhythm regulation, and brain development) imply this proteolysis activity is connected to neuronal function and development, supporting a cohesive theme of neuronal proteostasis and related neural processes.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":6},{"id":"GO:1903378","count":6},{"id":"GO:0042787","count":6},{"id":"GO:0030174","count":5},{"id":"GO:0042752","count":5}]},{"hash":"657407556712997338","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006189","count":2},{"id":"GO:0051973","count":1},{"id":"GO:0016032","count":1},{"id":"GO:1904355","count":1},{"id":"GO:0016311","count":1}]},{"hash":"2287647862074987","title":"Regulatory signaling proteins","description":"The top GO terms cluster around regulation of signaling pathways (e.g., erythropoietin signaling, IL-4 and GM-CSF production), transcriptional regulation, cell cycle control, and developmental processes. There isn\u2019t a single unified process, but a common thread is proteins that modulate signaling and cell fate decisions across diverse contexts. Therefore, a concise label capturing this overarching theme is \u201cRegulatory signaling proteins.\u201d","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":22},{"id":"GO:0007095","count":22},{"id":"GO:0000320","count":22},{"id":"GO:0010954","count":22},{"id":"GO:0038162","count":22}]},{"hash":"1799966799405730338","title":"Axon Regeneration and Growth Factor Signaling","description":"The top GO terms converge on neural axon dynamics (positive regulation of axon regeneration, retinal ganglion cell axon guidance) and multiple growth-factor/cytokine pathways (erythropoietin signaling, IL-4 and GM-CSF production, STAT phosphorylation, Kit signaling, collagen-activated tyrosine kinase signaling, regulation of focal adhesion). This suggests a cohesive theme of signaling networks promoting axon growth/regeneration and related cell communication, hence a focused label.","confidence":"High","size":22,"edges":17,"triangles":2,"max_degree":4,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":22},{"id":"GO:0010954","count":22},{"id":"GO:0038162","count":22},{"id":"GO:0032633","count":22},{"id":"GO:0045425","count":22}]},{"hash":"1850100869679943572","title":"Transcriptional Stress Response","description":"The top terms center on DNA-templated transcription and multiple cellular stress responses (hypoxia, oxidative stress, metal ion exposure, unfolded protein response). This suggests the cluster comprises proteins involved in regulating transcription in response to diverse stresses, rather than a single, specific pathway. Some embryonic development terms are present but do not define the core function of the cluster. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:1990910","count":2},{"id":"GO:0071280","count":1},{"id":"GO:0000304","count":1},{"id":"GO:0001892","count":1}]},{"hash":"120869644120144469","title":"Immune and Neural Signaling","description":"This cluster\u2019s top GO terms point to receptor- and cytokine-driven signaling pathways (B cell receptor signaling, erythropoietin and Kit signaling, IL-4 and GM-CSF related production, STAT activation) with additional hints of neural development processes (retinal ganglion cell axon guidance, axon regeneration). The common thread is signaling activity across immune/hematopoietic contexts plus developmental signaling, suggesting a group of proteins involved in broad signaling pathways rather than a single, tight functional niche.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0007519","count":3},{"id":"GO:0048680","count":2},{"id":"GO:0010954","count":2},{"id":"GO:0038162","count":2}]},{"hash":"260130093153714485","title":"Developmental morphogenesis and apoptosis regulation","description":"Based on the GO terms, several entries point to developmental morphogenesis (embryonic digestive tract morphogenesis, atrial septum morphogenesis, lacrimal gland development, otic vesicle formation) and others to negative regulation of apoptosis, suggesting a theme focused on developmental processes with apoptosis control; transcription-related terms are present but do not define a single cohesive function for the entire cluster.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071866","count":1},{"id":"GO:0048557","count":1},{"id":"GO:0060784","count":1},{"id":"GO:0030916","count":1},{"id":"GO:0001195","count":1}]},{"hash":"100517900645953682","title":"Embryonic Organ Morphogenesis and Apoptosis Regulation","description":"The top GO terms cluster around embryonic organ development (otic vesicle formation, lacrimal gland development, atrial septum morphogenesis, embryonic digestive tract morphogenesis) and include negative regulation of apoptotic processes and transcriptional regulation. This suggests a cohesive theme of developmental tissue morphogenesis with controlled cell survival across multiple organs, rather than a single narrowly defined function.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071866","count":2},{"id":"GO:0048557","count":2},{"id":"GO:0060784","count":2},{"id":"GO:0030916","count":2},{"id":"GO:0001195","count":2}]},{"hash":"255978807253070066","title":"RNA and Protein Methylation","description":"The cluster\u2019s top GO terms are dominated by methylation-related processes (RNA guanine-N7-methylation, rRNA methylation, and peptidyl-lysine monomethylation), suggesting a core theme of RNA and protein methylation across the proteins. The other terms point to various metabolic and stress-related pathways often seen in plants, but the central signal remains methylation. Medium","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0036265","count":5},{"id":"GO:0042220","count":4},{"id":"GO:0001300","count":3},{"id":"GO:0031167","count":3},{"id":"GO:0090398","count":3}]},{"hash":"1332151019961203572","title":"Ubiquitin-Dependent Proteolysis and B Cell Signaling","description":"The cluster shows strong signals for ubiquitin-related regulation and proteasomal degradation (negative regulation of ubiquitination, ubiquitin-dependent protein catabolic process, SCF-dependent proteasomal ubiquitin-dependent protein catabolic process, and protein K33-linked ubiquitination) alongside B cell receptor signaling. While there are some developmental terms present (spinal cord development, skeletal muscle differentiation, distal tubule morphogenesis), the predominant theme appears to be ubiquitin-proteasome\u2013mediated regulation intersecting with immune signaling, suggesting proteins involved in modulating B cell pathways through ubiquitination. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0031397","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0021510","count":3},{"id":"GO:0031146","count":3}]},{"hash":"1360905422826229158","title":"H/ACA snoRNP assembly and RNA pseudouridylation","description":"The top GO terms point to box H/ACA snoRNP assembly and snoRNA-guided pseudouridine synthesis of rRNA and snRNA, plus ribosome biogenesis, and telomerase RNA stabilization/localization to Cajal bodies. This suggests a cohesive module of proteins involved in assembling H/ACA snoRNPs and coordinating RNA modification, with an additional connection to telomerase RNA processing.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000454","count":1},{"id":"GO:1904874","count":1},{"id":"GO:0031120","count":1},{"id":"GO:0000493","count":1},{"id":"GO:0090669","count":1}]},{"hash":"927601052227204001","title":"Developmental Morphogenesis and Transcription Regulation","description":"The top GO terms point to diverse developmental processes across multiple organs (digestive tract, otic vesicle, lacrimal gland, heart atrial septum) and to regulation of transcription, including RNA polymerase II and III, suggesting a broad developmental/regulatory cluster rather than a single pathway.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071866","count":1},{"id":"GO:0048557","count":1},{"id":"GO:0060784","count":1},{"id":"GO:0030916","count":1},{"id":"GO:0001195","count":1}]},{"hash":"1209128282313778564","title":"Unknown","description":"The Top Terms are highly mixed: immune-related processes (B cell receptor signaling, memory T cell differentiation) and ubiquitination-related processes, but also plant-specific responses (gravitropism, phototropism). With no edges or connections between proteins, there isn\u2019t a clear, cohesive function linking the group, suggesting this cluster is heterogeneous or artifactual rather than representing a single biological theme.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0007519","count":5},{"id":"GO:0042787","count":5},{"id":"GO:0043380","count":4},{"id":"GO:0009958","count":4}]},{"hash":"1554546886024068850","title":"Unknown","description":"The top GO terms are highly heterogeneous, spanning plant tropisms (gravitropism, phototropism), vertebrate immune signaling (B cell receptor signaling, memory T cell differentiation), cell cycle machinery (spindle midzone localization), and ubiquitination/oxidative stress responses, with no dominant shared function. The lack of connectivity (Edges: 0) further suggests no cohesive functional module, so no specific biological label beyond Unknown.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":4},{"id":"GO:0009958","count":4},{"id":"GO:0045497","count":4},{"id":"GO:0009638","count":4},{"id":"GO:0050853","count":4}]},{"hash":"161104826996635497","title":"Unknown","description":"The terms mix immune signaling (innate immune response, B cell receptor signaling) with RNA processing and plant-specific tropisms and development, giving no coherent, single biological theme for the cluster. The lack of consistent functional signal and the zero edges suggest annotation noise rather than a real shared function. ","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0006397","count":2},{"id":"GO:1902416","count":2},{"id":"GO:0043380","count":2},{"id":"GO:0009958","count":2}]},{"hash":"1106635452186413886","title":"Unknown","description":"The top GO terms span very diverse processes (RNA processing, cell cycle checkpoints, signaling pathways, immune signaling, development) with no clear common function tying the proteins together, so a single coherent label cannot be assigned.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000492","count":1},{"id":"GO:0048680","count":1},{"id":"GO:0007095","count":1},{"id":"GO:0000320","count":1},{"id":"GO:0010954","count":1}]},{"hash":"931668739272020270","title":"Nervous System Development and Axonogenesis","description":"The top GO terms are dominated by neural development and axon-related processes (axonogenesis, forebrain/midbrain development, and axonal transport of mitochondria), plus a phenotype (adult walking behavior) associated with nervous system function. A couple of terms (DNA recombination, macrophage homeostasis) are peripheral outliers, but the strongest shared signal points to nervous system development and activity.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006310","count":1},{"id":"GO:0061519","count":1},{"id":"GO:0050905","count":1},{"id":"GO:0007409","count":1},{"id":"GO:0007385","count":1}]},{"hash":"690157656173968825","title":"Plant chromatin remodeling and nucleosome assembly","description":"This cluster is dominated by chromatin-related terms (nucleosome assembly, chromatin remodeling) and DNA-structure aspects (G-quadruplex DNA formation, snRNA transcription), with plant hormone response terms (salicylic acid, ethylene) suggesting a plant-specific transcriptional regulation context. The shared theme centers on chromatin organization and gene regulation in plants.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":1},{"id":"GO:0071919","count":1},{"id":"GO:0009751","count":1},{"id":"GO:0016032","count":1},{"id":"GO:1904850","count":1}]},{"hash":"12396218832466890","title":"Unknown","description":"The top GO terms span diverse, mostly plant-specific metabolic and signaling processes (aerenchyma formation, camalexin biosynthesis, methionine salvage/S-methylmethionine cycle, choline/betaine catabolism) and a few unrelated pathways (endocannabinoid signaling, triglyceride catabolism). No single cohesive function or shared pathway emerges, so a precise label is not supported.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042426","count":1},{"id":"GO:0042558","count":1},{"id":"GO:0071267","count":1},{"id":"GO:0006579","count":1},{"id":"GO:0050666","count":1}]},{"hash":"1996915825689632073","title":"Transcription Regulation and RNA Processing","description":"This cluster centers on transcription-related processes (regulation of DNA-templated transcription and transcription elongation) and RNA metabolism (mRNA processing, tRNA wobble uridine modification, RNA repair), with a few DNA repair terms. The dominant theme is gene expression control and RNA metabolism, making this label a good summary for the cluster.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":1},{"id":"GO:0006368","count":1},{"id":"GO:0007474","count":1},{"id":"GO:0006307","count":1},{"id":"GO:0042245","count":1}]},{"hash":"1077075539362833439","title":"Organ morphogenesis and apoptosis regulation","description":"This cluster centers on developmental morphogenesis across multiple organs (otic vesicle formation, atrial septum morphogenesis, lacrimal and digestive tract development) and on negative regulation of apoptosis, with a few transcriptional regulation terms that align with developmental control and tissue homeostasis. Together, these terms point to a theme of organ development paired with controlled cell survival.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071866","count":2},{"id":"GO:0048557","count":2},{"id":"GO:0060784","count":2},{"id":"GO:0030916","count":2},{"id":"GO:0001195","count":2}]},{"hash":"2228165640581138223","title":"Developmental morphogenesis and transcription","description":"This cluster centers on embryonic development and tissue morphogenesis, with GO terms for multicellular organism development, otic vesicle formation, atrial septum morphogenesis, and digestive tract morphogenesis. It also includes DNA-templated transcription and transcription elongation fidelity, plus a TGF-beta stimulus response and actin cytoskeleton remodeling, suggesting a coordinated program of developmentally regulated transcription and morphogenesis rather than a single pathway.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0030042","count":2},{"id":"GO:0071866","count":1}]},{"hash":"777628858244578659","title":"Innate Immune Response and Antiviral Defense","description":"The top GO terms are dominated by immune-related functions (innate immune response, defense response to virus, B cell receptor signaling), indicating an immune signaling cluster. While other terms (muscle development, rRNA maturation, and RNA catabolic processes) appear, they are fewer and likely peripheral annotations. Overall, the core theme centers on immune and antiviral response pathways.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0071919","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0007519","count":2},{"id":"GO:0051301","count":2}]},{"hash":"1068144379878196246","title":"Developmental Gene Regulation","description":"The enrichment centers on multicellular development terms (forebrain development, neural tube closure, skeletal and skin development) and DNA-templated transcription, suggesting proteins involved in developmental programs and transcriptional control. Ribosome biogenesis and ubiquitin-dependent ERAD pathway terms hint at core cellular maintenance, while a defense response term appears less connected. Overall, the cluster seems to reflect developmental regulation with transcriptional control as a central theme.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0050830","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0030433","count":2}]},{"hash":"922829519466804436","title":"Chromatin remodeling and nucleosome assembly","description":"The top terms cluster around chromatin organization and DNA dynamics, notably nucleosome assembly and chromatin remodeling, with supporting signals from DNA structure (G-quadruplex formation) and snRNA transcription. This suggests proteins involved in chromatin dynamics and transcription regulation, even though other terms reflect broader plant signaling contexts.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035522","count":2},{"id":"GO:0006334","count":1},{"id":"GO:0071919","count":1},{"id":"GO:0009751","count":1},{"id":"GO:0016032","count":1}]},{"hash":"1382699738352913209","title":"Cell cycle and ribosome biogenesis","description":"The top GO terms cluster around cell proliferation and protein synthesis\u2014cell division, mitotic cell cycle, cell cycle, and ribosome biogenesis with tRNA modification. Additional terms point to growth-related processes and organelle targeting, fitting a growth/translation\u2013related module, despite some broader or stress-related terms. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0000747","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0090529","count":3}]},{"hash":"1880221584700338651","title":"Unknown","description":"The top GO terms are highly diverse and cover plant tropisms (gravitropism, phototropism), immune signaling (B cell receptor signaling), ubiquitination regulation, and kidney development, with only single-term hits and no shared pathway or function. With edges and triangles at zero, there\u2019s no cohesive theme linking these proteins, so the cluster cannot be reasonably named beyond Unknown.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":1},{"id":"GO:0009958","count":1},{"id":"GO:0045497","count":1},{"id":"GO:0009638","count":1},{"id":"GO:0050853","count":1}]},{"hash":"1394218466161938308","title":"ECM-Immune Adhesion Signaling","description":"The dominant terms point to extracellular matrix interactions (integrin signaling, cell-matrix adhesion) and immune-related pathways (complement activation, coagulation), suggesting a theme of ECM remodeling coupled with immune signaling; a chlorophyll biosynthesis term appears as an outlier.","confidence":"Medium","size":21,"edges":28,"triangles":15,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0015995","count":2},{"id":"GO:1901202","count":1},{"id":"GO:0035987","count":1},{"id":"GO:0002291","count":1},{"id":"GO:0007161","count":1}]},{"hash":"697244804000278007","title":"Unknown","description":"The terms are highly diverse, spanning biosynthetic pathways (histidine, thiamine, xylulose, pentose phosphate), protein assembly, endocytosis/ extracellular transport, iron response, and even thalamus development. There is no clear, shared function or pathway uniting most proteins in this cluster, suggesting a heterogeneous set rather than a cohesive module.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051262","count":2},{"id":"GO:0006897","count":1},{"id":"GO:0006858","count":1},{"id":"GO:0000105","count":1},{"id":"GO:0075139","count":1}]},{"hash":"251539220764987791","title":"Immune signaling and stress-induced apoptosis","description":"The terms point to immune signaling (negative regulation of neutrophil activation, T cell receptor signaling, NF-kB activity) integrated with stress-responsive pathways (JNK cascade, intrinsic ER-stress\u2013mediated apoptosis) and cell fate regulators (apoptosis and cell cycle checkpoints), suggesting a cluster of proteins coordinating immune signaling with stress-induced cell fate decisions rather than a single, narrow function.","confidence":"Medium","size":21,"edges":58,"triangles":32,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1902564","count":18},{"id":"GO:0050852","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0051965","count":5},{"id":"GO:0007254","count":5}]},{"hash":"473682755382794986","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030433","count":7},{"id":"GO:0000278","count":6},{"id":"GO:0000466","count":5},{"id":"GO:0051260","count":5},{"id":"GO:2000601","count":5}]},{"hash":"1198265437737149451","title":"Unknown","description":"The top GO terms are highly mixed across biological processes (immune signaling such as memory T cell differentiation and B cell receptor signaling, protein ubiquitination regulation, and plant growth responses like phototropism/gravitropism) with no clear shared function linking the 21 proteins. This suggests no coherent, single theme for the cluster.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":10},{"id":"GO:0009958","count":10},{"id":"GO:0045497","count":10},{"id":"GO:0009638","count":10},{"id":"GO:0050853","count":10}]},{"hash":"1456675211486258768","title":"Immune and Angiogenic Receptor Signaling","description":"This cluster is dominated by GO terms tied to cell surface receptor signaling pathways, including B cell and T cell receptor signaling, and serine/threonine kinase signaling, along with angiogenesis and VEGF receptor signaling. These together suggest proteins involved in receptor-mediated signal transduction that influence both immune activation and vascular development, with a few outliers that may reflect broader or cross-annotated processes.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0051092","count":7},{"id":"GO:0050853","count":7},{"id":"GO:0007178","count":7},{"id":"GO:0033138","count":7},{"id":"GO:0022038","count":7}]},{"hash":"333813725980195858","title":"Chromatin Regulation in Muscle Development","description":"The cluster\u2019s prominent GO terms cluster around chromatin organization and transcription control (nucleosome positioning and density, DNA-templated transcription, heterochromatin formation, DNA methylation). Additional terms point to muscle biology (denervation-related muscle adaptation, regulation of skeletal muscle fiber development) and stress signaling (MAPK cascade, hydrogen peroxide\u2013mediated programmed cell death), suggesting a chromatin-focused regulatory program with a muscle development context.","confidence":"Medium","size":21,"edges":136,"triangles":614,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016584","count":5},{"id":"GO:0060303","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0031939","count":4},{"id":"GO:0014894","count":4}]},{"hash":"219765915349872242","title":"Chromatin Regulation and Centromere Assembly","description":"The recurrent GO terms point to chromatin organization (heterochromatin formation, CENP-A chromatin assembly, histone methylation regulation) and nuclear RNA processing (non-stop decay), suggesting proteins in this cluster mainly participate in chromatin regulation and nuclear quality control. Some terms involve immune cell migration and defense responses, which may reflect broader roles or annotation noise, but the dominant theme remains chromatin and nuclear processing.","confidence":"Medium","size":21,"edges":130,"triangles":464,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0030466","count":11},{"id":"GO:2000973","count":10},{"id":"GO:1904815","count":10},{"id":"GO:0070481","count":10},{"id":"GO:0071674","count":10}]},{"hash":"1778045315875484009","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071039","count":1},{"id":"GO:0070481","count":1},{"id":"GO:0000467","count":1},{"id":"GO:0045006","count":1},{"id":"GO:0008033","count":1}]},{"hash":"1888522511320905712","title":"Lipid Metabolism","description":"This cluster is best labeled Lipid Metabolism because the top GO term is GO:0006629 lipid metabolic process. The cluster\u2019s annotation is dominated by that single lipid-processing term, suggesting a shared functional theme around lipid metabolism. However, only one annotation is present, so the signal is weak and the assignment should be treated as tentative.","confidence":"Low","size":21,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006629","count":1}]},{"hash":"433866171115799252","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":1},{"id":"GO:0015074","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0075713","count":1}]},{"hash":"1186698372832219093","title":"Immune signaling and hematopoietic regulation","description":"The top GO terms point to immune modulation and blood cell regulation, with strong representation of negative regulation of neutrophil activation, interleukin-4 production, GM-CSF production, and erythropoietin-mediated signaling. While DNA damage response and cell cycle terms are present, the predominant signal centers on cytokine signaling and hematopoiesis, suggesting this cluster reflects immune/hematopoietic regulation rather than strictly DNA repair. ","confidence":"Medium","size":21,"edges":86,"triangles":12,"max_degree":16,"top_function":"DNA repair","top_go_terms":[{"id":"GO:1902564","count":15},{"id":"GO:0007095","count":7},{"id":"GO:0006281","count":7},{"id":"GO:0048680","count":6},{"id":"GO:0000320","count":6}]},{"hash":"181664573914943253","title":"Core growth and division processes","description":"The GO terms cluster around cell proliferation mechanics (cell division, cell cycle, septum assembly) alongside core biosynthesis and translation (ribosome biogenesis, tRNA modification, thiamine biosynthesis, glucose catabolic process), with a note of chloroplast protein targeting. Together, they point to fundamental housekeeping functions supporting growth and division rather than a specialized pathway.","confidence":"Medium","size":21,"edges":31,"triangles":20,"max_degree":13,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0009228","count":3},{"id":"GO:0043046","count":3},{"id":"GO:0090529","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0006400","count":3}]},{"hash":"490180720412926864","title":"Neutrophil Activation Inhibition","description":"This cluster is dominated by the GO term negative regulation of neutrophil activation (21 proteins), indicating a cohesive immune-regulatory theme. Other terms such as interferon response or cell cycle-related processes appear but are less prominent; the strongest signal is suppression of neutrophil activity.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":21},{"id":"GO:0071357","count":5},{"id":"GO:0070206","count":4},{"id":"GO:0001041","count":4},{"id":"GO:0051301","count":4}]},{"hash":"591727499355632904","title":"Innate Immune Regulation and Ubiquitin-Dependent Proteolysis","description":"This cluster centers on innate immune activity (innate immune response) and suppression of neutrophil activation, together with ubiquitin-dependent proteolysis, suggesting a module that coordinates immune signaling with protein turnover. The presence of microtubule localization and DNA damage/checkpoint signals hints at stress-responsive, cell-cycle\u2013related regulation, supporting a theme of immune regulation linked to proteostasis and stress response.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":5},{"id":"GO:0035372","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0042787","count":2}]},{"hash":"367864722153156964","title":"Neural development via ubiquitin signaling and cytoskeleton","description":"The cluster centers on brain-related development and synapse formation (third ventricle development, synapse assembly) and combines this with ubiquitin-mediated protein turnover (ubiquitin-dependent catabolic process, positive regulation of polyubiquitination) and cytoskeletal remodeling (microtubule polymerization), pointing to coordinated signaling and structural changes during neural development. Some terms also touch on circadian regulation and metal response, but the dominant signal is neural development tied to ubiquitin signaling and cytoskeletal dynamics.","confidence":"Medium","size":21,"edges":32,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0030174","count":1},{"id":"GO:0042752","count":1},{"id":"GO:0008285","count":1},{"id":"GO:0021678","count":1}]},{"hash":"2032480115999599601","title":"Ubiquitin-Proteasome Regulation and Stress Response","description":"This cluster centers on ubiquitin-mediated proteolysis (positive regulation of protein polyubiquitination; SCF-dependent proteasomal degradation), with connections to cell-cycle/DNA damage regulation and stress responses (cadmium/methylmercury exposure, oxidative stress, neuronal apoptosis). The inclusion of circadian rhythm regulation and synapse assembly suggests broader roles in neural signaling tied to proteostasis. Overall, the common theme is proteostasis via ubiquitin-proteasome pathways integrated with stress signaling.","confidence":"High","size":21,"edges":24,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":10},{"id":"GO:0030174","count":10},{"id":"GO:0042752","count":10},{"id":"GO:0031146","count":10},{"id":"GO:1903378","count":10}]},{"hash":"1203928047948878436","title":"Neuronal ubiquitin-proteasome stress signaling","description":"The cluster is enriched for ubiquitination and proteasomal degradation processes (protein polyubiquitination, SCF-dependent proteasomal ubiquitin-dependent protein catabolic process, positive regulation of ubiquitination), as well as neuronal stress responses (oxidative stress-induced neuronal apoptotic signaling) and metal toxicity responses (methylmercury and arsenic exposure). These together point to a theme of proteostasis and stress signaling in neurons, with ubiquitin-mediated regulation being central. Some terms about circadian rhythm and DNA damage checkpoint are broader regulatory associations but do not outweigh the core ubiquitination/stress-nervous system theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030174","count":3},{"id":"GO:0042752","count":3},{"id":"GO:0071406","count":3},{"id":"GO:0060386","count":3},{"id":"GO:1902916","count":3}]},{"hash":"800049767540913198","title":"Cellular stress signaling and immune regulation","description":"The top GO terms cluster around stress and signaling pathways: nutrient-sensing via TORC1 and amino acid starvation response, immune signaling (type I interferon response, neutrophil activation regulation, NF-kappaB-related transcription regulation), and cell fate decisions (apoptotic process). Added terms about protein trimerization and microtubule localization suggest structural remodeling accompanying stress responses. Taken together, the cluster seems to reflect a broad theme of cellular stress signaling intertwined with immune and apoptotic regulation rather than a single specific pathway.","confidence":"Medium","size":21,"edges":102,"triangles":9,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":9},{"id":"GO:0070206","count":2},{"id":"GO:0034198","count":2},{"id":"GO:1903343","count":2},{"id":"GO:0001041","count":2}]},{"hash":"1278875888963545931","title":"Ubiquitin-Proteasome Regulators and Stress Responses","description":"This cluster centers on proteostasis-related regulation: several terms involve ubiquitination and SCF-dependent proteasomal degradation, plus regulation of circadian rhythm and DNA replication initiation/DNA damage checkpoints, which tie into cell-cycle control and stress signaling. Additional terms for oxidative stress-induced neuronal apoptosis, heavy metal responses, and synapse assembly suggest broader neuronal stress and remodeling contexts. Altogether, the proteins appear to function as regulators of protein turnover and stress-response pathways across cell-cycle and neuronal contexts.","confidence":"Medium","size":21,"edges":89,"triangles":147,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":4},{"id":"GO:0030174","count":4},{"id":"GO:0042752","count":4},{"id":"GO:0031146","count":4},{"id":"GO:1903378","count":4}]},{"hash":"575121572853142480","title":"Unknown","description":"The GO terms span plant tropism (gravitropism, phototropism), immune signaling (B cell receptor signaling, memory T cell differentiation), development terms, and disparate ubiquitination-related processes with no clear common function. With no edges or interconnected themes among the terms, there isn\u2019t a cohesive biological role to label the cluster beyond Unknown.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":3},{"id":"GO:0009958","count":3},{"id":"GO:0045497","count":3},{"id":"GO:0009638","count":3},{"id":"GO:0050853","count":3}]},{"hash":"1225827464867589747","title":"Bacterial envelope biosynthesis & biofilm","description":"Top terms suggest biosynthesis of cell envelope components (lipid A, LPS, undecaprenyl phosphate\u2013linked glycans) and surface structures (spore wall), plus biofilm formation and antibiotic response. While some terms are less directly related (e.g., microautophagy), the dominant theme is envelope biogenesis and surface remodeling in bacteria, hence the label.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019428","count":1},{"id":"GO:0036108","count":1},{"id":"GO:0042710","count":1},{"id":"GO:0034232","count":1},{"id":"GO:0009103","count":1}]},{"hash":"916323209765388838","title":"Unknown","description":"GO terms span immune signaling (B cell receptor signaling, germinal center formation), muscle development (skeletal muscle tissue and fiber development), kidney development (distal tubule morphogenesis, sodium absorption), circadian rhythm, and ubiquitination regulation, with no single unifying function. The diverse set of processes suggests no cohesive pathway or function ties the proteins together. Confidence: None","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0007519","count":4},{"id":"GO:0031397","count":3},{"id":"GO:2000312","count":3},{"id":"GO:1990390","count":3}]},{"hash":"244617677967580779","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000480","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0016441","count":1},{"id":"GO:0002181","count":1}]},{"hash":"540514852105083342","title":"Endocytosis and Membrane Trafficking","description":"The proteins show enrichment for endocytic and trafficking processes (pinocytosis, GPCR internalization, endocytic recycling) and related organelle dynamics and targeting (mitochondrial fragmentation/inheritance, chloroplast targeting), indicating a membrane trafficking/organellar transport role.","confidence":"Medium","size":21,"edges":20,"triangles":0,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0006907","count":1},{"id":"GO:0043653","count":1},{"id":"GO:0001300","count":1},{"id":"GO:0000001","count":1},{"id":"GO:0014009","count":1}]},{"hash":"1929000379528480380","title":"Developmental signaling and cell cycle regulation","description":"This cluster groups proteins involved in multiple regulatory signaling pathways (erythropoietin signaling, IL-4 and GM-CSF production, NFAT/calcineurin signaling) together with cell cycle control and developmental processes (mitotic checkpoints, re-entry into mitosis, cardiac neural crest\u2013related heart development). The common theme appears to be regulators balancing signaling cues during development and immune responses with control of cell proliferation.","confidence":"Medium","size":21,"edges":11,"triangles":0,"max_degree":11,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":17},{"id":"GO:0007095","count":17},{"id":"GO:0000320","count":17},{"id":"GO:0010954","count":17},{"id":"GO:0038162","count":17}]},{"hash":"862463208820159221","title":"Chromatin Remodeling and Transcription Regulation","description":"These proteins show GO terms for chromatin remodeling and regulation of DNA-templated transcription, suggesting a shared role in controlling transcription through chromatin state. The theme is present but supported by only single-term annotations and no interaction data, so the label is moderately confident.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":1},{"id":"GO:0006338","count":1}]},{"hash":"690096238967565195","title":"Unknown","description":"The top GO terms span very different biology (fungal spindle pole body remodeling, ERBB2 signaling, plant stomatal closure, neuronal dendrite growth, calcium signaling, DNA biosynthesis, and viral DNA replication), with no single, shared function or pathway tying the proteins together. This suggests heterogeneous roles rather than a coherent cluster function, so a generic Unknown label with None confidence is appropriate.","confidence":"","size":21,"edges":20,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0031322","count":1},{"id":"GO:0038128","count":1},{"id":"GO:1903861","count":1},{"id":"GO:0090332","count":1},{"id":"GO:0080148","count":1}]},{"hash":"35135295209936936","title":"Sphingolipid Biosynthesis and Serine Metabolism","description":"The top GO terms cluster around sphingolipid metabolism (sphingolipid metabolic process; phosphatidylserine metabolic process), regulation of serine palmitoyltransferase activity, and serine transport, all pointing to serine-driven sphingolipid biosynthesis. Myelination and ER stress-related terms further support a nervous-system lipid metabolism context. Together these suggest a cohesive theme of sphingolipid biosynthesis linked to serine metabolism, rather than unrelated processes.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904222","count":1},{"id":"GO:1904219","count":1},{"id":"GO:0042552","count":1},{"id":"GO:0006665","count":1},{"id":"GO:0009597","count":1}]},{"hash":"1286668539402274347","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":208,"triangles":1293,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0030154","count":2},{"id":"GO:0034354","count":1},{"id":"GO:0032693","count":1},{"id":"GO:0019441","count":1},{"id":"GO:0036269","count":1}]},{"hash":"723534560637583590","title":"Unknown","description":"The listed GO terms span metabolic synthesis (histidine biosynthesis), immune signaling (NF-kappaB), epithelial polarity and development (planar polarity, Wnt signaling, ossification), and muscle regulation, plus obsolete pathways. There is no clear, shared function connecting most proteins, and several terms are outdated; with only 13 edges and no triangles, a coherent theme cannot be inferred. ","confidence":"","size":21,"edges":13,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000105","count":1},{"id":"GO:1902564","count":1},{"id":"GO:0090163","count":1},{"id":"GO:0019933","count":1},{"id":"GO:0010519","count":1}]},{"hash":"1064041392848674173","title":"Translation Machinery and Mitochondrial Bioenergetics","description":"The GO terms point to core protein synthesis processes (cytosolic ribosome assembly, translation, and regulation of translation) alongside mitochondrial energy-related terms (mitochondrial electron transport and Complex II assembly). Although there are a few outliers (mitotic spindle elongation, an obsolete Wnt term), the dominant signal ties translation machinery to mitochondrial function, suggesting a shared cellular-bioenergetics role for this cluster.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044339","count":1},{"id":"GO:0000022","count":1},{"id":"GO:0042256","count":1},{"id":"GO:0006417","count":1},{"id":"GO:0006412","count":1}]},{"hash":"835495676748156321","title":"Mitochondrial dynamics and neuronal endocytosis","description":"The top GO terms point to mitochondrial maintenance and fragmentation in apoptosis, inheritance, and aging, suggesting mitochondrial dynamics. Concurrently, several terms involve endocytic processes (pinocytosis, GPCR internalization, endocytic recycling) and neuronal signaling (GABAergic synaptic transmission), indicating a theme of mitochondrial function together with receptor trafficking at synapses, particularly in neurons. Some terms are obsolete, but the core signal links mitochondrial dynamics to neuronal endocytosis.","confidence":"Medium","size":21,"edges":35,"triangles":0,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":3},{"id":"GO:0006907","count":2},{"id":"GO:0043653","count":2},{"id":"GO:0001300","count":2},{"id":"GO:0000001","count":2}]},{"hash":"1425067151916659183","title":"Ubiquitin-Proteasome Regulation and Stress Response","description":"This cluster is enriched for ubiquitin-proteasome\u2013related processes (positive regulation of polyubiquitination; SCF-dependent proteasomal ubiquitin-dependent degradation), indicating a focus on protein turnover. It also includes functions related to cell cycle regulation (circadian rhythm regulation, DNA damage checkpoint signaling) and various stress responses (heavy metals and oxidative stress in neurons, synapse assembly). The common theme appears to be regulation of proteostasis intertwined with cell cycle and stress response pathways, possibly with neuronal context.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":4},{"id":"GO:0030174","count":4},{"id":"GO:0042752","count":4},{"id":"GO:0031146","count":4},{"id":"GO:1903378","count":4}]},{"hash":"1273080872290692761","title":"TLR Signaling and Innate Immunity","description":"The cluster is dominated by GO terms for innate immune response, Toll-like receptor signaling (TLR4 and TLR10), and inflammatory response, indicating a cohesive set of proteins involved in pathogen recognition and inflammation; a few minor terms may reflect annotation noise.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0034142","count":2},{"id":"GO:0006954","count":2},{"id":"GO:1905289","count":1},{"id":"GO:1903215","count":1}]},{"hash":"1480058967144265458","title":"Neural development and axon fasciculation","description":"The cluster is dominated by neuronal development signals, especially fasciculation of motor and sensory axons, plus related neural differentiation and synaptic localization terms. Additional terms hint at broader developmental interactions (ectoderm/mesoderm, tissue development) and some cell-cycle/spindle-associated processes that can accompany development. Immune-related terms appear but are less representative, so the main theme is neural wiring during development.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097156","count":2},{"id":"GO:0097155","count":2},{"id":"GO:0001806","count":2},{"id":"GO:0050798","count":2},{"id":"GO:0007050","count":1}]},{"hash":"1979229502172430292","title":"Unknown","description":"This cluster has no interactions or GO-term signals (Edges 0, Triangles 0, Max Degree 0, no Top Terms), so there is no detectable shared function or theme to name it. The appropriate label is Unknown.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"380086480776418972","title":"Unknown","description":"The terms span neural signaling, development in multiple tissues, immune and inflammatory responses, and even plant development, with no single shared pathway or cohesive function linking all proteins. Edges are also absent, so a specific, representative label cannot be assigned.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900383","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0030259","count":1},{"id":"GO:0007289","count":1},{"id":"GO:0043403","count":1}]},{"hash":"208622364542957507","title":"Unknown","description":"The top GO terms span diverse biological contexts, including immune signaling (B cell receptor signaling, germinal center formation), muscle development, kidney morphogenesis and ion transport, circadian rhythms, and ubiquitination regulation, with no clear single function tying all proteins together. ","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0007519","count":5},{"id":"GO:0031397","count":4},{"id":"GO:2000312","count":4},{"id":"GO:1990390","count":4}]},{"hash":"529014869920678305","title":"Developmental Differentiation Regulators","description":"Top GO terms show involvement in various tissue-specific differentiation processes (placenta, erythrocyte, osteoblast, seed maturation) alongside regulation of transcription in response to nutrients and growth signals (nutrient-responsive transcription, IGF signaling, interferon response). This suggests the cluster captures proteins that broadly regulate development and growth-associated transcription rather than a single pathway. However, the diverse and weakly connected terms and lack of interaction evidence make the labeling tentative.","confidence":"Low","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010691","count":1},{"id":"GO:0001080","count":1},{"id":"GO:2000121","count":1},{"id":"GO:0001892","count":1},{"id":"GO:2000693","count":1}]},{"hash":"1681848122989810216","title":"Spindle Assembly and Microtubule Dynamics","description":"The GO terms cluster around microtubule-based processes: spindle midzone assembly, mitotic/metaphase chromosome handling, plus- and minus-end microtubule dynamics, and nuclear migration along microtubules, indicating a cohesive focus on spindle formation and cytoskeletal organization. Additional terms about chloroplast movement and extracellular-growth regulation align with cytoskeletal transport and polarity, supporting a unified theme of microtubule-driven spindle dynamics.","confidence":"High","size":20,"edges":19,"triangles":0,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0051255","count":2},{"id":"GO:1990942","count":2},{"id":"GO:0009904","count":2},{"id":"GO:0070462","count":2},{"id":"GO:0051296","count":2}]},{"hash":"85097437129644151","title":"ERAD and ER stress\u2013autophagy regulation","description":"The cluster centers on ER-associated degradation (ERAD), ER membrane handling (tail-anchored protein insertion), and regulation of autophagy and ER-stress\u2013related pathways, with aggresome assembly highlighting misfolded protein management. While a nuclear pore localization term is less central, the overall theme is ER proteostasis and quality control.","confidence":"High","size":20,"edges":36,"triangles":65,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":5},{"id":"GO:0090204","count":4},{"id":"GO:1901340","count":4},{"id":"GO:1901097","count":4},{"id":"GO:0000753","count":4}]},{"hash":"635136698532658785","title":"Developmental differentiation and transcriptional regulation","description":"The terms point to transcriptional control (RNA polymerase II) coupled with broad lineage specification across tissues\u2014neural (GABAergic interneurons, subpallium fate, oligodendrocyte fate), immune (IL-4 response, TH2 differentiation), pancreatic development, bronchiole development, and osteoblast regulation\u2014suggesting a cluster of proteins involved in coordinating developmental differentiation programs via transcriptional regulation.","confidence":"Medium","size":20,"edges":155,"triangles":816,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":7},{"id":"GO:0071353","count":6},{"id":"GO:0060766","count":5},{"id":"GO:0045668","count":5},{"id":"GO:0045064","count":5}]},{"hash":"57090885740229552","title":"Embryonic neural and organ development","description":"The dominant terms point to developmental processes\u2014forebrain development, neural tube closure, skeletal system development, and multicellular organism development\u2014indicating an embryogenesis-focused cluster. Supporting terms about transcription and translation initiation reflect gene expression programs common in development, while a couple of terms (defense response, SREBP signaling) are less central. Overall, the cluster aligns with embryonic neural and organ formation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0007018","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0032933","count":2}]},{"hash":"2001685743123584446","title":"Unknown","description":"The top GO terms are highly diverse, spanning circadian rhythm regulation, flower development, B cell signaling, spindle localization, ubiquitination, wybutosine biosynthesis, protein oligomerization, glutamate receptor activity, and renal ion transport. With no edges or coherent shared function, there is no clear unifying theme for this cluster. Therefore the appropriate label is Unknown.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042752","count":1},{"id":"GO:0009911","count":1},{"id":"GO:0050853","count":1},{"id":"GO:0035853","count":1},{"id":"GO:0031397","count":1}]},{"hash":"1408242152110100635","title":"Viral assembly and release","description":"The cluster shows strong representation for virion assembly, virion capsid assembly, and release from host cells, pointing to a viral particle formation/exit theme. Other GO terms appear as background processes (splicing, mitochondrial import, unfolded protein response) and are less coherent with the main signal.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":2},{"id":"GO:0019068","count":2},{"id":"GO:0009190","count":2},{"id":"GO:0000398","count":2},{"id":"GO:1901407","count":2}]},{"hash":"2046939146914107434","title":"Unknown","description":"The Top Terms span a mix of plant-specific processes (floral organ morphogenesis; raffinose family oligosaccharide biosynthetic process) and animal-related neurological/metabolic terms (synapse organization; acetylcholine catabolic process in the synaptic cleft; receptor internalization; retina development; glucocorticoid response), with no clear shared functional theme. Given there are no interactions (Edges 0) and the GO terms do not converge on a single biological function, this cluster does not exhibit a coherent biological identity.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":4},{"id":"GO:0001507","count":4},{"id":"GO:0019441","count":4},{"id":"GO:0051384","count":4},{"id":"GO:0048444","count":4}]},{"hash":"1512790603761876216","title":"Heart and sensory system development signaling","description":"The GO terms highlight development of heart, inner ear (labyrinthine layer), and visual systems, plus adipose differentiation, with additional terms tied to GPCR signaling regulation and phosphorylation, pointing to developmental signaling across heart and sensory tissues.","confidence":"Medium","size":20,"edges":19,"triangles":0,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0018107","count":3},{"id":"GO:0045444","count":3},{"id":"GO:0010614","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0031914","count":3}]},{"hash":"890597198479708636","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006986","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0006458","count":2},{"id":"GO:0090084","count":2},{"id":"GO:1901621","count":2}]},{"hash":"1226911662220338221","title":"Neural axon guidance and neuro-immune signaling","description":"The cluster centers on neural development processes like axon regeneration, axon fasciculation, and planar polarity, with strong signals for integrin- and erythropoietin-mediated pathways. The presence of immune-related terms (interleukin-12/4 responses, T cell proliferation) suggests concurrent immune signaling influences. Together these terms imply a coordinated program linking axon guidance/development with neuro-immune modulation, meriting the label Neural axon guidance and neuro-immune signaling.","confidence":"Medium","size":20,"edges":188,"triangles":1105,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048680","count":6},{"id":"GO:0046641","count":6},{"id":"GO:0008285","count":6},{"id":"GO:0097156","count":6},{"id":"GO:0070671","count":6}]},{"hash":"991128928038258910","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":153,"triangles":697,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":5},{"id":"GO:0031047","count":5},{"id":"GO:0000398","count":5},{"id":"GO:0045292","count":4},{"id":"GO:0006376","count":4}]},{"hash":"1509225019563796114","title":"Stress-Responsive Translation Regulation","description":"This cluster is characterized by GO terms pointing to cellular stress responses (UV-C, acidic pH, leucine starvation) and signaling pathways that regulate translation in response to stress (GCN2-mediated signaling; regulation of cytoplasmic translation in response to stress; translation regulation tied to UV response). A DNA damage checkpoint signal also fits within stress-response signaling. Together, these terms suggest proteins involved in sensing or signaling stress and modulating protein synthesis accordingly, rather than a single static function.","confidence":"High","size":20,"edges":19,"triangles":0,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0031953","count":1},{"id":"GO:0060733","count":1},{"id":"GO:0071494","count":1},{"id":"GO:1990451","count":1},{"id":"GO:0000077","count":1}]},{"hash":"2191739333401530855","title":"Neuronal cytoskeleton remodeling and transport","description":"The cluster\u2019s terms converge on cytoskeletal regulation and neural development: positive regulation of GTPase activity, Arp2/3-mediated actin nucleation, microtubule-based movement, and mRNA transport, along with spinal cord development. This suggests proteins that coordinate actin and microtubule dynamics to support neuronal growth and intracellular transport, i.e., neurite outgrowth and neuronal maturation. Some annotations (e.g., Okazaki fragment processing) may be less related and add noise, but the dominant theme is neuronal cytoskeleton remodeling and transport.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0051260","count":3},{"id":"GO:2000601","count":3},{"id":"GO:0050731","count":3},{"id":"GO:0007018","count":3}]},{"hash":"235548218721390497","title":"Developmental Morphogenesis and Differentiation","description":"The top GO terms point to developmental processes and morphogenesis (skeletal muscle differentiation, otic vesicle formation, atrial septum morphogenesis, embryonic digestive tract morphogenesis) with supporting signals of growth and differentiation such as TGF-beta response and regulation of cell proliferation in tissue homeostasis. While there are also transcriptional and apoptosis-related terms, the strongest overall theme is development and tissue formation, suggesting this cluster reflects proteins involved in developmental differentiation and morphogenesis.","confidence":"Medium","size":20,"edges":8,"triangles":2,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0071560","count":5},{"id":"GO:0035914","count":5},{"id":"GO:0071866","count":4},{"id":"GO:0048557","count":4}]},{"hash":"901015123689960399","title":"Unknown","description":"The GO terms are a mix of broad nuclear processes (DNA-templated transcription, DNA repair) and diverse developmental/de tissue-specific terms (erythrocyte development, brain ventricle development, uterus morphogenesis) plus an unrelated cell wall organization term; this lacks a single cohesive function or theme for the cluster. Unknown","confidence":"","size":20,"edges":13,"triangles":0,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0006281","count":4},{"id":"GO:0071555","count":3},{"id":"GO:0048821","count":3}]},{"hash":"432213764440843023","title":"Regulatory signaling and mitosis control","description":"Top GO terms indicate modulation of several signaling pathways (positive regulation of canonical NF-kappaB signaling, negative regulation of ERK cascade, and negative regulation of T cell receptor signaling) alongside mitotic processes (positive regulation of exit from mitosis, spindle elongation, and chromosome passenger complex localization). There is also autophagy regulation, suggesting these proteins act as broad signaling modulators coordinating immune signaling with cell-cycle control. Confidence that this label captures the cluster\u2019s function is Medium.","confidence":"","size":20,"edges":91,"triangles":137,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":2},{"id":"GO:0031536","count":1},{"id":"GO:0016239","count":1},{"id":"GO:0070373","count":1},{"id":"GO:0050860","count":1}]},{"hash":"2140138023948888107","title":"Growth Signaling and Cell Cycle Regulation","description":"The cluster is dominated by terms tied to the mitotic cell cycle, development-related signaling (Wnt and Hippo pathways), and regulation of nuclear transport and transcription, suggesting a cohesive theme around growth control and cell fate decisions. Additional terms related to ribosomal transcription and apoptosis support a broader network coordinating proliferation, gene expression, and survival. The presence of an outlier term like visual perception may reflect broad annotations, but the overall pattern points to growth signaling and cell cycle regulation.","confidence":"Medium","size":20,"edges":49,"triangles":52,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":14},{"id":"GO:0007601","count":13},{"id":"GO:0046827","count":11},{"id":"GO:0043065","count":10},{"id":"GO:0001324","count":10}]},{"hash":"721097720269497178","title":"Developmental Transcription and Tissue Homeostasis","description":"This cluster centers on transcriptional regulation (DNA-templated transcription; negative regulation of transcription by RNA Pol II) combined with signaling-responsive programs (IL-4 and TGF-beta responses) that drive development, regeneration, and tissue maintenance. The presence of liver regeneration, adipocyte differentiation, embryonic digestive tract morphogenesis, and regulation of apoptosis and cell proliferation in tissue contexts suggests a cohesive theme of transcription-driven control of development and tissue homeostasis.","confidence":"Medium","size":20,"edges":77,"triangles":166,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0071353","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0070059","count":3}]},{"hash":"2065850058322667182","title":"Chromatin remodeling and DNA repair cluster","description":"This cluster's top GO terms center on chromatin state control (chromatin remodeling, histone modification, rDNA heterochromatin) and DNA recombination/repair (DNA recombination, replication-born double-strand break repair via sister chromatid exchange). A few outlier terms pertain to symbiont-host interactions, but the dominant signal is chromatin dynamics and genome maintenance, justifying the label.","confidence":"High","size":20,"edges":16,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":2},{"id":"GO:0010520","count":2},{"id":"GO:1990414","count":2},{"id":"GO:0035066","count":2},{"id":"GO:0035522","count":2}]},{"hash":"2077684256231390677","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by GO terms related to protein synthesis, notably translation (GO:0006412) and ribosome biogenesis (GO:0042254), as well as aminoacyl-tRNA charging (GO:0006431, GO:0006429). These signals point to a group of proteins involved in the ribosome machinery and translation, with additional (less dominant) signals for transcription elongation and GTPase regulation. Therefore, \"Ribosome biogenesis and translation\" is the most representative label.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":3},{"id":"GO:0060510","count":3},{"id":"GO:0006431","count":3},{"id":"GO:0006429","count":3},{"id":"GO:0008584","count":3}]},{"hash":"1277497538169629553","title":"SRP-mediated membrane targeting and ER quality control","description":"GO terms center on SRP-dependent cotranslational protein targeting to membranes, post-translational membrane targeting, and translocation, together with chaperone-assisted protein refolding and ER stress\u2013related regulation. This suggests a cohesive cluster of proteins involved in directing nascent polypeptides to membranes and maintaining proper folding, with a secondary link to ER stress response and apoptosis regulation.","confidence":"High","size":20,"edges":57,"triangles":90,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0006880","count":5},{"id":"GO:0031204","count":5},{"id":"GO:0070389","count":5},{"id":"GO:1903382","count":5}]},{"hash":"284038344518203867","title":"Unknown","description":"The cluster's GO terms are diverse: DNA-templated transcription, various metabolic processes (methanol, methane, glycine betaine, cholesterol), sporulation, dendritic cell differentiation regulation, and glycolytic regulation. This mix does not point to a single cohesive biological function, so Unknown.","confidence":"","size":20,"edges":19,"triangles":0,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0019285","count":3},{"id":"GO:0015945","count":3},{"id":"GO:0008203","count":3},{"id":"GO:0046188","count":3}]},{"hash":"164776194592559533","title":"Neural development and ubiquitin-mediated proteolysis","description":"The top GO terms cluster around two themes: neural development (third ventricle development; synapse assembly involved in innervation; circadian rhythm regulation) and protein turnover via the ubiquitin-proteasome system (positive regulation of protein polyubiquitination; SCF-dependent proteasomal ubiquitin-dependent protein catabolic process). Microtubule polymerization also supports neuronal structure, suggesting a brain-development\u2013proteostasis axis as the common thread.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030174","count":1},{"id":"GO:0042752","count":1},{"id":"GO:0008285","count":1},{"id":"GO:0021678","count":1},{"id":"GO:0071406","count":1}]},{"hash":"1732784147576231452","title":"Ubiquitin-Proteasome Regulation and DNA Damage Checkpoints","description":"The top terms are dominated by ubiquitin-proteasome\u2013related regulation (positive regulation of polyubiquitination; SCF-dependent proteasomal degradation) and cell-cycle/DNA damage signaling (regulation of DNA replication initiation, mitotic G1 DNA damage checkpoint). Additional terms about circadian rhythm and stress responses (heavy metals) suggest a broader regulatory network, but the core theme centers on proteostasis control intertwined with cell-cycle checkpoints and DNA damage signaling.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":3},{"id":"GO:0030174","count":3},{"id":"GO:0042752","count":3},{"id":"GO:0031146","count":3},{"id":"GO:1903378","count":3}]},{"hash":"1350814955773021113","title":"Ubiquitin-mediated proteostasis and stress signaling","description":"Rationale: The top terms point strongly to ubiquitin pathways and proteasomal degradation (positive regulation of polyubiquitination; SCF-dependent proteasomal ubiquitin-dependent protein catabolic process), with accompanying roles in cell-cycle regulation (G1/S transition) and circadian rhythm. Additional terms reflect cellular stress responses (cadmium, methylmercury, oxidative stress) and neural signaling (synapse assembly), suggesting a cluster centered on ubiquitin-dependent protein turnover coupled to stress- and timing-related signaling in cells.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":6},{"id":"GO:0030174","count":6},{"id":"GO:0042752","count":6},{"id":"GO:0031146","count":6},{"id":"GO:1903378","count":6}]},{"hash":"2223544826725996058","title":"Cytokine signaling and transcription regulation","description":"Most GO terms describe positive regulation of cytokine production and signaling pathways that drive transcription (IL-4, GM-CSF, erythropoietin, NFAT/calcineurin). While development and neural terms and some cell-cycle references appear, the unifying theme is signaling leading to transcriptional activation and cytokine output across immune, hematopoietic, and developmental contexts.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":20},{"id":"GO:0007095","count":20},{"id":"GO:0000320","count":20},{"id":"GO:0010954","count":20},{"id":"GO:0038162","count":20}]},{"hash":"884797462362477061","title":"Unknown","description":"The top GO terms cover neural regeneration, cell cycle control, transcriptional regulation, hematopoietic signaling (erythropoietin, IL-4, GM-CSF), and heart development, with no single unifying function across all members. The cluster appears too functionally diverse to assign a specific, cohesive label. ","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":20},{"id":"GO:0007095","count":20},{"id":"GO:0000320","count":20},{"id":"GO:0010954","count":20},{"id":"GO:0038162","count":20}]},{"hash":"587657270906551021","title":"Ubiquitin-Proteasome Regulation and Stress Response","description":"The cluster centers on ubiquitin-mediated proteolysis (positive regulation of polyubiquitination, SCF-dependent proteasomal degradation) and its connections to circadian regulation and protein turnover. Additional terms reflect cellular stress responses to heavy metals and oxidative stress, which can trigger apoptosis, and cell-cycle related regulation of DNA replication and checkpoints, suggesting a cohesive theme around proteostasis and stress signaling rather than a single narrow function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":1},{"id":"GO:0030174","count":1},{"id":"GO:0042752","count":1},{"id":"GO:0031146","count":1},{"id":"GO:1903378","count":1}]},{"hash":"485553799639904998","title":"Innate Immune Regulation and Interferon Response","description":"This cluster is dominated by GO terms related to innate immunity, notably negative regulation of neutrophil activation and cellular response to type I interferon, indicating a set of proteins that modulate inflammatory signaling. Other terms point to broader immune regulation (innate response, NF-kappaB-related activity) with a few non-core terms (cell cycle, RNA polymerase III transcription) that are less representative. Overall, the core theme is innate immune modulation and interferon-response pathways. ","confidence":"High","size":20,"edges":88,"triangles":0,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1902564","count":12},{"id":"GO:0071357","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0070206","count":2},{"id":"GO:0001041","count":2}]},{"hash":"1711216905228858111","title":"Proteostasis and stress signaling","description":"The terms cluster around ubiquitin-proteasome\u2013mediated protein turnover (polyubiquitination regulation and SCF-dependent degradation) and cellular stress responses (heavy metal exposure, oxidative stress\u2013dependent neuronal apoptosis), with links to cell-cycle control and circadian regulation (DNA replication initiation, G1 checkpoint, circadian rhythm). This suggests a theme of proteostasis coupled to stress and cell-cycle homeostasis.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":3},{"id":"GO:0030174","count":3},{"id":"GO:0042752","count":3},{"id":"GO:0031146","count":3},{"id":"GO:1903378","count":3}]},{"hash":"1889575194826735051","title":"Unknown","description":"The top GO terms span insect development (follicle epithelium polarity, egg chamber adhesion), sensory/structural formation (insect visual primordium formation), tropisms (phototropism, gravitropism), and immune signaling (B cell receptor signaling) with ubiquitination regulation. There is no single cohesive biological process linking these terms, suggesting a mixed, non-specific cluster rather than a recognizable pathway.","confidence":"","size":20,"edges":16,"triangles":0,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0042248","count":2},{"id":"GO:0001744","count":2},{"id":"GO:0007299","count":2},{"id":"GO:0075015","count":2},{"id":"GO:0043380","count":2}]},{"hash":"1768546047235500467","title":"Ubiquitin-Proteasome\u2013Mediated Cell Cycle Regulation","description":"This cluster centers on ubiquitination and proteasomal degradation (positive regulation of polyubiquitination; SCF-dependent proteasomal ubiquitin-dependent protein catabolic process) and cell cycle control (regulation of DNA-templated replication initiation and G1/S transition, DNA damage checkpoint). Additional signals toward circadian regulation and stress responses (heavy metals, oxidative stress) suggest broader links to neuronal stress signaling, but the core theme remains controlled proteolysis governing cell cycle decisions.","confidence":"Medium","size":20,"edges":75,"triangles":85,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":5},{"id":"GO:0030174","count":5},{"id":"GO:0042752","count":5},{"id":"GO:0031146","count":5},{"id":"GO:1903378","count":5}]},{"hash":"1771522102593427567","title":"Proteostasis and stress-response signaling","description":"This cluster centers on ubiquitin-proteasome turnover (positive regulation of polyubiquitination; SCF-dependent degradation) and regulators of circadian rhythm, alongside DNA-damage/checkpoint signaling, and cellular responses to heavy metal and oxidative stress in neurons. The combination suggests a set of proteins involved in protein turnover linked to stress responses and cell-cycle control, with additional links to synapse assembly. Overall, a proteostasis-and-stress-response theme best fits the shared functions.","confidence":"Medium","size":20,"edges":84,"triangles":112,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":6},{"id":"GO:0030174","count":6},{"id":"GO:0042752","count":6},{"id":"GO:0031146","count":6},{"id":"GO:1903378","count":6}]},{"hash":"1381747021308800609","title":"Developmental and Immune Signaling","description":"These proteins cluster around signaling pathways that coordinate development, immune responses, and cell proliferation. The top GO terms span axon regeneration, erythropoietin signaling, cytokine production (IL-4 and GM-CSF), cardiac neural crest\u2013related development, and NFAT/calcineurin signaling modulation, along with mitotic checkpoint and cell-cycle re-entry. The common thread is broad regulatory signaling rather than a single specific function, indicating a multifaceted signaling hub.","confidence":"Medium","size":20,"edges":65,"triangles":74,"max_degree":14,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":19},{"id":"GO:0007095","count":19},{"id":"GO:0000320","count":19},{"id":"GO:0010954","count":19},{"id":"GO:0038162","count":19}]},{"hash":"814690398417352511","title":"Axon Regeneration and Growth Factor Signaling","description":"The cluster is dominated by GO terms linked to neuronal growth and repair (positive regulation of axon regeneration, retinal ganglion cell axon guidance) and broad growth factor/RTK signaling (erythropoietin-mediated signaling, Kit signaling, collagen-activated RTK signaling, focal adhesion regulation) as well as downstream STAT phosphorylation. This combination points to a cohesive theme of signaling networks that promote axon growth and neural connectivity, with supportive immune-related cytokine production that can modulate such signaling. Overall, the label captures the central function of promoting neuronal regeneration through growth-factor\u2013driven signaling pathways.","confidence":"High","size":20,"edges":171,"triangles":864,"max_degree":19,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":20},{"id":"GO:0010954","count":20},{"id":"GO:0038162","count":20},{"id":"GO:0032633","count":20},{"id":"GO:0045425","count":20}]},{"hash":"61187061889835000","title":"Diverse differentiation and signaling processes","description":"This cluster includes a mix of development-related terms (metencephalon development, uterus morphogenesis), differentiation of specific cell types (thrombocytes, macrophage-derived foam cells), and signaling or regulatory processes (insulin receptor signaling, glucose-mediated signaling, epigenetic regulation via histone modification). The shared theme appears to be broad roles in cell fate decisions and signaling across multiple lineages rather than a single cohesive pathway, justifying a label that encompasses developmental and signaling diversity.","confidence":"Medium","size":20,"edges":13,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0022037","count":2},{"id":"GO:0031496","count":2},{"id":"GO:0002574","count":2},{"id":"GO:0010742","count":2},{"id":"GO:1900189","count":2}]},{"hash":"2199334755686206696","title":"DNA replication and cell division","description":"The top GO terms are dominated by DNA replication initiation, DNA replication, and cell division, indicating the cluster\u2019s core function relates to replication machinery and progression through the cell cycle. Other terms touch on proteostasis and trafficking, which may reflect regulatory links rather than core function, but replication and division terms prevail. ","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006270","count":3},{"id":"GO:0000733","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0071218","count":2}]},{"hash":"2185841443292099185","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0015074","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0075713","count":1}]},{"hash":"595276303530205948","title":"Unknown","description":"The top GO terms span ER stress/apoptosis, transcription, rRNA processing, fertilization, defense response, protein oligomerization, actin nucleation, and various developmental processes, with no clear unifying function or pathway. Edges are absent, suggesting no cohesive interaction pattern, so there isn't a single coherent theme to label the cluster beyond Unknown.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030433","count":6},{"id":"GO:0070059","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0000466","count":4},{"id":"GO:0007338","count":4}]},{"hash":"412168062138340749","title":"Chromatin Silencing and Transcriptional Repression","description":"The cluster\u2019s GO terms are dominated by chromatin-related regulation, including negative regulation of transcription by RNA polymerase I, negative regulation of rDNA heterochromatin formation, and negative regulation of silent mating-type cassette heterochromatin formation, pointing to a shared theme of chromatin state control and transcriptional repression. A few developmental or growth-associated terms appear but do not define the core function.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031939","count":1},{"id":"GO:0016479","count":1},{"id":"GO:0061188","count":1},{"id":"GO:2000219","count":1},{"id":"GO:0061408","count":1}]},{"hash":"733897741133122308","title":"SRP-dependent membrane targeting and vesicle trafficking","description":"The top GO terms are dominated by SRP-dependent cotranslational protein targeting to membrane, plus vesicle-related processes, suggesting these proteins are primarily involved in targeting nascent proteins to membranes and subsequent intracellular trafficking. Although a few terms hint at synaptic or immune roles, the strongest shared function is membrane targeting and vesicle movement.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006616","count":1},{"id":"GO:0006617","count":1},{"id":"GO:0006614","count":1},{"id":"GO:0007416","count":1},{"id":"GO:0006897","count":1}]},{"hash":"64415725262332991","title":"Telomere maintenance regulation","description":"Most of the top GO terms center on telomere biology\u2014maintenance, localization to telomeres, and telomerase- or replication-associated telomere processes\u2014suggesting the proteins function in telomere stability and positioning. A few terms touch on nitric-oxide synthase activity and beta-galactosidase regulation, but the dominant theme is telomere regulation. The lack of interaction edges does not change the functional theme; it likely reflects annotation-driven clustering rather than physical networks.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904914","count":1},{"id":"GO:0051000","count":1},{"id":"GO:1904850","count":1},{"id":"GO:0032214","count":1},{"id":"GO:0032121","count":1}]},{"hash":"1376814751723969662","title":"Metabolite and Neurotransmitter Transport","description":"The cluster is dominated by GO terms describing transmembrane transport of diverse substrates (phosphate, arabinose, sialic acid, organic anions, glucose, nitrate assimilation, xenobiotics) and a related neuronal process (neurotransmitter loading into synaptic vesicles), suggesting a group of membrane transporters involved in nutrient and signaling molecule handling. An outlier term on replicative senescence is minor and does not negate the overall transport-focused theme.","confidence":"High","size":20,"edges":20,"triangles":0,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":1},{"id":"GO:0044381","count":1},{"id":"GO:0015751","count":1},{"id":"GO:0043252","count":1},{"id":"GO:0015739","count":1}]},{"hash":"78513015703378317","title":"Drosophila Development and Patterning","description":"This cluster centers on developmental patterning in an insect, highlighted by segment specification, CNS formation, antennal and compound eye development, and muscle development. While there are a few terms on transcriptional regulation and metabolism, the dominant signal is embryonic/larval and organogenesis-related processes.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:2001172","count":1},{"id":"GO:0007379","count":1},{"id":"GO:1902064","count":1},{"id":"GO:0007469","count":1}]},{"hash":"1646897625684849705","title":"Developmental and Immune Transcriptional Regulation","description":"The cluster prominently features transcriptional control and chromatin remodeling (e.g., chromatin remodeling, DNA-templated transcription, negative regulation of transcription), along with developmental processes (embryonic digestive tract morphogenesis, endocrine pancreas development, ureteric bud morphogenesis) and immune differentiation (TH1 cell differentiation, TNF production). This mix suggests proteins that regulate transcription during development and contribute to immune cell differentiation, rather than a single specific pathway. Therefore, a broad label like Developmental and Immune Transcriptional Regulation captures the common theme across the terms.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043044","count":6},{"id":"GO:0048557","count":5},{"id":"GO:0000122","count":5},{"id":"GO:2000426","count":5},{"id":"GO:0006351","count":5}]},{"hash":"1090140531129565846","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990034","count":2},{"id":"GO:0032973","count":2},{"id":"GO:0002377","count":1},{"id":"GO:0015693","count":1},{"id":"GO:0046963","count":1}]},{"hash":"1967339837968317288","title":"Unknown","description":"Unknown. The GO terms span plant-specific auxin transport and diverse animal processes (mesectoderm development, gastrulation polarity, cardioblast proliferation, proboscis extension reflex, GPCR signaling regulation, catecholamine and prostaglandin responses), with no single cohesive function or interaction pattern evident (edges 0).","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010541","count":1},{"id":"GO:0072513","count":1},{"id":"GO:0008277","count":1},{"id":"GO:0008283","count":1},{"id":"GO:0007637","count":1}]},{"hash":"715848351228695548","title":"Unknown","description":"The GO terms include retinoic acid signaling and response, multiple developmental processes (neural tube, nucleus accumbens, cardiac muscle, symmetry determination), immune signaling, and metabolic pathways (carbon utilization, GABA shunt). The wide dispersion of functions and the lack of edges suggest there is no single cohesive function linking these proteins, so a specific, representative label cannot be assigned.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071300","count":2},{"id":"GO:0021915","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0048384","count":1},{"id":"GO:0015976","count":1}]},{"hash":"2006224532471993703","title":"Unknown","description":"There is no shared functional signal among these proteins (no edges, no triangles, and no GO terms provided), so a meaningful, specific label cannot be assigned.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2051549749821733171","title":"Unknown","description":"GO terms span diverse processes across different taxa (rRNA methylation, immune signaling, plant tropisms, development, and ubiquitination), with no single shared function. The small edges and absence of triangles suggest a loose, non-coherent cluster, so Unknown is appropriate.","confidence":"","size":20,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070475","count":2},{"id":"GO:0043380","count":2},{"id":"GO:0009958","count":2},{"id":"GO:0045497","count":2},{"id":"GO:0009638","count":2}]},{"hash":"2129334940884590279","title":"Proteostasis and Stress-Response Regulators","description":"This cluster centers on ubiquitin-mediated proteolysis (polyubiquitination, SCF-dependent degradation) and stress responses (heavy metal and oxidative stress) with links to circadian rhythm regulation via protein turnover; while some cell-cycle related terms are present, the dominant theme is proteostasis and cellular stress response.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":3},{"id":"GO:0030174","count":3},{"id":"GO:0042752","count":3},{"id":"GO:0031146","count":3},{"id":"GO:1903378","count":3}]},{"hash":"1668455480512842826","title":"Ubiquitin-Proteasome Regulation and Stress-Responsive Cell Cycle","description":"The cluster emphasizes ubiquitination and proteasomal protein degradation (SCF-dependent catabolic process, polyubiquitination) together with stress-response signals (heavy metals, oxidative stress) and cell-cycle checkpoints (G1 DNA damage). This combination points to proteostasis-linked, stress-responsive regulation of the cell cycle and neuronal signaling, making a label focused on ubiquitin\u2013proteasome regulation alongside stress-related cell cycle control appropriate.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":7},{"id":"GO:1902916","count":5},{"id":"GO:0030174","count":5},{"id":"GO:0042752","count":5},{"id":"GO:1903378","count":5}]},{"hash":"1949350555405884638","title":"Neural and muscular development","description":"The top GO terms cluster around development and morphogenesis, especially nervous system development, skeletal muscle tissue development, and cell morphogenesis, indicating a developmental/tissue-formation theme. A few terms related to immunity and stress responses are present but less represented, suggesting they\u2019re less central to the cluster's main function. Therefore, the label neural and muscular development reflects the core pattern with moderate confidence.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0045087","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0000902","count":3},{"id":"GO:0050853","count":3}]},{"hash":"1204456504888346187","title":"Ubiquitin-Dependent Cell Cycle Regulation","description":"The top GO terms cluster around ubiquitin-mediated processes (K11-linked ubiquitination and ubiquitin-dependent protein catabolic process) and cell division, suggesting a core theme of ubiquitin-regulated control of the cell cycle, with additional development-related terms reflecting broader roles in growth. Confidence: Medium","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070979","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0044346","count":1},{"id":"GO:0030097","count":1}]},{"hash":"771781583756723289","title":"DNA repair and nucleotide metabolism","description":"Top terms are dominated by DNA repair and repair regulation, with several nucleotide and cofactor catabolic processes (diadenosine tetraphosphate, dGDP, diphosphoinositol polyphosphate, CoA) and RNA processing terms appearing. This suggests a loose association with genome maintenance and nucleotide turnover, rather than a single cohesive pathway, hence the label reflecting both DNA repair and nucleotide metabolism.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0015967","count":2},{"id":"GO:0046067","count":1},{"id":"GO:0015938","count":1},{"id":"GO:2000233","count":1}]},{"hash":"404496443401181590","title":"Unknown","description":"The top GO terms are highly heterogeneous with each term supported by only one protein, and there are no edges or high-degree connections to tie the proteins to a single function. Terms range from transport and biosynthesis to development and stress responses, suggesting no coherent shared pathway or process. Therefore no meaningful label beyond Unknown can be assigned here.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":1},{"id":"GO:0007625","count":1},{"id":"GO:0080144","count":1},{"id":"GO:0060905","count":1},{"id":"GO:0006488","count":1}]},{"hash":"420545871472886727","title":"Unknown","description":"The cluster has no edges and the top GO terms are unrelated (sebaceous gland development, non-autophagic vacuole fusion, and palmitoylation) with only one protein each, offering no coherent functional theme to label the group. ","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048733","count":1},{"id":"GO:0042144","count":1},{"id":"GO:0018230","count":1}]},{"hash":"357229629973296032","title":"Mitochondrial stress response and energy metabolism","description":"This cluster's GO terms predominantly point to mitochondrial regulation (mitochondrial depolarization response, membrane permeability, ROS control) and energy metabolism (glycogen and fructose pathways) with calcium import involved in signaling, suggesting a functional theme around mitochondrial function and metabolic control. A few terms (B cell receptor signaling, transpiration) appear incidental noise rather than core to the cluster.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:1904925","count":1},{"id":"GO:0045725","count":1},{"id":"GO:0070509","count":1},{"id":"GO:2000378","count":1}]},{"hash":"2052342968656552076","title":"DNA replication and telomere maintenance regulation","description":"This cluster centers on DNA replication and telomere maintenance/capping, with signals related to cell cycle and mitotic processes (spindle assembly). The presence of positive regulation of telomere maintenance via telomerase and telomere capping, along with DNA replication terms and G-quadruplex DNA formation, supports a theme of coordinated replication and telomere integrity during cell division. While Wnt signaling and estrogen metabolism hint at broader proliferative regulation, the strongest cohesive thread is replication-related and telomere-associated regulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0032212","count":2},{"id":"GO:0071919","count":1}]},{"hash":"637861657941624540","title":"Unknown","description":"The top terms span immune signaling (memory T cell differentiation, B cell receptor signaling), protein ubiquitination, plant growth responses (gravitropism, phototropism), and kidney development (renal sodium absorption, distal tubule morphogenesis). There is no coherent, shared function tying these terms into a single biological module, and the cluster shows no edges or connectivity, suggesting no meaningful cohesive label. ","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":19},{"id":"GO:0009958","count":19},{"id":"GO:0045497","count":19},{"id":"GO:0009638","count":19},{"id":"GO:0050853","count":19}]},{"hash":"2022911063752854608","title":"Unknown","description":"The top terms span immune signaling (B cell receptor), ubiquitination regulation, organ morphogenesis (kidney tubules, skeletal muscle), circadian rhythm, and germinal center formation, with no single cohesive function tying them together. There isn\u2019t a clear shared pathway or process across these terms to assign a specific, representative label; thus the cluster cannot be confidently named beyond Unknown.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":6},{"id":"GO:0031397","count":6},{"id":"GO:2000312","count":5},{"id":"GO:1990390","count":5},{"id":"GO:0070294","count":5}]},{"hash":"354071143031828994","title":"Epithelial migration and actin remodeling","description":"The cluster prominently features actin cytoskeleton organization, lamellipodium assembly, and epithelium migration terms, indicating a cohesive role in actin-driven cell movement. Supporting signals involve AKT activation and vesicle trafficking/localization (endosome/lysosome and Golgi), which often accompany cytoskeletal remodeling during migration. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":2},{"id":"GO:0007040","count":1},{"id":"GO:0030032","count":1},{"id":"GO:0032148","count":1},{"id":"GO:0007032","count":1}]},{"hash":"357180085146700791","title":"RNA splicing and translation regulation","description":"Top GO terms cluster around mRNA processing via the spliceosome and regulation of translation, including splice site recognition, preinitiation complex formation, miRNA-mediated silencing, and IRES-dependent initiation. This cohesive theme suggests proteins primarily involved in RNA maturation and control of gene expression at the translation level, justifying the label.","confidence":"High","size":19,"edges":8,"triangles":0,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":10},{"id":"GO:0010610","count":10},{"id":"GO:0006378","count":10},{"id":"GO:0001731","count":10},{"id":"GO:0035278","count":9}]},{"hash":"2000652990688365110","title":"Golgi-ER Vesicle Transport and Organization","description":"The top GO terms cluster around vesicle trafficking involving the Golgi and endoplasmic reticulum, including ER-to-Golgi and Golgi-to-ER retrograde transport as well as overall Golgi organization. These recurrent themes suggest a core function in Golgi-ER vesicle trafficking and Golgi maintenance, with unrelated terms like pollen tube growth and Cvt pathway appearing as minor bleeds rather than core signals. Overall, the cluster is best characterized by Golgi-ER vesicle transport and organization.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000301","count":1},{"id":"GO:0033227","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0009860","count":1},{"id":"GO:0032258","count":1}]},{"hash":"2072579474648965032","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900865","count":3},{"id":"GO:0042793","count":3},{"id":"GO:0080156","count":3},{"id":"GO:0031425","count":3},{"id":"GO:0016554","count":3}]},{"hash":"770632782592997745","title":"Mitochondrial Metabolite Transport","description":"The top GO terms cluster around transport of amino acids, nucleotides, phosphate, and cofactors across mitochondrial membranes (ornithine, pyrimidine nucleotides, thiamine pyrophosphate), suggesting a focus on mitochondrial metabolite transport. Some terms linked to energy metabolism and metabolic remodeling (adaptive thermogenesis, liver regeneration, insulin/glucose regulation) further support a metabolism-centric, mitochondria-associated transport theme.","confidence":"Medium","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034198","count":12},{"id":"GO:0000066","count":11},{"id":"GO:0035435","count":11},{"id":"GO:1990519","count":11},{"id":"GO:0061179","count":11}]},{"hash":"1394435478170486096","title":"RNA Splicing and Translational Regulation","description":"These proteins cluster around RNA processing and post-transcriptional control: mRNA splicing via the spliceosome, regulation of mRNA stability under stress, and widespread regulation of translation including initiation, reinitiation, and IRES-dependent viral translation, plus miRNA-mediated silencing. The overlap of splicing and translation control terms suggests a functional group of RNA-processing factors coordinating gene expression at the RNA level, sometimes in response to stress or viral contexts.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":5},{"id":"GO:0031047","count":5},{"id":"GO:0006446","count":4},{"id":"GO:0075522","count":4},{"id":"GO:0075525","count":4}]},{"hash":"2069537124633655982","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":170,"triangles":952,"max_degree":18,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":13},{"id":"GO:0000028","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0006407","count":4},{"id":"GO:0046677","count":4}]},{"hash":"1078984267455530963","title":"ER trafficking and cholesterol biosynthesis","description":"The GO terms heavily point to endoplasmic reticulum functions\u2014protein retention in the ER lumen, ER-to-Golgi transport, and regulation of protein exit from the ER\u2014along with cholesterol biosynthesis, suggesting a cluster centered on ER processing/trafficking and associated lipid biosynthesis. Some developmental terms are present but appear secondary to the ER-focused theme.","confidence":"High","size":19,"edges":19,"triangles":1,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0001893","count":3},{"id":"GO:0006621","count":3},{"id":"GO:0006695","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0009636","count":2}]},{"hash":"1205726430395305826","title":"Ion and amino acid transport","description":"This cluster is characterized by GO terms centered on transmembrane transport of ions (e.g., sodium, phosphate) and amino acids (methionine, ornithine, lysine, D-alanine, GABA), plus polyamine transport, indicating a membrane-transport protein set rather than a single metabolic pathway.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006814","count":3},{"id":"GO:0035435","count":2},{"id":"GO:0044690","count":2},{"id":"GO:1902269","count":2},{"id":"GO:0035826","count":2}]},{"hash":"2183370403251310749","title":"Unknown","description":"The terms span translation initiation and protein processing, lipid biosynthesis, neuronal development (retinal ganglion cell axon guidance, axon regeneration), erythropoietin signaling, and immune cytokine production (IL-4, GM-CSF), plus a cocaine response. This broad mix suggests no single cohesive function or pathway tying the proteins together, so a specific label isn't identifiable. ","confidence":"","size":19,"edges":28,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0010954","count":3},{"id":"GO:0042220","count":2},{"id":"GO:0006656","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0001731","count":2}]},{"hash":"2081630380543117666","title":"Developmental genome maintenance","description":"The cluster is centered on DNA metabolism: DNA replication, recombination, and a major DNA repair pathway, plus rRNA maturation, suggesting a core role in genome maintenance. The embryonic cranial skeleton morphogenesis term indicates a developmental context, potentially linking genome maintenance with craniofacial development. A neuronal signaling term (BDNF stimulus) appears less central but may reflect broader developmental relevance.","confidence":"High","size":19,"edges":66,"triangles":154,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048701","count":16},{"id":"GO:0006260","count":16},{"id":"GO:2000616","count":14},{"id":"GO:0016441","count":14},{"id":"GO:1904570","count":14}]},{"hash":"1354779717294367046","title":"Drosophila imaginal disc transcriptional regulation","description":"The top GO terms cluster around RNA polymerase II\u2013mediated transcription regulation (promoter initiation, elongation, mRNA capping) and imaginal disc development (eye-antennal disc development, imaginal disc growth), suggesting a group of proteins focused on transcriptional control during Drosophila imaginal disc development.","confidence":"High","size":19,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045572","count":1},{"id":"GO:0007000","count":1},{"id":"GO:0035214","count":1},{"id":"GO:1902455","count":1},{"id":"GO:2000270","count":1}]},{"hash":"2087935733164267078","title":"Unknown","description":"The top GO terms are highly heterogeneous, including skeletal muscle differentiation, circadian rhythm regulation, flower development, B cell signaling, spindle midzone localization, ubiquitination, wybutosine biosynthesis, and other diverse roles, with no single dominant process linking the proteins. This lack of a common theme suggests either multifunctionality or annotation noise rather than a coherent, specific cluster function.","confidence":"","size":19,"edges":15,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":3},{"id":"GO:0042752","count":2},{"id":"GO:0009911","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0035853","count":2}]},{"hash":"384823771215334885","title":"Developmental transcription and stress responses","description":"These terms combine developmental processes (forebrain development, neural tube closure, multicellular organism development) with transcriptional control (DNA-templated transcription, imprinting regulation) and various cellular stress responses (defense to Gram-positive bacteria, cadmium response, ER stress\u2013induced apoptosis, nutrient-limited invasive growth). The cluster appears to group proteins involved in regulating gene expression during development while also participating in stress signaling, suggesting a shared role in development-stage regulation and stress adaptation.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050830","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0006349","count":4}]},{"hash":"1947716210006042887","title":"Bacterial biosynthesis pathways","description":"Based on the top GO terms, the cluster centers on biosynthetic processes in bacteria, including lipopolysaccharide (LPS) and O-antigen biosynthesis (and related heptose sugar production), clavulanic acid and carnitine biosynthesis, and other metabolic biosynthesis activities (e.g., L-glutamine). A few terms like proteolysis or transcription antitermination are more general cellular processes and are not defining, but the dominant signal is diverse bacterial biosynthesis. ","confidence":"Medium","size":19,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":5},{"id":"GO:0009097","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0031564","count":2},{"id":"GO:0097171","count":2}]},{"hash":"1846822444677880217","title":"Chromatin modification and RNA processing","description":"The top GO terms cluster around chromatin regulation (histone H2A deubiquitination), DNA repair, RNA processing (splicing), and regulation of translation initiation, plus cell-cycle control. This suggests a coherent theme of coordinating genome maintenance with gene expression at multiple levels (chromatin, RNA processing, and translation), despite a couple of outliers. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010950","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0035522","count":2},{"id":"GO:0006446","count":1},{"id":"GO:0048140","count":1}]},{"hash":"1518746926148409264","title":"Unknown","description":"The top GO terms are extremely diverse (response to lithium ion, spliceosome conformational change, circadian regulation, flower development, B cell receptor signaling, spindle localization, ubiquitination regulation, wybutosine biosynthesis, etc.) and there are no edges or cohesive theme linking them, making it impossible to assign a meaningful, representative label to this cluster.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010226","count":1},{"id":"GO:0000388","count":1},{"id":"GO:0042752","count":1},{"id":"GO:0009911","count":1},{"id":"GO:0050853","count":1}]},{"hash":"1543653087229903136","title":"Meiosis-associated DNA Repair and Ubiquitin-SUMO Regulation","description":"The cluster is dominated by GO terms for meiotic DNA double-strand break formation and chiasma assembly, along with error-free postreplication DNA repair, and fits a theme of genome maintenance during meiosis. Additionally, multiple ubiquitination (K27-, K6-linked) and SUMO transferase activity terms suggest regulation of protein stability and function during these processes. Some terms like peroxisome import and fungal cell wall organization seem peripheral and may reflect broader annotation, but the core signal points to meiosis-related DNA repair coupled with ubiquitin/SUMO regulation.","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0042275","count":19},{"id":"GO:0043524","count":19},{"id":"GO:0044314","count":19},{"id":"GO:0016558","count":19},{"id":"GO:0031505","count":19}]},{"hash":"82117464127014127","title":"Mitochondrial transport and ubiquitin-mediated proteolysis","description":"The cluster shows strong representation of mitochondrial transport (L-ornithine import, pyrimidine nucleotide import) alongside ubiquitin-dependent proteolysis (polyubiquitination, SCF-proteasome). This suggests a theme of mitochondrial metabolism tied to proteostasis, with ancillary signals related to cadmium response and metabolic regulation.","confidence":"Medium","size":19,"edges":18,"triangles":0,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0000066","count":2},{"id":"GO:0035435","count":2}]},{"hash":"939279437914271697","title":"Cytokine- and growth-factor signaling with transcriptional regulation","description":"The top GO terms show signaling responses to cytokines (e.g., interleukin-4, TGF-beta) and growth-factor pathways (insulin signaling) that converge on transcriptional control (DNA-templated transcription, RNAP II regulation). The presence of liver regeneration and MHC class II biosynthesis supports roles in immune- and tissue-regenerative contexts where signaling modulates gene expression. Overall, the cluster appears to group proteins involved in signaling that modulates transcription rather than a single enzymatic function.","confidence":"Medium","size":19,"edges":23,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0097421","count":2},{"id":"GO:0071353","count":2},{"id":"GO:0046626","count":2},{"id":"GO:0045737","count":2},{"id":"GO:0071560","count":2}]},{"hash":"1400051444256550384","title":"Negative regulation of neutrophil activation","description":"This cluster is strongly enriched for GO:1902564 (negative regulation of neutrophil activation) with 19 proteins, suggesting a core theme of dampening neutrophil responses; other terms (innate immune response, type I interferon response) further support a broader innate-immune regulatory role.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":19},{"id":"GO:0071357","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0070206","count":2},{"id":"GO:0001041","count":2}]},{"hash":"324901192097292308","title":"Regulatory signaling across immune and development pathways","description":"The top GO terms point to broad regulatory processes: negative regulation of neutrophil activation and cytokine production (immune signaling), erythropoietin signaling (hematopoiesis), neural crest\u2013related development, axon regeneration, and cell cycle/transcription regulation. Rather than a single precise function, these indicate widespread regulation of signaling and transcription across immune, hematopoietic, and developmental contexts, justifying a general regulatory-signaling label.","confidence":"Medium","size":19,"edges":14,"triangles":0,"max_degree":14,"top_function":"DNA repair","top_go_terms":[{"id":"GO:1902564","count":18},{"id":"GO:0048680","count":7},{"id":"GO:0007095","count":7},{"id":"GO:0000320","count":7},{"id":"GO:0010954","count":7}]},{"hash":"1465939293733634855","title":"Dendritic spine morphogenesis and synaptic organization","description":"The top GO terms emphasize neuronal synapse development (dendritic spine morphogenesis, protein localization to synapse, receptor clustering) and Rho-mediated signaling, suggesting a cohesive theme of synapse formation and organization. While other processes like apoptosis, DNA replication, and immune responses appear, the most representative signal is synaptic development and signaling, hence the chosen label.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0008285","count":13},{"id":"GO:0060997","count":13},{"id":"GO:0007266","count":12},{"id":"GO:0035418","count":12},{"id":"GO:0043113","count":12}]},{"hash":"140802638513379558","title":"Neuronal ubiquitination and stress signaling","description":"Top terms cluster around ubiquitin-mediated proteolysis (SCF-dependent degradation, polyubiquitination) and stress responses (oxidative stress, methylmercury/arsenic responses) with a neuronal context (synapse assembly). This suggests a theme of proteostasis and stress signaling in neurons, driven by ubiquitin regulation, though some terms are broader and may reflect general cell-cycle or circadian regulation. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030174","count":2},{"id":"GO:0042752","count":2},{"id":"GO:0071406","count":2},{"id":"GO:0060386","count":2},{"id":"GO:1902916","count":2}]},{"hash":"1212531428737941702","title":"Immune Regulation and Apoptosis","description":"The prevalent terms relate to immune cell regulation (negative regulation of neutrophil activation; hemocyte development) and programmed cell death (nurse cell apoptotic process, germ cell programmed cell death), with supporting context from wound healing and glucocorticoid response, suggesting a cluster centered on immune signaling and apoptosis, though a few terms are unrelated.","confidence":"Medium","size":19,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":2},{"id":"GO:0045476","count":1},{"id":"GO:2001269","count":1},{"id":"GO:0035234","count":1},{"id":"GO:0008635","count":1}]},{"hash":"792117848073414543","title":"Unknown","description":"The Top Terms span immune regulation (negative regulation of neutrophil activation, cellular response to type I interferon), basic cellular processes (RNA polymerase III transcription, protein trimerization), redox homeostasis, signaling (CAMKK-AMPK), and diverse developmental morphogenesis terms (eye morphogenesis, nerve branching, vulval fate). This broad dispersion suggests no single coherent function tying the proteins together, so a safe label is Unknown.","confidence":"","size":19,"edges":11,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":11},{"id":"GO:0070206","count":2},{"id":"GO:0001041","count":2},{"id":"GO:0071357","count":2},{"id":"GO:2000495","count":1}]},{"hash":"234857949945181517","title":"Unknown","description":"The GO terms are highly heterogeneous, including immune signaling (memory T cell differentiation; B cell receptor signaling), plant growth responses (gravitropism; phototropism), and ubiquitination/renal tubule development, with no obvious shared function tying the proteins together. The lack of edges among proteins supports the absence of a cohesive functional cluster. ","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":9},{"id":"GO:0009958","count":9},{"id":"GO:0045497","count":9},{"id":"GO:0009638","count":9},{"id":"GO:0050853","count":9}]},{"hash":"1742097837068880227","title":"Unknown","description":"The top GO terms span immune signaling (B cell receptor signaling, germinal center formation), ubiquitination regulation, kidney tubule processes, circadian rhythm, and skeletal muscle development, with no single coherent biological process connecting them. Coupled with no edges or interactions among the proteins, this cluster does not reflect a unified function, so a broad Unknown label with None confidence is most appropriate.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":7},{"id":"GO:0031397","count":6},{"id":"GO:2000312","count":6},{"id":"GO:1990390","count":6},{"id":"GO:0070294","count":6}]},{"hash":"5095983850212146","title":"Diverse Developmental and Tissue Processes","description":"This cluster groups proteins associated with developmental and tissue formation cues (cranial skeletal system development, skeletal muscle cell differentiation, nervous system development, scab formation, and coagulation), with additional more general terms like pigmentation, DNA replication, and DNA recombination suggesting broader cellular functions. The shared theme appears to be diverse developmental and tissue-related processes rather than a single cohesive pathway.","confidence":"Medium","size":19,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043473","count":3},{"id":"GO:0015671","count":3},{"id":"GO:0006310","count":2},{"id":"GO:0006260","count":2},{"id":"GO:1904888","count":2}]},{"hash":"726219217251666531","title":"Unknown","description":"The Top Terms are highly diverse, spanning ubiquitin-dependent proteolysis, tRNA biosynthesis, protein refolding, visual perception, endothelial proliferation, pheromone-responsive transcription, G-protein assembly, calcium channel regulation, autophagosome maturation, and cell morphogenesis. With no edges connecting proteins and no a coherent shared function, there is no clear theme tying the cluster together, so a meaningful specific label cannot be assigned.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000059","count":2},{"id":"GO:0008616","count":1},{"id":"GO:0061084","count":1},{"id":"GO:0007601","count":1},{"id":"GO:0001938","count":1}]},{"hash":"1478086262544396683","title":"Positive regulation of signaling and cytokine production","description":"The cluster\u2019s top GO terms are dominated by positive regulation of various signaling pathways and cytokine production (erythropoietin signaling; IL-4 and GM-CSF production), along with related transcriptional regulation and a developmental process (cardiac neural crest development). While there is a coherent theme of upregulating signaling/cytokine outputs, there are also cell-cycle related terms that introduce heterogeneity, so the label captures the main trend but with moderate confidence.","confidence":"Medium","size":19,"edges":4,"triangles":0,"max_degree":3,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":19},{"id":"GO:0007095","count":19},{"id":"GO:0000320","count":19},{"id":"GO:0010954","count":19},{"id":"GO:0038162","count":19}]},{"hash":"2186742415470209741","title":"Nutrient-stress signaling and cell-cycle control","description":"The GO terms point to responses to amino acid starvation and regulation of TORC1 signaling, paired with cell-cycle and DNA damage checkpoint processes, suggesting a theme of how cells sense nutrients and coordinate growth with division and survival. Some terms (meiosis, erythropoietin signaling, axon regeneration) are less directly connected but do not outweigh the core pattern of nutrient-stress and growth control.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034198","count":2},{"id":"GO:1903343","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006915","count":2},{"id":"GO:1904262","count":2}]},{"hash":"113626641719106639","title":"Positive regulation of Wnt signaling and axon guidance","description":"This cluster is dominated by terms about positive regulation of signaling, especially canonical Wnt signaling, along with neuronal development processes such as axon fasciculation and planar polarity. The presence of axon-related terms (fasciculation, regeneration) suggests a neural development signaling module, with a few immune-related terms appearing in the set as secondary associations. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0048680","count":1},{"id":"GO:0046641","count":1},{"id":"GO:0008285","count":1}]},{"hash":"1114200316508457937","title":"Neural Axon Development and Guidance","description":"Most terms describe neural development and axon wiring (axonogenesis, axon development, neurofilament assembly, axon guidance, corpus callosum and retinal ganglion cell development). A few terms on reproduction appear peripheral to the main neural theme.","confidence":"Medium","size":19,"edges":26,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:1902513","count":2},{"id":"GO:0048936","count":2},{"id":"GO:0061564","count":2},{"id":"GO:0007620","count":2},{"id":"GO:1903937","count":2}]},{"hash":"2274125194029133888","title":"Membrane Transporters for Nutrients and Metabolites","description":"The top GO terms point to diverse transmembrane transport activities (phosphate, arabinose, sialic acid, nitrate, xenobiotics) and metabolite-related uptake, including glucose transport under insulin influence and cellular responses to glucose starvation, plus vesicular neurotransmitter loading. This pattern suggests a cluster of membrane transport proteins involved in nutrient and metabolite transport, with vesicular transport as a related facet; a non-transport term like replicative senescence appears peripheral. ","confidence":"High","size":19,"edges":15,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":2},{"id":"GO:0044381","count":2},{"id":"GO:0015751","count":2},{"id":"GO:0043252","count":2},{"id":"GO:0015739","count":2}]},{"hash":"1386010337481633930","title":"Plant Growth, Development, and Stress Response","description":"The top GO terms suggest a mix of seed germination, vegetative growth, and developmental processes, along with transcriptional/epigenetic regulation (RNAP I regulation, histone deacetylation) and stress-related responses (salt, hydroperoxide) plus signaling (peptidyl-threonine phosphorylation). This points to a cluster of proteins coordinating plant growth with environmental cues and regulatory signaling. The presence of an unusual alginic acid catabolic term may be annotation noise, but the core pattern supports growth/development plus stress signaling. ","confidence":"Medium","size":19,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0009845","count":1},{"id":"GO:0016479","count":1},{"id":"GO:0080186","count":1},{"id":"GO:0016575","count":1},{"id":"GO:1902074","count":1}]},{"hash":"1742555504593608497","title":"Unknown","description":"The top GO terms are highly diverse (stress responses, chlorophyll biosynthesis, RNA processing, methylation, metabolite metabolism, plant nodulation, and even responses to drugs) with no clear shared function or pathway linking the proteins. The lack of a cohesive theme and absence of connecting edges suggest there is no single interpretable biological label for this cluster, so \"Unknown\" is most appropriate.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006972","count":5},{"id":"GO:0036068","count":5},{"id":"GO:0014075","count":5},{"id":"GO:0019919","count":5},{"id":"GO:1901052","count":5}]},{"hash":"833700081222665256","title":"Immune signaling and chemotaxis","description":"The top GO terms cluster around immune cell movement (neutrophil and dendritic cell chemotaxis) and regulation of antiviral signaling (RIG-I pathway), with supporting PI3K/AKT signaling involvement, suggesting a module linked to immune response and leukocyte migration. Some ribosome/translation terms seem more general, possibly reflecting housekeeping proteins present in the cluster. ","confidence":"Medium","size":19,"edges":93,"triangles":174,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0070131","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006308","count":1},{"id":"GO:0090503","count":1},{"id":"GO:0051897","count":1}]},{"hash":"2251782420700900836","title":"ER protein processing and ER-Golgi transport","description":"The predominant GO terms point to the endoplasmic reticulum secretory pathway: unfolded protein response, ER tubular network organization, ER-to-Golgi vesicle transport, and proteolysis linked to ERAD. A few development-related terms appear peripheral, but the core theme centers on protein folding/processing and trafficking through the ER-Golgi system.","confidence":"Medium","size":19,"edges":66,"triangles":122,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0048265","count":2},{"id":"GO:0032815","count":1},{"id":"GO:0048515","count":1},{"id":"GO:0042676","count":1},{"id":"GO:0035311","count":1}]},{"hash":"82676011298630530","title":"NF-kappaB-driven inflammatory signaling cluster","description":"The strongest term is positive regulation of canonical NF-kappaB signal transduction, supported by inflammatory- and immune-related terms (response to salicylic acid, viral process, macrophage foam cell differentiation). While other terms touch cell cycle or chromatin dynamics, the NF-kappaB\u2013mediated signaling/inflammatory theme best explains the cluster.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":3},{"id":"GO:0032465","count":2},{"id":"GO:0005513","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0006334","count":1}]},{"hash":"1998122619137406545","title":"Chromatin Regulation and Epigenetics","description":"The top GO terms cluster around heterochromatin formation, regulation of histone modifications and DNA methylation, and nucleosome dynamics, which together point to chromatin organization and epigenetic control as the core theme. A few terms such as B cell receptor signaling and spindle assembly appear as outliers or annotation noise, but they do not outweigh the predominant epigenetic/chromatin signal. Confidence: Medium","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:2000616","count":1},{"id":"GO:0051225","count":1},{"id":"GO:0045857","count":1},{"id":"GO:0021553","count":1}]},{"hash":"1020294452496087939","title":"RNA Pol III Transcription Machinery","description":"This cluster is dominated by GO terms tied to RNA polymerase III: transcription by RNA Pol III, preinitiation complex assembly, and regulation of transcription by RNA Pol III, suggesting proteins involved in Pol III transcription initiation and control. A couple of outlier terms (e.g., Wnt signaling) appear among a few proteins but do not override the primary Pol III transcription theme. ","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":2},{"id":"GO:0042791","count":1},{"id":"GO:0001009","count":1},{"id":"GO:0001021","count":1},{"id":"GO:0006359","count":1}]},{"hash":"633291372429834039","title":"Unknown","description":"The GO terms are highly diverse and include plant tropisms, immune signaling, ubiquitination, and kidney development, with no clear shared function linking the proteins. The lack of coherent biological theme and absence of edges suggest annotation noise rather than a single, cohesive cluster function.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":2},{"id":"GO:0009958","count":2},{"id":"GO:0045497","count":2},{"id":"GO:0009638","count":2},{"id":"GO:0050853","count":2}]},{"hash":"1376884177159958307","title":"Lipid Biosynthesis and Remodeling","description":"Lipid biosynthesis and remodeling is suggested by GO terms for CDP-diacylglycerol biosynthesis, triglyceride biosynthesis, cardiolipin remodeling, phosphatidylcholine remodeling, and lipid signaling (platelet activating factor). The presence of mitochondrial ATP synthesis links these lipid processes to mitochondrial energy production, indicating a lipid metabolism and mitochondrial lipid remodeling theme, with a few outlier terms (plant cutin biosynthesis and glandular epithelial maturation) that are less informative for the cluster\u2019s core function.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016024","count":1},{"id":"GO:0006663","count":1},{"id":"GO:0010143","count":1},{"id":"GO:0019432","count":1},{"id":"GO:0002071","count":1}]},{"hash":"1521440423601950716","title":"Melanosome Biogenesis and Vesicle Trafficking","description":"The top terms point to vesicle transport in the secretory pathway (ER\u2013Golgi, intra-Golgi, COPII vesicle coating) and regulation of GTPases, alongside pigmentation and melanosome assembly. This pattern suggests a functional module dedicated to pigment organelle formation via vesicular trafficking, with autophagy appearing as a minor related process rather than the primary signal.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006914","count":1},{"id":"GO:0006891","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0042338","count":1}]},{"hash":"97889510642996443","title":"Unknown","description":"With 0 edges and no GO term enrichment to tie the proteins together, there is no clear shared function or theme to justify a specific label.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2062142404632850715","title":"Unknown","description":"The GO terms are highly diverse\u2014endocannabinoid signaling, lipid catabolism, plant-specific development and defense, and trafficking processes\u2014across species with no clear shared function. With no edges or triangles, there is no cohesive functional theme linking these proteins, so a single interpretable label is not supported.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071926","count":1},{"id":"GO:0019433","count":1},{"id":"GO:0010618","count":1},{"id":"GO:1901183","count":1},{"id":"GO:0007405","count":1}]},{"hash":"2227957637393546491","title":"Cardiac muscle development and differentiation","description":"The GO terms show clear association with heart muscle development and differentiation, including ventricular cardiac muscle cell differentiation and cardiac ventricle development, along with related smooth muscle differentiation regulation. Other terms (apoptosis, DNA repair) are present but less central to the cluster\u2019s core theme. This supports a label focused on cardiac and muscle differentiation processes.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010667","count":2},{"id":"GO:0030263","count":1},{"id":"GO:0055012","count":1},{"id":"GO:0042275","count":1},{"id":"GO:2000721","count":1}]},{"hash":"734055032122845476","title":"Cytoskeleton assembly and proteostasis","description":"Most top GO terms cluster around cytoskeletal dynamics and protein homeostasis: chaperone-mediated protein complex assembly, protein folding, cytoplasm protein quality control by the ubiquitin-proteasome system, tubulin complex assembly, and cortical microtubule organization, plus epithelial cilium movement and spermatid differentiation, which involve microtubule remodeling. A few terms (transcription elongation by RNA polymerase II and nucleotide biosynthesis) are less connected, possibly reflecting incidental annotations. Overall, the cluster seems to group proteins involved in proteostasis and cytoskeletal/ciliary functions.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051131","count":1},{"id":"GO:0032968","count":1},{"id":"GO:0006457","count":1},{"id":"GO:0043622","count":1},{"id":"GO:0007021","count":1}]},{"hash":"459276453909650624","title":"Neuroimmune Signaling and Cytoskeleton Dynamics","description":"The top GO terms span immune receptor signaling (IL-4 production, TCR signaling, Fc receptor signaling, integrin signaling), growth factor and Wnt pathways (PDGFR signaling, Wnt signaling), and neuronal structure/dynamics (dendritic spine morphogenesis, neurotrophin receptor signaling, actin cytoskeleton reorganization). This mix points to a theme of signaling cross-talk between the immune system and neural cells, coupled with cytoskeletal remodeling essential for synaptic plasticity, rather than a single dedicated pathway.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010954","count":2},{"id":"GO:0032633","count":2},{"id":"GO:0007229","count":2},{"id":"GO:2000251","count":2},{"id":"GO:0060997","count":2}]},{"hash":"1715858097985621477","title":"Cardiac K+ Channel Regulation and Repolarization","description":"The cluster\u2019s top GO terms center on regulation of potassium channel activity and membrane repolarization in cardiac tissue (atrial myocyte action potential, heart rate regulation, K+ transport). This suggests a cohesive theme of cardiac electrophysiology and ion-channel regulation, with a few neural-development terms likely incidental noise.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006620","count":1},{"id":"GO:0031204","count":1},{"id":"GO:1902260","count":1},{"id":"GO:0021633","count":1},{"id":"GO:0060372","count":1}]},{"hash":"1458349307989441389","title":"Unknown","description":"This cluster shows a mix of unrelated terms (post-transcriptional mRNA regulation, cap-independent translation, mRNA stability, plant immune response, viral replication activation, and renal system process) with no shared function or interaction evidence (no edges/triangles). It does not reveal a coherent biological theme, so Unknown with no confidence.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900363","count":1},{"id":"GO:1903679","count":1},{"id":"GO:0043488","count":1},{"id":"GO:0044829","count":1},{"id":"GO:0034052","count":1}]},{"hash":"1284665454710778897","title":"Unknown","description":"The terms cover immune signaling, development, ubiquitination, and plant tropisms, with no shared function or interactions among the proteins. No cohesive theme is apparent, so the cluster is Unknown.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":16},{"id":"GO:0009958","count":16},{"id":"GO:0045497","count":16},{"id":"GO:0009638","count":16},{"id":"GO:0050853","count":16}]},{"hash":"1686844330095347903","title":"Oxidative Stress Response","description":"Despite limited current annotations, the few terms point to oxidative stress-related processes: cell redox homeostasis and a transcriptional response to hydrogen peroxide, with an additional note about proteasomal degradation of damaged proteins. This combination suggests a cluster whose proteins are involved in maintaining redox balance and proteostasis under oxidative stress.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:0036129","count":1},{"id":"GO:1902376","count":1}]},{"hash":"140566814815241530","title":"Unknown","description":"The top GO terms are very diverse, spanning plasma membrane repair, synapse assembly, GABAergic regulation, reelin signaling, intracellular transport, apoptosis, antibiotic response, granuloma formation, phospholipid metabolism, and angiogenesis. Only a small subset points to neuronal synaptic processes, while many terms pertain to unrelated pathways, providing no clear, unified function for the cluster. Therefore, there isn\u2019t a coherent label that accurately captures the cluster\u2019s biology. ","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001778","count":1},{"id":"GO:0007416","count":1},{"id":"GO:0043065","count":1},{"id":"GO:0071236","count":1},{"id":"GO:0032228","count":1}]},{"hash":"934618501852229618","title":"Unknown","description":"The GO terms are diverse (metabolism of retinol and purines, allantoin/urate catabolism, mitochondrial electron transport, extracellular matrix organization, neutrophil degranulation, thyroid hormone transport, and protein complex formation). There is no single dominant function or pathway tying these proteins together, so a coherent, specific label is not supported.","confidence":"","size":18,"edges":10,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035786","count":2},{"id":"GO:0042572","count":1},{"id":"GO:0043312","count":1},{"id":"GO:0019428","count":1},{"id":"GO:0030198","count":1}]},{"hash":"1464668706563923667","title":"Unknown","description":"The Top Terms span xenobiotic and lipid metabolism (carbazole/camphor/insecticide catabolic processes, oxylipin biosynthesis), hormone/homeostasis (brassinosteroid, calcitriol), metal stress response (copper ion), and reproductive development (uterus development, maternal process in parturition, prostate gland growth). This broad, cross-kingdom mix provides no single coherent common function for the cluster, so a specific label cannot be confidently assigned.","confidence":"","size":18,"edges":19,"triangles":4,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0046232","count":14},{"id":"GO:0019383","count":14},{"id":"GO:0060065","count":14},{"id":"GO:0031408","count":13},{"id":"GO:0017143","count":13}]},{"hash":"2232940281204772982","title":"Drosophila embryonic morphogenesis and axis patterning","description":"The GO terms center on developmental morphogenesis, patterning along body axes, and organ/structure formation in Drosophila (foregut/hindgut, wing disc, spiracle/tracheal system, epidermis), with terminals signaling; some nervous-system related terms are included but overall reflect embryonic development and patterning.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048617","count":1},{"id":"GO:0007362","count":1},{"id":"GO:0009946","count":1},{"id":"GO:0035220","count":1},{"id":"GO:0008293","count":1}]},{"hash":"1326484662201653571","title":"Unknown","description":"The terms include both immune signaling (B cell receptor signaling, T cell differentiation, interferon regulation) and plant development processes (leaf morphogenesis, gravitropism, phototropism), with no clear single function linking them; therefore there is no coherent theme to assign a specific label.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0043380","count":7},{"id":"GO:0060776","count":7},{"id":"GO:0009958","count":7},{"id":"GO:0001778","count":7},{"id":"GO:0045497","count":7}]},{"hash":"1582699687052637842","title":"GTPase signaling and translational initiation regulation","description":"The cluster shows enrichment for positively regulated GTPase activity and regulation of translational initiation, with a notable cellular response to nitric oxide, suggesting a theme of signal transduction coordinating translation under signaling/stress. Some terms (like oligodendrocyte development and obsolete metabolism terms) appear divergent or outdated, indicating mixed annotations rather than a single cohesive pathway, hence a Moderate confidence.","confidence":"Medium","size":18,"edges":37,"triangles":19,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0071732","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006446","count":1},{"id":"GO:0002183","count":1}]},{"hash":"1061667097491299776","title":"Ubiquitin-mediated proteostasis in neuronal stress","description":"Top terms center on ubiquitination and proteasomal degradation (protein polyubiquitination, SCF-dependent proteasomal degradation) and neuronal stress responses (synapse assembly, oxidative-stress\u2013driven apoptotic signaling). Other terms reflect broader regulation and toxin responses, but the core theme is ubiquitin-mediated proteostasis in neurons.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030174","count":3},{"id":"GO:0042752","count":3},{"id":"GO:0071406","count":3},{"id":"GO:0060386","count":3},{"id":"GO:1902916","count":3}]},{"hash":"2137541088463602419","title":"RNA silencing and mRNA processing","description":"These terms point to a module involved in RNA silencing (ncRNA/miRNA pathways), control of translation initiation (including IRES-dependent mechanisms), and RNA processing steps such as splicing and export. The cluster likely contains RNA\u2011binding regulators and components of small RNA pathways coordinating post-transcriptional gene regulation.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":3},{"id":"GO:0045654","count":2},{"id":"GO:0035278","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0075522","count":2}]},{"hash":"1934239303434046975","title":"Transcriptional Regulation and RNA Processing","description":"This cluster is dominated by GO terms for DNA-templated transcription and mRNA processing, indicating a core function in transcriptional control and RNA processing. While a few terms point to signaling and cytokine production, these are represented only once, making them less central to the cluster. Overall, the common theme appears to be transcriptional regulation and RNA maturation processes.","confidence":"Medium","size":18,"edges":81,"triangles":129,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0048680","count":1},{"id":"GO:0007095","count":1},{"id":"GO:0000320","count":1}]},{"hash":"1179400218117577449","title":"Spliceosome Assembly and RNA Processing Machinery","description":"Based on the repeated GO terms, the cluster is dominated by RNA metabolism activities: mRNA splicing via the spliceosome, spliceosomal complex and snRNP assembly, tRNA processing, and nuclear import. These points indicate a coherent group of proteins primarily involved in RNA processing and RNA-based gene regulation, with translation appearing as a secondary association. ","confidence":"High","size":18,"edges":104,"triangles":325,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":5},{"id":"GO:0008033","count":5},{"id":"GO:0006412","count":4},{"id":"GO:0008285","count":3},{"id":"GO:0045087","count":3}]},{"hash":"1930964669093261320","title":"Retroviral integration and host gene expression","description":"This cluster combines core host gene-expression processes (cytoplasmic translation and mRNA splicing) with viral lifecycle terms (DNA integration, integrated proviral latency, and viral release), suggesting proteins linked to both host translation/RNA processing and retroviral integration/latency mechanisms. Some noise terms (e.g., symbiont-related apoptosis, amino acid starvation regulation) are present but less dominant.","confidence":"Medium","size":18,"edges":8,"triangles":4,"max_degree":3,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0002181","count":3},{"id":"GO:1903833","count":2},{"id":"GO:0019076","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0039651","count":2}]},{"hash":"1059832723899072125","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904263","count":1},{"id":"GO:0072443","count":1},{"id":"GO:0034502","count":1},{"id":"GO:1904515","count":1},{"id":"GO:0007004","count":1}]},{"hash":"1015475735668873087","title":"Vertebrate Embryogenesis and Neural Development","description":"The top GO terms point strongly to developmental processes\u2014forebrain development, neural tube closure, skeletal system development, and multicellular organism development\u2014along with DNA-templated transcription, suggesting these proteins participate in vertebrate embryogenesis and neural development. Additional terms related to cellular stress and immune defense appear ancillary, not defining the core theme. Confidence in this label is moderate because development-related terms dominate but a few non-development terms are also present.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030900","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0001501","count":3}]},{"hash":"1866604786745931177","title":"Nuclear import and cell cycle regulation","description":"This cluster is enriched for GO terms related to nuclear import (NLS-bearing and ribosomal protein import), nuclear pore complex assembly, and regulation of GTPase activity and the cell cycle. The co-occurrence of these transport-related terms, along with intraciliary transport and protein desumoylation regulation, points to a cohesive theme centered on nuclear-cytoplasmic trafficking linked to cell cycle control, with a broader connection to intracellular transport processes.","confidence":"High","size":18,"edges":82,"triangles":197,"max_degree":17,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0043547","count":10},{"id":"GO:0006607","count":10},{"id":"GO:0006610","count":7},{"id":"GO:0007050","count":7},{"id":"GO:0035735","count":6}]},{"hash":"550208155136954437","title":"Notch receptor processing and signaling","description":"This cluster is dominated by terms related to Notch receptor processing (Notch signaling pathway, Notch receptor processing) and membrane protein proteolysis (ectodomain and intracellular domain proteolysis), along with amyloid-beta formation, which are linked to gamma-secretase\u2013like cleavage common to Notch and APP pathways. Pharynx development supports a developmental Notch role. Some mitochondrial membrane terms appear ancillary noise rather than core themes.","confidence":"Medium","size":18,"edges":34,"triangles":3,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006509","count":1},{"id":"GO:0006626","count":1},{"id":"GO:0031293","count":1},{"id":"GO:0070096","count":1},{"id":"GO:0060465","count":1}]},{"hash":"430513013525009362","title":"Arp2/3-regulated actin nucleation in development","description":"The top GO terms center on both negative and positive regulation of Arp2/3 complex-mediated actin nucleation, indicating a core role in actin cytoskeleton remodeling. This is complemented by multiple developmental terms (skeletal system, brain, retina development, and multicellular growth), suggesting these actin regulators function during tissue development. A few other terms (rRNA maturation, protein oligomerization, defense response) appear ancillary. Overall, the cluster seems focused on actin nucleation control in developmental contexts.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0034316","count":4},{"id":"GO:0001501","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0000466","count":3},{"id":"GO:0007338","count":3}]},{"hash":"1642928694750617361","title":"Unknown","description":"GO terms are diverse and do not indicate a cohesive shared function; they span signaling, immune cytokine production, transcriptional regulation, development, and cell-cycle processes, with no dominant theme or enrichment to define a specific cluster function.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":1},{"id":"GO:0007095","count":1},{"id":"GO:0000320","count":1},{"id":"GO:0010954","count":1},{"id":"GO:0038162","count":1}]},{"hash":"1112977999563638826","title":"Ubiquitin-Proteasome Regulation and Stress Response","description":"This cluster is strongly enriched for protein ubiquitination and proteasomal degradation terms (protein polyubiquitination; SCF-dependent ubiquitin-protein catabolic process; positive regulation of polyubiquitination), suggesting a central theme of ubiquitin-mediated turnover. Additional terms about DNA damage checkpoint signaling, circadian rhythm, and responses to heavy metals and neuronal apoptosis indicate that ubiquitin pathways link cell cycle regulation, circadian control, and stress-induced signaling in neurons.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030174","count":4},{"id":"GO:0042752","count":4},{"id":"GO:0071406","count":4},{"id":"GO:0060386","count":4},{"id":"GO:1902916","count":4}]},{"hash":"1011705439075931050","title":"Unknown","description":"The GO terms span diverse processes (immune modulation, ubiquitination/degradation, circadian regulation, DNA replication control, DNA damage response, neuronal apoptosis, and metal stress) with no clear shared function linking all proteins, and the cluster has no edges to suggest a cohesive module. Therefore there is no single representative function to name. ","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":5},{"id":"GO:0039573","count":1},{"id":"GO:1902916","count":1},{"id":"GO:0030174","count":1},{"id":"GO:0042752","count":1}]},{"hash":"501050538491946454","title":"Unknown","description":"The top terms are highly heterogeneous, spanning immune signaling (neutrophil regulation, interferon response, viral suppression of complement), cell cycle processes (cell division, mitotic chromosome alignment), and RNA/RNP-related activities (RNA Pol III transcription, box C/D snoRNP assembly, protein trimerization, unfolded protein response). This lack of a single cohesive biological theme suggests no clear, representative function for the cluster.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":15},{"id":"GO:0039573","count":8},{"id":"GO:0071357","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0070206","count":3}]},{"hash":"1968034200637665572","title":"Axon growth and tyrosine kinase signaling","description":"This cluster centers on GO terms related to axon regeneration and guidance, plus multiple receptor tyrosine kinase signaling pathways (KIT, collagen-activated RTKs) and downstream tyrosine phosphorylation (STAT). It suggests a cohesive theme of neuronal growth signaling and focal adhesion dynamics, with additional immune-related signaling terms that broadly connect via JAK-STAT and cytokine interactions. Overall, the label captures the dominant functions of axon growth and RTK-mediated signaling. ","confidence":"High","size":18,"edges":83,"triangles":151,"max_degree":15,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":18},{"id":"GO:0010954","count":18},{"id":"GO:0038162","count":18},{"id":"GO:0032633","count":18},{"id":"GO:0045425","count":18}]},{"hash":"104015630396046571","title":"Ribosome Biogenesis and Stress-Responsive Translation","description":"The GO terms point to ribosome biogenesis and translation, with supporting RNA processing (spliceosome assembly) and multiple stress-response processes (GCN2 signaling, UV-C response, acidic pH stress, and DNA damage checkpoint). This suggests a cohesive cluster of proteins involved in ribosome/ RNA processing and the regulation of protein synthesis under cellular stress.","confidence":"High","size":18,"edges":17,"triangles":0,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":1},{"id":"GO:0000447","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0000244","count":1},{"id":"GO:0031953","count":1}]},{"hash":"254098294831588144","title":"Multisystem Development and Signaling","description":"This cluster centers on broad developmental processes across multiple tissues (nervous system and muscle development) alongside immune signaling (B cell receptor signaling, innate immune response) and general signaling regulators (NF-kappaB). The mix suggests a general theme of developmental and signaling roles across diverse tissues rather than a single, cohesive pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0007519","count":5},{"id":"GO:0051092","count":4},{"id":"GO:0008285","count":4}]},{"hash":"2144139192600387599","title":"Mitotic checkpoint and cytokine signaling cluster","description":"The top GO terms are dominated by mitosis-related processes (kinetochore localization; mitotic G2 DNA damage checkpoint signaling; re-entry into mitotic cell cycle; regulation of CDK activity), suggesting a core in cell cycle control. There are additional terms pointing to immune signaling and cytokine production (erythropoietin signaling; IL-4 production; GM-CSF production), indicating possible cross-talk between cell cycle regulation and immune signaling within this protein set. Overall, a label that reflects both mitotic control and immune/cytokine signaling captures the cluster\u2019s theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0034501","count":18},{"id":"GO:0045736","count":18},{"id":"GO:0048680","count":17},{"id":"GO:0007095","count":17},{"id":"GO:0000320","count":17}]},{"hash":"1148455273067404515","title":"Developmental and immune signaling regulation","description":"This cluster\u2019s top terms center on broad regulatory signaling across development (neural crest, axon regeneration, cardiac development) and immune/hematopoietic signaling (erythropoietin pathway, IL-4 and GM-CSF production), plus general transcription and cell-cycle regulation. The common thread is regulation of signaling and gene expression in developmental and immune contexts, rather than a single concrete pathway or function, justifying a high-level label that emphasizes regulatory signaling in development and immunity.","confidence":"Medium","size":18,"edges":65,"triangles":68,"max_degree":12,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":18},{"id":"GO:0007095","count":18},{"id":"GO:0000320","count":18},{"id":"GO:0010954","count":18},{"id":"GO:0038162","count":18}]},{"hash":"1897228338265565990","title":"RNA Pol II Transcription Regulation","description":"Most terms point to transcriptional control by RNA polymerase II (negative regulation of transcription by Pol II; regulation of Pol II preinitiation complex assembly). Some terms imply chromatin remodeling (histone H3 acetylation, nucleosome mobilization). A miRNA-mediated silencing term hints at broader gene-expression regulation. With no interaction edges, the cluster seems to group transcription regulators rather than a single complex.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035278","count":2},{"id":"GO:0043966","count":1},{"id":"GO:0000122","count":1},{"id":"GO:0043457","count":1},{"id":"GO:0045898","count":1}]},{"hash":"59619508106109580","title":"Unknown","description":"The top GO terms span neuronal regeneration, cell-cycle regulation, erythropoietin and cytokine signaling, immune cytokine production, transcriptional regulation, and developmental processes, with no single clear functional theme tying all terms together. This suggests a diverse set of roles rather than a coherent, unique cluster function.","confidence":"","size":18,"edges":13,"triangles":1,"max_degree":4,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":18},{"id":"GO:0007095","count":18},{"id":"GO:0000320","count":18},{"id":"GO:0010954","count":18},{"id":"GO:0038162","count":18}]},{"hash":"886712029023230895","title":"Ribosome Quality Control","description":"Strongest signals are ribosome-associated quality control: ubiquitin-dependent degradation and rescue of stalled ribosomes, pointing to surveillance and clearance of defective translation. Other terms (p53-mediated apoptotic signaling and nitroglycerin metabolism) may reflect broader stress links, but the core theme is ribosome surveillance and turnover.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902167","count":1},{"id":"GO:0018937","count":1},{"id":"GO:0072344","count":1},{"id":"GO:1990116","count":1}]},{"hash":"661766445929584737","title":"Neuronal ion transport and synaptic plasticity","description":"The cluster shows enrichment for neuronal signaling and ion handling: long-term synaptic potentiation and BDNF receptor signaling point to synaptic modulation, while potassium and proton transport, along with vacuolar acidification and cell volume homeostasis, reflect ion balance and intracellular pH regulation crucial for neuronal activity. Some stress-response terms appear, but the dominant theme is ion homeostasis coupled to synaptic function.","confidence":"Medium","size":18,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":4},{"id":"GO:0030007","count":3},{"id":"GO:0051595","count":3},{"id":"GO:0009651","count":3},{"id":"GO:0097623","count":3}]},{"hash":"504519973505329477","title":"Unknown","description":"The terms span axon regeneration, mitotic checkpoint signaling, cell-cycle re-entry, cytokine production, and development signaling with no single shared function linking the proteins. The lack of a cohesive theme (and no edges) prevents assigning a confident, specific label.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":17},{"id":"GO:0007095","count":17},{"id":"GO:0000320","count":17},{"id":"GO:0010954","count":17},{"id":"GO:0038162","count":17}]},{"hash":"2037227090170956581","title":"Unknown","description":"The top GO terms span immune signaling (memory T cell differentiation, B cell receptor signaling), ubiquitination regulation, plant growth responses (gravitropism, phototropism), and renal development, with no clear cohesive function linking the proteins. The presence of disparate biological themes and uniform counts suggests a random or mixed annotation set rather than a single shared role, so no representative function can be confidently assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":13},{"id":"GO:0009958","count":13},{"id":"GO:0045497","count":13},{"id":"GO:0009638","count":13},{"id":"GO:0050853","count":13}]},{"hash":"2164064283808893785","title":"Immune and Developmental Signaling","description":"The cluster features enrichment for immune-related signaling such as B cell receptor signaling, IL-4 production, GM-CSF production, and erythropoietin-mediated signaling, pointing to immune/hematopoietic signaling. It also includes terms for nervous system and skeletal muscle development and axon regeneration, suggesting a broader set of developmental signaling processes across multiple tissues rather than a single pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0042220","count":4},{"id":"GO:0007519","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0046677","count":3}]},{"hash":"1272439197028657346","title":"Unknown","description":"The terms are highly heterogeneous: lipid biosynthesis terms (phosphatidylcholine and sphingomyelin biosynthesis) appear alongside RNA processing (poly(A)+ mRNA export; rRNA processing) and developmental annotations (trophectodermal differentiation; embryo sac development), with several obsolete GO terms. There are no clear, cohesive functional themes linking these proteins, and the lack of edges supports a non-specific or misannotated cluster. None","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018229","count":1},{"id":"GO:0006656","count":1},{"id":"GO:0071432","count":1},{"id":"GO:0006629","count":1},{"id":"GO:0006686","count":1}]},{"hash":"1268830888256604915","title":"Unknown","description":"The top GO terms describe very divergent processes: regulation of memory T cell differentiation; B cell receptor signaling; various ubiquitination events; plant tropisms (gravitropism, phototropism); kidney development and function (renal sodium ion absorption, distal tubule morphogenesis); and even female analia development. There is no unifying biological process, molecular function, or cellular context that would tie these proteins into a single cohesive function. Because of this heterogeneity and lack of shared pathway signals, a concise functional label cannot be assigned beyond Unknown.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":4},{"id":"GO:0009958","count":4},{"id":"GO:0045497","count":4},{"id":"GO:0009638","count":4},{"id":"GO:0050853","count":4}]},{"hash":"2249118262799672673","title":"RNA splicing and translation regulation cluster","description":"The top GO terms are dominated by RNA processing (mRNA splicing via spliceosome; spliceosomal conformational changes) and translation initiation regulation (regulation of translational initiation; IRES-dependent viral translational initiation), suggesting a cohesive theme around RNA metabolism and control of protein synthesis. A few terms touch broader processes (cell cycle regulation, peroxisome fission, proteasome storage granule assembly) but do not override the primary signal in splicing and translation. Therefore this label reflects the core function of the cluster.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":1},{"id":"GO:0048140","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0075522","count":1},{"id":"GO:0010950","count":1}]},{"hash":"414948890113321746","title":"Epigenetic Regulation and Nucleosome Assembly","description":"The cluster's top GO terms point to chromatin-level processes: histone modification (H3K9 acetylation), nucleosome assembly, and other epigenetic marks like H3K36 methylation, suggesting a cohesive theme around chromatin regulation. Minor terms about liver regeneration, placental morphogenesis, and T cell differentiation are sporadic and not central. The absence of edges indicates a dispersed set of proteins annotated to chromatin-related functions rather than a tightly connected pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000616","count":1},{"id":"GO:0006334","count":1},{"id":"GO:0060669","count":1},{"id":"GO:0043516","count":1},{"id":"GO:0033082","count":1}]},{"hash":"1925857216353589920","title":"Unknown","description":"The top GO terms are highly heterogeneous, spanning plant pollen differentiation, brown fat cell differentiation, growth regulation, bacterial cell wall and lipopolysaccharide biosynthesis, biofilm formation, allantoin biosynthesis, and chitin/ascospore wall catabolic processes. There is no clear common pathway or functional theme connecting these terms, and the cluster has no edges, so a cohesive label cannot be inferred. ","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0040015","count":1},{"id":"GO:0048235","count":1},{"id":"GO:0050873","count":1},{"id":"GO:0016998","count":1},{"id":"GO:0019428","count":1}]},{"hash":"1454830415970642193","title":"Unknown","description":"The top GO terms span unrelated processes (immune signaling, plant tropisms, development, ribosomal/ubiquitin-related processes) with no common pathway or connection, and there are no edges or interactions linking the proteins, so there is no coherent functional theme to name the cluster.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":3},{"id":"GO:0043380","count":2},{"id":"GO:0009958","count":2},{"id":"GO:0045497","count":2},{"id":"GO:0009638","count":2}]},{"hash":"2140151560959967429","title":"Unknown","description":"The top GO terms span neuronal synapse components (synapse assembly, GABAergic transmission, reelin signaling), membrane repair, intracellular transport, immune/granuloma formation, and antibiotic response, with no single dominant process, suggesting no cohesive theme for this cluster.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001778","count":1},{"id":"GO:0007416","count":1},{"id":"GO:0043065","count":1},{"id":"GO:0071236","count":1},{"id":"GO:0032228","count":1}]},{"hash":"117285000592408304","title":"Immune Receptor Signaling Cluster","description":"The top GO terms are dominated by B cell receptor signaling and regulation of memory T cell differentiation, indicating an overall immune signaling theme. Some other terms relate to oxidative stress responses and protein ubiquitination regulation, and a few terms about plant tropisms may reflect annotation noise; overall the cluster still most strongly reflects immune receptor signaling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:1902083","count":3},{"id":"GO:0071447","count":3},{"id":"GO:1903204","count":3},{"id":"GO:0043380","count":3}]},{"hash":"1685194391466310018","title":"Chromatin remodeling and transcription regulation","description":"Dominant terms center on chromatin structure and transcription control (nucleosome assembly, chromatin remodeling, snRNA transcription, G-quadruplex DNA), with additional plant defense signals (salicylic acid and ethylene responses) and viral processes suggesting contextual regulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":1},{"id":"GO:0071919","count":1},{"id":"GO:0009751","count":1},{"id":"GO:0016032","count":1},{"id":"GO:1904850","count":1}]},{"hash":"1137633735994382287","title":"Cardiac signaling and GPCR pathways","description":"The cluster\u2019s top GO terms center on regulation of heart rate and SA node cell action potential, along with phosphatidylinositol-mediated signaling and GPCR-related signaling, plus positive regulation of GTPase activity. This suggests a core theme of signaling processes relevant to cardiac electrophysiology, despite a few unrelated terms (sporulation, bone development, mitotic cell cycle) that may reflect multifunctional proteins or noise. Overall, a cardiac signaling-focused label fits best, with some mixed signals reducing confidence to a Medium level.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0002027","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0048015","count":3},{"id":"GO:0032120","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1969243436772326965","title":"Plant chromatin remodeling and transcription","description":"The Top Terms include nucleosome assembly, chromatin remodeling, and snRNA transcription, with support from G-quadruplex DNA formation, pointing to nuclear gene regulation and chromatin dynamics. Plant hormone responses (salicylic acid, ethylene) and development-related terms (trichome patterning, sinapate ester biosynthesis) further suggest a plant-specific regulatory context, but the core shared function appears to be chromatin organization and transcription rather than a single metabolic pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":1},{"id":"GO:0071919","count":1},{"id":"GO:0009751","count":1},{"id":"GO:0016032","count":1},{"id":"GO:1904850","count":1}]},{"hash":"823326693664502840","title":"Cardiac Ion Channel Regulation","description":"The top GO terms are dominated by cardiac electrophysiology concepts: regulation of atrial membrane repolarization, heart rate by cardiac conduction, and negative regulation of delayed rectifier potassium channel activity. A few terms about neural development appear, but the core signal points to ion-channel\u2013mediated regulation in the heart.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902083","count":1},{"id":"GO:0071447","count":1},{"id":"GO:1903204","count":1},{"id":"GO:1902260","count":1},{"id":"GO:0021633","count":1}]},{"hash":"708996517623606884","title":"Meiotic Telomere Regulation","description":"The strongest signal among the terms centers on telomere maintenance and meiotic telomere dynamics (telomere maintenance via telomerase, telomere capping, and meiotic attachment of telomeres to the nuclear envelope, plus spermatogenesis). While other terms appear (mRNA processing, cell migration, adipogenesis, B cell signaling), the telomere/meiosis-related terms provide the most coherent theme for the cluster. Therefore, the label reflects this core function, with some peripheral features likely representing multifunctionality of the proteins.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0032212","count":2},{"id":"GO:0045444","count":2},{"id":"GO:1904355","count":2}]},{"hash":"550824991396496610","title":"Unknown","description":"The Top Terms span immune signaling (T and B cell processes, interferon production), plant development (leaf morphogenesis, phototropism, gravitropism), and membrane repair, with no clear shared function or pathway linking them. The cluster has no edges or interactions, suggesting either heterogeneous, poorly connected proteins or annotation noise across species. Therefore a single cohesive label isn\u2019t identifiable.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0043380","count":5},{"id":"GO:0060776","count":5},{"id":"GO:0009958","count":5},{"id":"GO:0001778","count":5},{"id":"GO:0045497","count":5}]},{"hash":"728099809064145208","title":"Unknown","description":"The top terms include immune signaling (B cell receptor signaling and memory T cell differentiation) but also plant tropisms (gravitropism/phototropism), cell division (chromosome passenger complex localization to spindle midzone), ubiquitination, and renal ion transport. The terms are highly disparate with no single cohesive function tying the proteins together, so no meaningful, specific label can be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:0043380","count":1},{"id":"GO:0009958","count":1},{"id":"GO:0045497","count":1},{"id":"GO:0009638","count":1}]},{"hash":"1020057379524464406","title":"Neuronal axon guidance and signaling","description":"This cluster is dominated by GO terms related to axon development and signaling (axon regeneration, fasciculation of motor neuron axons, planar polarity) and signaling pathways such as integrin and erythropoietin signaling. While there are also immune-related terms (T cell proliferation, IL-12 response), the strongest and most coherent theme centers on neuronal axon guidance and neuronal signaling. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006468","count":1},{"id":"GO:0048680","count":1},{"id":"GO:0046641","count":1},{"id":"GO:0008285","count":1},{"id":"GO:0097156","count":1}]},{"hash":"445865562243582206","title":"ER proteostasis and autophagy regulation","description":"Most GO terms cluster around endoplasmic reticulum quality control, including negative regulation of autophagosome maturation, ER stress\u2013related apoptotic signaling, ERAD-associated processes like unfolded protein handling, deglycosylation, and tail-anchored membrane protein insertion into the ER. The presence of aggresome assembly and ER calcium\u2013store regulation further supports a proteostasis/ER homeostasis theme. A few terms (erythrocyte differentiation, conjugation-related morphogenesis) seem incidental; overall, this cluster reflects ER proteostasis and autophagy control.","confidence":"High","size":17,"edges":79,"triangles":215,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0045648","count":12},{"id":"GO:1901340","count":11},{"id":"GO:1901097","count":11},{"id":"GO:0000753","count":11},{"id":"GO:0071816","count":11}]},{"hash":"1815441726288210688","title":"Oxidative stress defense and DNA repair","description":"This cluster is dominated by GO terms related to redox homeostasis, cellular antioxidant detoxification, and glutathione metabolism, along with nucleotide-excision repair, suggesting a shared function in responding to oxidative DNA damage and maintaining redox balance. Some other terms (prostaglandin biosynthesis, uterus development, erythrocyte differentiation) may reflect broader or secondary roles within the dataset, but the core theme remains oxidative stress response and DNA repair. ","confidence":"Medium","size":17,"edges":119,"triangles":546,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006289","count":5},{"id":"GO:0045454","count":5},{"id":"GO:0098869","count":5},{"id":"GO:0030416","count":4},{"id":"GO:0055114","count":4}]},{"hash":"1147750704746259556","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":124,"triangles":541,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006626","count":7},{"id":"GO:0006986","count":6},{"id":"GO:0045454","count":6},{"id":"GO:0006458","count":6},{"id":"GO:0090084","count":6}]},{"hash":"1476077206790628459","title":"RNA Methylation and Xenobiotic Stress Response","description":"This cluster is dominated by RNA modification, especially rRNA methylation, suggesting RNA-modifying enzymes as a core feature. It also clusters entries associated with xenobiotic and chemical stress responses (e.g., cocaine, cellular response to xenobiotic stimulus, immobilization stress, hyperosmotic response) and senescence, indicating a coherent theme of stress-regulated RNA modification. The antibiotic biosynthetic term adds a secondary metabolism aspect but does not override the primary RNA modification-stress connection.","confidence":"Medium","size":17,"edges":23,"triangles":5,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042220","count":7},{"id":"GO:0000154","count":7},{"id":"GO:0017000","count":7},{"id":"GO:0035690","count":7},{"id":"GO:0035902","count":7}]},{"hash":"1153182886884720285","title":"Pyrimidine Nucleotide Salvage and Metabolism","description":"The shared GO terms point to salvage and metabolism of pyrimidine nucleotides (CMP, UMP, CTP), with nucleoside monophosphate phosphorylation and pyrimidine metabolic processes dominating the list. This suggests a cohesive functional theme around pyrimidine nucleotide salvage pathways, rather than a broad regulatory or stress-response cluster. Some terms may reflect broader metabolic regulation, but the core signal supports a salvage/metabolic cluster for pyrimidine nucleotides.","confidence":"Medium","size":17,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046686","count":2},{"id":"GO:0046940","count":2},{"id":"GO:0006238","count":2},{"id":"GO:0044206","count":2},{"id":"GO:0046939","count":2}]},{"hash":"1849555240893802022","title":"Unknown","description":"This cluster has a highly diverse set of GO terms with little overlap in biological processes (mitochondrion inheritance, various lipid biosynthesis, nitrate assimilation, nitric oxide production, photoinhibition, sebaceous gland differentiation, etc.), and each term appears only once. The lack of a unifying function or common pathway across most members suggests no coherent shared role can be inferred from the available annotations. Therefore, a generic Unknown label is most appropriate.","confidence":"","size":17,"edges":16,"triangles":0,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":1},{"id":"GO:0006675","count":1},{"id":"GO:0001949","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0010873","count":1}]},{"hash":"2228422308911126422","title":"Mitochondrial import and respiratory complex assembly","description":"Most of the top GO terms point to mitochondrial protein trafficking (import into mitochondrial matrix and inner membrane) and assembly/operation of the respiratory chain (e.g., Complex II, NADH to ubiquinone), indicating a theme of mitochondrial protein targeting and respiration. A few terms touch on chloroplast or vacuolar processes, but the dominant signal is mitochondrial, supporting this label.","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":4},{"id":"GO:0032094","count":3},{"id":"GO:0045037","count":3},{"id":"GO:0000002","count":3},{"id":"GO:0045039","count":3}]},{"hash":"1588810271457068932","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031397","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0006370","count":2},{"id":"GO:0060613","count":2},{"id":"GO:0034414","count":1}]},{"hash":"206087550583327295","title":"Translation machinery and cell cycle control","description":"This cluster is dominated by translation and ribosome biogenesis terms (GO:0006412, GO:0042254), suggesting core involvement in protein synthesis. The presence of cell cycle and stress-related terms (G1/S transition, centrosome duplication, p53-mediated DDR, JNK signaling) indicates an integrated role in coordinating translation with cell proliferation and stress responses. The placenta development annotation seems incidental. ","confidence":"High","size":17,"edges":123,"triangles":511,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0042254","count":3},{"id":"GO:0001890","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0006351","count":2}]},{"hash":"906081463357358402","title":"Transmembrane Transporters for Ions and Small Molecules","description":"Most of the top GO terms describe transmembrane transport of various substrates, including ions (potassium, sodium, phosphate, nitrate), nutrients (arabinose, vitamins), xenobiotics, and small metabolites (4-hydroxyphenylacetate). The inclusion of neurotransmitter loading into synaptic vesicles also points to membrane-embedded transporter proteins. Taken together, these proteins likely function as membrane transporters mediating substrate movement across membranes.","confidence":"High","size":17,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":4},{"id":"GO:0098700","count":4},{"id":"GO:0015706","count":4},{"id":"GO:0035435","count":4},{"id":"GO:0042891","count":4}]},{"hash":"1502169841767720559","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":29,"triangles":18,"max_degree":6,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0002181","count":3},{"id":"GO:0000027","count":2},{"id":"GO:0006468","count":1},{"id":"GO:0002128","count":1}]},{"hash":"1667383412957168719","title":"Mitotic checkpoint and CDK regulation","description":"The cluster's GO terms emphasize mitosis: mitotic G2 DNA damage checkpoint signaling, re-entry into mitotic cell cycle, spindle assembly checkpoint, kinetochore protein localization, and negative regulation of CDK activity, as well as proteasome- and nuclear transport-related controls during cell division; a subset of terms also mention apoptosis and inflammatory signaling, but the dominant theme is mitotic control and cell cycle progression.","confidence":"High","size":17,"edges":15,"triangles":2,"max_degree":5,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0009636","count":15},{"id":"GO:0034501","count":15},{"id":"GO:0032435","count":15},{"id":"GO:0045736","count":15},{"id":"GO:1901925","count":14}]},{"hash":"1798510886257130569","title":"RNA processing and translation regulation","description":"This cluster shows strong enrichment for RNA-centric processes: DNA-templated transcription, mRNA splicing via the spliceosome, mRNA export, and regulation of translation initiation, along with ncRNA-mediated gene silencing. The combination suggests a cohesive theme of RNA maturation/processing coupled with control of gene expression at transcriptional and translational levels.","confidence":"High","size":17,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0045292","count":5},{"id":"GO:0002188","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0006378","count":4}]},{"hash":"1845298094176989344","title":"Metabolic Biosynthesis and RNA Modification","description":"The cluster\u2019s top GO terms are dominated by diverse biosynthetic processes\u2014vitamin E, ubiquinone, sterol, polyamine, and cobalamin biosynthesis\u2014pointing to a metabolic biosynthesis theme. Additionally, RNA modification terms (rRNA modification and guanine-N7 methylation) suggest an RNA-processing facet. Aging-related terms appear but seem ancillary or broad. Taken together, the group seems to reflect core metabolic biosynthesis with RNA modification references.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0001300","count":15},{"id":"GO:0090398","count":15},{"id":"GO:0010189","count":15},{"id":"GO:0006744","count":15},{"id":"GO:0030961","count":15}]},{"hash":"1725731108189437577","title":"Nucleotide and cofactor catabolism","description":"The Top Terms show several catabolic processes for nucleotides and related cofactors (dGDP, IDP, XDP, diphosphoinositol polyphosphate), plus a few other metabolic steps like dimethylallyl diphosphate biosynthesis and coenzyme A catabolism. While there are a couple of terms related to RNA editing and DNA repair, the dominant pattern is nucleotide/cofactor catabolism, suggesting a metabolic theme. The lack of edges among proteins also indicates no tight network connectivity. ","confidence":"Low","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046067","count":1},{"id":"GO:0015938","count":1},{"id":"GO:2000233","count":1},{"id":"GO:0071544","count":1},{"id":"GO:0006382","count":1}]},{"hash":"681675102314527297","title":"Unknown","description":"The top GO terms are highly diverse, spanning immune signaling, neural and muscle development, transcription, various signaling pathways, cell movement, memory T cell regulation, and even plant growth responses. With no consistent, shared biological function and no edges connecting proteins, there isn\u2019t a coherent theme to assign a specific label.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0007519","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0008286","count":3}]},{"hash":"336040136789448631","title":"Membrane Transporters for Nutrients and Xenobiotics","description":"This cluster centers on transmembrane transport for diverse substrates\u2014vitamins, xenobiotics, amino acids, taurine, glycerophosphodiesters, and fatty acids\u2014along with peroxisomal import and sterol-related regulation. Although an antigen presentation term appears, the dominant signal is membrane transport of small molecules, suggesting a group of transporter-like proteins. Therefore, \"Membrane Transporters for Nutrients and Xenobiotics\" captures the main function of the cluster.","confidence":"High","size":17,"edges":15,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":4},{"id":"GO:0006855","count":4},{"id":"GO:0099040","count":3},{"id":"GO:0019885","count":3},{"id":"GO:0015734","count":3}]},{"hash":"1963443823039091815","title":"Unknown","description":"Top terms span lipid/hormone biosynthesis (oxylipins, brassinosteroids, calcitriol), reproductive processes (parturition, prostate gland growth), xenobiotic metabolism (insecticide metabolism, organofluorine regulation), copper ion response, and methylation, with no clear shared pathway. Due to this heterogeneity, there is no single coherent function tying the proteins together, so Unknown with None confidence. ","confidence":"","size":17,"edges":14,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0031408","count":12},{"id":"GO:0017143","count":12},{"id":"GO:0010268","count":12},{"id":"GO:0071280","count":12},{"id":"GO:0060137","count":12}]},{"hash":"1413223116657575529","title":"Fungal sporulation and meiosis","description":"The top GO terms center on fungal reproductive processes, including ascospore formation, meiotic cell cycle, and meiotic DSB formation, suggesting a cluster tied to sporulation and meiosis in fungi; additional terms for budding and basic metabolism/stress responses accompany development.","confidence":"Medium","size":17,"edges":15,"triangles":0,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0007114","count":3},{"id":"GO:0006986","count":2},{"id":"GO:0005977","count":2},{"id":"GO:0016576","count":2},{"id":"GO:0050728","count":2}]},{"hash":"274983061701935516","title":"Biosynthesis and methylation","description":"The top GO terms converge on biosynthetic processes (antibiotic, biotin, chlorophyll, vitamin E biosynthesis) and on methylation events (RNA methylation; N-terminal and peptidyl-lysine dimethylation), suggesting a cluster of proteins involved in metabolite production and post-translational or RNA modification rather than a single pathway. Some aging/senescence terms appear but are ancillary. Overall, the main theme is biosynthesis paired with methylation/modification activities.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":6},{"id":"GO:0009102","count":6},{"id":"GO:0030245","count":5},{"id":"GO:0031167","count":4},{"id":"GO:0018013","count":4}]},{"hash":"1610976590725031217","title":"Neutrophil Activation Suppression","description":"The dominant GO term is negative regulation of neutrophil activation (GO:1902564) with 16 of 17 proteins, indicating a cohesive theme of dampening neutrophil responses; additional terms point to broader innate signaling and cell-cycle processes but do not override the primary function, suggesting the cluster centers on neutrophil activation suppression.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1902564","count":16},{"id":"GO:0045087","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0048680","count":2},{"id":"GO:0007095","count":2}]},{"hash":"141400975168251801","title":"Developmental and immune signaling regulation","description":"The terms point to regulation of signaling pathways and gene expression in developmental contexts (cardiac neural crest development, axon regeneration) and immune signaling (IL-4 production, GM-CSF production, erythropoietin signaling), plus cell-cycle regulation and transcription modulation. Together they suggest a cluster of proteins involved in coordinating signaling and transcription during development and immune responses.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":9},{"id":"GO:0007095","count":9},{"id":"GO:0000320","count":9},{"id":"GO:0010954","count":9},{"id":"GO:0038162","count":9}]},{"hash":"456818955987654210","title":"Ubiquitin-Mediated Stress Response","description":"These proteins converge on stress signaling and proteostasis: responses to cadmium ion, amino acid starvation, unfolded protein, and TORC1 pathway modulation, with both K48- and K63-linked ubiquitination and links to apoptosis and innate immune signaling. The common thread is ubiquitin-dependent regulation of stress responses and protein quality control, rather than a single specific pathway.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0070936","count":2},{"id":"GO:0006915","count":2}]},{"hash":"700481612846499441","title":"Bacterial cell wall catabolism and arginine metabolism","description":"The GO terms point to catabolic activities, especially breakdown of cell wall macromolecules and peptidoglycan, along with an arginine catabolic pathway. A host-immune term (negative regulation of neutrophil activation) may reflect host interaction or noise, but the core signal is bacterial cell wall degradation paired with arginine metabolism. ","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":5},{"id":"GO:0016998","count":1},{"id":"GO:0009253","count":1},{"id":"GO:0006527","count":1}]},{"hash":"1834086286554067145","title":"Growth signaling and cell cycle regulation","description":"This cluster's top GO terms show enrichment for multiple signaling pathways (erythropoietin-mediated signaling pathway, interleukin-4 production, granulocyte macrophage colony-stimulating factor production), plus strong mentions of cell cycle control (mitotic G2 DNA damage checkpoint signaling, re-entry into mitotic cell cycle) and developmental processes (cardiac neural crest cell development involved in heart development). The common thread is regulation of signaling that governs growth, differentiation, and progression through the cell cycle, rather than a single narrow function.","confidence":"Medium","size":17,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":17},{"id":"GO:0007095","count":17},{"id":"GO:0000320","count":17},{"id":"GO:0010954","count":17},{"id":"GO:0038162","count":17}]},{"hash":"1304752454833576560","title":"Immune Regulation and Interferon Signaling","description":"The top terms show immune-related processes, notably negative regulation of neutrophil activation and cellular response to type I interferon, with NF-kappaB activity and proteasome-related assembly supporting immune signaling and protein turnover. Although some terms are less connected (e.g., vagina development, RNA Pol III transcription), the dominant theme across the cluster is immune regulation and interferon signaling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":17},{"id":"GO:0010863","count":3},{"id":"GO:0060068","count":3},{"id":"GO:0010950","count":3},{"id":"GO:0043248","count":3}]},{"hash":"1625800898635809968","title":"Unknown","description":"Top GO terms span immune signaling, ubiquitination, and plant/todal development processes (e.g., memory T cell differentiation, B cell receptor signaling, gravitropism, phototropism, kidney development), with no single unifying function. The cluster also has no edges, suggesting no coherent interaction pattern to define a function. Therefore, a precise label cannot be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":3},{"id":"GO:0009958","count":3},{"id":"GO:0045497","count":3},{"id":"GO:0009638","count":3},{"id":"GO:0050853","count":3}]},{"hash":"914331080526586622","title":"Unknown","description":"The top GO terms span diverse biology\u2014from immune signaling (memory T cell differentiation, B cell receptor signaling) and ubiquitination to plant growth responses (gravitropism, phototropism) and kidney function (sodium ion absorption). This lack of a coherent, single biological theme suggests the cluster does not represent a unified function, and some terms may be misannotations or outliers. Therefore, a null, Unknown label is most appropriate.","confidence":"","size":17,"edges":16,"triangles":0,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":5},{"id":"GO:0009958","count":5},{"id":"GO:0045497","count":5},{"id":"GO:0009638","count":5},{"id":"GO:0050853","count":5}]},{"hash":"1801999465387098884","title":"DNA damage repair and response","description":"The Top Terms center on DNA repair (including general DNA repair, double-strand break repair, and repair of alkylation) and cellular responses to DNA damage such as ionizing radiation, indicating a cohesive theme of DNA damage sensing/repair processes. A couple of terms about peroxisome import and ubiquitination are present but appear ancillary to the core DNA repair theme. Overall, the cluster is best described as a DNA damage repair and response group.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006306","count":1},{"id":"GO:0043281","count":1},{"id":"GO:0006307","count":1},{"id":"GO:0060644","count":1},{"id":"GO:2000781","count":1}]},{"hash":"1038912444103943835","title":"Spliceosome Regulation and Nucleolar Localization","description":"This cluster is defined by GO terms related to RNA splicing, spliceosome dynamics, and nucleolar localization, with helicase activity regulation. The presence of splicing-related terms and nucleolar localization suggests a group of proteins involved in mRNA processing and ribonucleoprotein assembly within the nucleolus.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008380","count":1},{"id":"GO:1902570","count":1},{"id":"GO:0032211","count":1},{"id":"GO:1904751","count":1},{"id":"GO:0051096","count":1}]},{"hash":"531873537463464179","title":"Carbohydrate and glycosphingolipid catabolism","description":"Top terms indicate strong enrichment for carbohydrate and glycosphingolipid catabolic processes, including galactose catabolism, polysaccharide catabolism, keratan sulfate proteoglycan catabolic process, and glycosphingolipid metabolism; with a few outliers such as bone resorption and transcription. This suggests a theme of carbohydrate- and lipid-degrading activities rather than a single dedicated pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":3},{"id":"GO:0019380","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0046886","count":2},{"id":"GO:0045453","count":2}]},{"hash":"1180004774704229135","title":"Plastid Transcription and Thylakoid Membrane Organization","description":"Label reflects the strongest recurrent terms: plastid transcription and thylakoid membrane organization, pointing to chloroplast gene expression and photosynthetic membrane architecture. The presence of obsolete histone methylation terms and differentiation terms likely represents noise or unrelated annotations, but the plastid-focused terms dominate. Overall, the cluster is best described as chloroplast/plastid biology, with moderate confidence due to conflicting annotations.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":1},{"id":"GO:0042793","count":1},{"id":"GO:0010027","count":1},{"id":"GO:0010452","count":1},{"id":"GO:0018023","count":1}]},{"hash":"1884131684820772883","title":"Unknown","description":"The terms include B cell signaling, oxidative stress responses, regulation of histone and tubulin modification, and various transmembrane transport processes, with no clear, shared function across all proteins.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:0071447","count":2},{"id":"GO:1902083","count":2},{"id":"GO:1903204","count":2},{"id":"GO:0090043","count":2}]},{"hash":"2193424205796644422","title":"Unknown","description":"The GO terms are highly diverse, ranging from mitochondrial fission and chromatin-related processes to neuron development, erythrocyte differentiation, rDNA replication fork regulation, viral translation initiation, carbohydrate metabolism, and cAMP signaling. This lack of a single, cohesive functional theme across the cluster suggests no clear common function, so Unknown with None confidence. ","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000266","count":2},{"id":"GO:0043046","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0010976","count":2},{"id":"GO:0000161","count":2}]},{"hash":"2171618263878504053","title":"Plant chromatin remodeling and transcription","description":"The terms converge on nuclear chromatin organization (nucleosome assembly, chromatin remodeling) and transcriptional control (snRNA transcription), with plant-specific regulation signals (responses to salicylic acid and ethylene) and development (trichome patterning). This suggests the cluster centers on chromatin-state regulation governing gene expression in plants, linking chromatin dynamics to hormone responses and development.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":1},{"id":"GO:0071919","count":1},{"id":"GO:0009751","count":1},{"id":"GO:0016032","count":1},{"id":"GO:1904850","count":1}]},{"hash":"958543069047377187","title":"Endocannabinoid signaling cluster","description":"Dominant GO terms center on endocannabinoid signaling and retrograde neuronal communication (endocannabinoid signaling pathway, retrograde trans-synaptic signaling by endocannabinoid, regulation of endocannabinoid signaling pathway). A few plant-related terms appear, but they do not override the core neuronal signaling theme.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071926","count":2},{"id":"GO:0019433","count":2},{"id":"GO:0010618","count":2},{"id":"GO:1901183","count":2},{"id":"GO:0007405","count":2}]},{"hash":"1927363645095475937","title":"Epigenetic Regulation of Development","description":"This cluster centers on histone modification and nucleosome assembly (epigenetic control) and includes terms related to organ development (heart, liver) and immune differentiation (extrathymic T cell differentiation), suggesting proteins involved in epigenetic regulation during development. The absence of interactions among proteins lowers confidence, but the combined themes point to a developmental-epigenetic function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000616","count":1},{"id":"GO:0006334","count":1},{"id":"GO:0060669","count":1},{"id":"GO:0043516","count":1},{"id":"GO:0033082","count":1}]},{"hash":"1017313670704732326","title":"Unknown","description":"The terms span diverse processes (phototransduction, GPCR pathways, ubiquitination, cytokine signaling, bacterial peptidoglycan catabolism, and more) with no clear shared function or connectivity, so a single representative label cannot be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031651","count":1},{"id":"GO:0007602","count":1},{"id":"GO:0060189","count":1},{"id":"GO:0071228","count":1},{"id":"GO:0009253","count":1}]},{"hash":"743938006033350055","title":"Notch-driven muscle development and calcium signaling","description":"The top terms strongly point to muscle development (skeletal muscle fiber development) and Notch signaling, with calcium ion detection reinforcing a signaling role; together they suggest a cluster centered on muscle differentiation regulated by Notch and calcium signaling. The other terms (plant brassinosteroid signaling and amino-acid catabolism) are likely incidental annotations.","confidence":"High","size":17,"edges":24,"triangles":2,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":3},{"id":"GO:0042853","count":2},{"id":"GO:0097053","count":2},{"id":"GO:0007219","count":2},{"id":"GO:0009742","count":2}]},{"hash":"969421437081979047","title":"Unknown","description":"No GO terms are provided to define a shared function (no top terms, no edges or triangles), so there is no discernible common theme to label the cluster. Therefore the appropriate label is Unknown.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2096764635917691770","title":"Nucleosome Assembly & Chromatin Organization","description":"The listed GO terms cluster around nucleosome assembly and chromatin organization (GO:0006334, GO:0015074), with related obsolete chromatin remodeling terms, suggesting proteins involved in packaging DNA into nucleosomes and organizing chromatin structure.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":1},{"id":"GO:0043486","count":1},{"id":"GO:0006334","count":1},{"id":"GO:0010847","count":1}]},{"hash":"459785620787582666","title":"Neuronal and Cardiac Electrical Excitability","description":"Most terms point to electrical activity and membrane repolarization in neurons and cardiac muscle (e.g., regulation of heart rate by cardiac conduction, atrial action potential, membrane repolarization, neuronal action potential, potassium channel regulation). While there are a couple of development and mechanosensation terms, the dominant theme is ion transport and membrane excitability affecting neural and cardiac function, justifying a label centered on electrical excitability.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902260","count":1},{"id":"GO:0021633","count":1},{"id":"GO:0060372","count":1},{"id":"GO:0086091","count":1},{"id":"GO:0098914","count":1}]},{"hash":"671654661174322496","title":"Unknown","description":"The Top Terms are a scattered mix of developmental processes (bone marrow, lacrimal gland, atrial septum, otic vesicle, embryonic digestive tract morphogenesis) and transcriptional/apoptotic regulation, with no unifying pathway or function evident across the proteins. The cluster has no edges or shared themes to tie the terms together, so a cohesive label cannot be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071866","count":1},{"id":"GO:0048557","count":1},{"id":"GO:0060784","count":1},{"id":"GO:0030916","count":1},{"id":"GO:0001195","count":1}]},{"hash":"2071754152826383257","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0039657","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0019076","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0015074","count":1}]},{"hash":"1913189335512473260","title":"Multitissue Development and Differentiation","description":"The terms cluster around development and differentiation across multiple tissues (immune, neural, muscle, endocrine), rather than a single pathway, suggesting proteins involved in broad developmental programs across tissues.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:0031397","count":2},{"id":"GO:0007519","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0060020","count":2}]},{"hash":"69346141879819180","title":"Nutrient Metabolism and Ion Transport","description":"The listed GO terms span biosynthetic processes (lipoprotein, NAD+, polyamine, oxaloacetate) and transmembrane transport of phosphate and sodium, plus cellular responses to phosphate starvation and microautophagy. This suggests a broad theme where metabolic biosynthesis is coupled with ion/nutrient transport and stress responses, rather than a single specific pathway. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042158","count":1},{"id":"GO:0009435","count":1},{"id":"GO:0046686","count":1},{"id":"GO:0006107","count":1},{"id":"GO:0006596","count":1}]},{"hash":"929444453220990744","title":"Unknown","description":"The top GO terms include immune signaling (B cell receptor pathway), ubiquitination processes, renal function, and even plant tropisms, with no single unifying function apparent among the 17 proteins. The absence of edges/triangles and the disparate biology suggest this cluster lacks a coherent theme, so a unique, descriptive label cannot be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":2},{"id":"GO:0009958","count":2},{"id":"GO:0045497","count":2},{"id":"GO:0009638","count":2},{"id":"GO:0050853","count":2}]},{"hash":"282667232473695938","title":"Developmental and mitochondrial processes","description":"This cluster combines GO terms tied to development (brain and heart development) with mitochondrial-related activities (complex IV assembly and cytochrome-c oxidase regulation), plus ancillary protein maturation/trafficking and cellular organization terms (farnesylation, nuclear pore localization, autophagy regulation, and cell morphogenesis). The overarching theme appears to connect developmental programs with mitochondrial function and general cellular organization, though the terms are quite diverse, so the link is moderate rather than tight.","confidence":"Low","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":1},{"id":"GO:0007507","count":1},{"id":"GO:1904960","count":1},{"id":"GO:0033617","count":1},{"id":"GO:0015680","count":1}]},{"hash":"724677380412749887","title":"Neural and immune cell signaling","description":"These proteins touch both neural development/signaling (axon regeneration, motor neuron axon fasciculation, planar polarity establishment, integrin signaling) and immune signaling (interleukin pathways, IL-12 response, IL-4 production, T cell proliferation), plus related growth factor signaling (erythropoietin). The lack of a single cohesive pathway and absence of edges suggests a broad signaling-oriented cluster spanning neural and immune contexts, hence the label.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":1},{"id":"GO:0046641","count":1},{"id":"GO:0008285","count":1},{"id":"GO:0097156","count":1},{"id":"GO:0070671","count":1}]},{"hash":"1731373418756096960","title":"RNA methylation and rRNA maturation","description":"This cluster centers on RNA modification via methylation and on maturation of ribosomal RNAs (LSU and SSU) and tRNA. The GO terms point to specific RNA methylation processes and ribosome biogenesis, suggesting a cohesive RNA processing function.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018364","count":1},{"id":"GO:0070476","count":1},{"id":"GO:0000470","count":1},{"id":"GO:0030490","count":1},{"id":"GO:0030488","count":1}]},{"hash":"535339774285394106","title":"Diverse biosynthetic processes","description":"The proteins are linked to several distinct biosynthetic GO terms (lipid, cofactor, and RNA modification biosynthesis), indicating a common theme of general biosynthetic activity rather than a single pathway. This supports labeling the cluster as diverse biosynthetic processes. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006659","count":1},{"id":"GO:0006729","count":1},{"id":"GO:0006728","count":1},{"id":"GO:0008616","count":1}]},{"hash":"518775149068923873","title":"Protein folding and stress-regulated apoptosis","description":"The cluster centers on protein quality control: chaperone-dependent refolding, membrane targeting and translocation, and negative regulation of ER stress- and oxidative-stress\u2013driven apoptosis. Some terms also touch on DNA replication and morphogenesis, but the dominant theme is protein folding/trafficking with stress-regulated survival pathways.","confidence":"Medium","size":16,"edges":68,"triangles":153,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":9},{"id":"GO:0070389","count":9},{"id":"GO:0000742","count":9},{"id":"GO:0006880","count":8},{"id":"GO:0031204","count":8}]},{"hash":"1397390035783198174","title":"ER Stress Response and Apoptosis Regulation","description":"These proteins converge on cellular stress management, particularly ER stress and apoptosis regulation, with GO terms like negative regulation of ER-stress\u2013induced apoptotic signaling and oxidative-stress\u2013related apoptotic regulation. Supporting signals include post-translational targeting to membranes and protein quality control (inclusion body assembly, chaperone-related refolding). Some terms appear obsolete or fungus-specific, suggesting annotation noise, but the main theme is proteostasis and survival under stress.","confidence":"Medium","size":16,"edges":26,"triangles":11,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0006880","count":2},{"id":"GO:0031204","count":2},{"id":"GO:0070389","count":2},{"id":"GO:1903382","count":2}]},{"hash":"2278907525404229100","title":"Vesicle trafficking and exocytosis","description":"The cluster\u2019s GO terms primarily describe intracellular membrane trafficking, including ER inheritance, exocytosis, Golgi-to-vacuole and Golgi-to-plasma membrane transport, exocyst assembly, and retrograde transport from endosome to Golgi. This points to a cohesive vesicle trafficking module coordinating movement of cargo through the ER\u2013Golgi\u2013plasma membrane system. A couple development-related terms may reflect broader roles in tissue formation, but the core signal is membrane trafficking. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048309","count":2},{"id":"GO:0006887","count":1},{"id":"GO:0006896","count":1},{"id":"GO:0010668","count":1},{"id":"GO:0048611","count":1}]},{"hash":"1152782394619407508","title":"DNA Damage Response and Repair","description":"The cluster is dominated by GO terms tied to DNA double-strand break repair and processing (e.g., HR repair, SSA processing) and cell-cycle checkpoints/ transitions (G1/S, G2). These reflect a coherent theme of sensing and repairing DNA damage and coordinating the cell cycle, with a few peripheral terms (like blastocyst hatching) that are less central to the core function. Overall, the label captures the primary function of the proteins in this cluster.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000082","count":1},{"id":"GO:1990898","count":1},{"id":"GO:0001835","count":1},{"id":"GO:0000724","count":1},{"id":"GO:1990899","count":1}]},{"hash":"1374994591271354598","title":"Developmental signaling and cell cycle regulation","description":"This cluster centers on embryonic development (cranial skeleton morphogenesis) and core cell-cycle processes (DNA replication, centrosome cycle, nuclear replication), with broad involvement in signaling pathways (ERK, JNK, Wnt) and related adhesion and neuronal signaling processes, suggesting a role in coordinating development with proliferation and signal transduction.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048701","count":9},{"id":"GO:0006260","count":9},{"id":"GO:0007098","count":8},{"id":"GO:0010571","count":8},{"id":"GO:0060079","count":7}]},{"hash":"209766354659755557","title":"Epithelial Morphogenesis and Cytoskeletal Dynamics","description":"This cluster centers on actin-driven processes (lamellipodium morphogenesis, cytoplasmic actin-based contraction, terminal web assembly) and epithelial lumen formation, with supporting roles for COPII-mediated trafficking and related membrane remodeling, pointing to a theme of epithelial morphogenesis and cytoskeletal remodeling.","confidence":"Medium","size":16,"edges":32,"triangles":1,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0010610","count":2},{"id":"GO:1903689","count":1},{"id":"GO:2001269","count":1},{"id":"GO:1901301","count":1},{"id":"GO:0010004","count":1}]},{"hash":"686568683575980801","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":35,"triangles":12,"max_degree":8,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0070371","count":6},{"id":"GO:1904628","count":6},{"id":"GO:0070935","count":6},{"id":"GO:0001893","count":6},{"id":"GO:0038066","count":6}]},{"hash":"412077328452422653","title":"Quinone and antibiotic biosynthesis","description":"GO terms indicate strong representation of quinone (menaquinone, phylloquinone) and antibiotic biosynthetic processes, plus related metabolism (fatty acid beta-oxidation, phenylacetate catabolism). Some outlier terms (DNA replication primer synthesis, rRNA maturation, protein import) are general cellular processes, but the core theme centers on secondary metabolite biosynthesis and related metabolism.","confidence":"Medium","size":16,"edges":65,"triangles":175,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0009234","count":6},{"id":"GO:0010124","count":6},{"id":"GO:0017000","count":6},{"id":"GO:0042372","count":6},{"id":"GO:0006635","count":6}]},{"hash":"378650561897980948","title":"Vacuolar trafficking and proton transport","description":"The top GO terms show a clear emphasis on vacuolar processes (protein targeting to vacuole, vacuolar acidification) and proton-related transport (proton transmembrane transport, proton motive force\u2013driven ATP synthesis), with copper ion homeostasis linked to vacuolar compartments. While some terms touch on cell cycle or sporulation, the dominant theme is vacuolar function and membrane-associated ion transport, supporting a cohesive label around vacuolar trafficking and proton transport.","confidence":"Medium","size":16,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006878","count":3},{"id":"GO:0006623","count":3},{"id":"GO:0007035","count":3},{"id":"GO:0015991","count":3},{"id":"GO:1903078","count":2}]},{"hash":"1730049352785841387","title":"RNA processing and translation regulation","description":"Dominant GO terms point to RNA metabolism and control of gene expression at the RNA level, including mRNA export from the nucleus, ribosomal subunit export, splice site recognition and spliceosome-mediated splicing, as well as regulation of translational initiation and miRNA-mediated silencing. While a couple of terms reflect broader cellular responses, the core theme across the cluster is RNA processing and translation regulation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0035278","count":1}]},{"hash":"2054108327804638392","title":"Multitissue Development and Differentiation","description":"The top GO terms cluster around developmental processes and differentiation across multiple tissues (neural, pancreatic, muscular, vascular), including somitogenesis, floor plate, retinal and cortical interneuron differentiation, and organogenesis. This points to a broad developmental differentiation program rather than a single pathway, justifying a cross-tissue development label.","confidence":"High","size":16,"edges":25,"triangles":27,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":6},{"id":"GO:0031018","count":4},{"id":"GO:0001756","count":3},{"id":"GO:0035470","count":3},{"id":"GO:0035881","count":3}]},{"hash":"1128898246348305717","title":"Cadmium-induced stress and innate immune signaling","description":"This cluster is enriched for cellular response to cadmium ion, innate immune response, interferon-beta production, and ubiquitin-proteasome\u2013related processes, along with DNA damage checkpoints and proliferation regulation. Together, these terms suggest a coordinated cellular stress response to metal exposure that engages proteostasis and innate immune signaling; the retina vasculature term may reflect tissue-specific expression rather than a core function, making the overall theme metal-induced stress linked to immunity and cell-cycle control.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0071276","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0061298","count":6},{"id":"GO:0051092","count":6},{"id":"GO:0051436","count":6}]},{"hash":"604145741745830411","title":"Developmental gene regulation and organogenesis","description":"Based on the GO terms, the proteins cluster around developmental processes (lens, heart, mammary gland, kidney development, sex determination) and transcriptional regulation, suggesting a group of regulators driving tissue differentiation and organogenesis. While a few terms touch on other processes, the dominant theme is developmental gene regulation and differentiation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001111","count":2},{"id":"GO:0006351","count":2},{"id":"GO:1905150","count":1},{"id":"GO:0007095","count":1},{"id":"GO:0019101","count":1}]},{"hash":"118592238381271576","title":"Ubiquitin-Proteasome-Mediated Proteolysis","description":"This cluster centers on ubiquitin tagging and proteasome-dependent protein degradation (ubiquitin-dependent protein catabolic processes and polyubiquitination). The other terms point to cell-cycle/DNA damage signaling, circadian rhythm regulation, and stress responses, which can be tied to regulated proteostasis rather than a single function.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0030174","count":2},{"id":"GO:0042752","count":2},{"id":"GO:0071406","count":2},{"id":"GO:0060386","count":2}]},{"hash":"181940154996026052","title":"Immune Response Regulation and Protein Turnover","description":"The cluster shows enrichment in immune-related signaling and regulation (negative regulation of neutrophil activation, TNF-mediated signaling, JNK cascade) and in ubiquitin-dependent protein catabolic processes, pointing to coordinated immune signaling with protein turnover. The presence of V(D)J recombination further supports adaptive immunity involvement, while some chromatin-related terms (obsolete histone modification regulation) hint at broader regulatory themes. Overall, the dominant theme is immune response regulation tied to protein turnover.","confidence":"Medium","size":16,"edges":24,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":4},{"id":"GO:0042787","count":3},{"id":"GO:0033209","count":2},{"id":"GO:0070512","count":2},{"id":"GO:1901253","count":2}]},{"hash":"143534154598374188","title":"Neural-immune stress response","description":"The terms cluster around stress-related transcriptional regulation (DNA-templated transcription, DNA damage signaling), responses to toxins and pathogens (cadmium ion, Gram-positive defense, LPS signaling), and neural/behavioral processes (corpus callosum development, dopamine response, pain behavior), suggesting a group of proteins that coordinate nervous system and immune stress responses rather than a single specific pathway. Confidence is Medium.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0071276","count":5},{"id":"GO:0031571","count":5},{"id":"GO:0050830","count":4},{"id":"GO:0022038","count":3}]},{"hash":"1268138530055645982","title":"Unknown","description":"The terms span transcription regulation, neural differentiation and plasticity, skeletal muscle regeneration, pain sensing, cardiac signaling, telomere regulation, and general cell migration, with no clear shared function or tissue-specific theme. Several terms are obsolete and there\u2019s no cohesive pathway tying the proteins together, so a single intuitive label cannot be supported.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000083","count":2},{"id":"GO:1900383","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0043403","count":1},{"id":"GO:0050966","count":1}]},{"hash":"1822502696136655428","title":"Interferon response and neutrophil regulation","description":"The strongest signal is negative regulation of neutrophil activation, suggesting the proteins collectively modulate innate immune responses. Additional terms point to interferon signaling (cellular response to type I interferon) and antiviral pathways, with other terms representing related signaling or proliferation processes that may be secondary associations. Overall, the cluster appears centered on immune signaling and neutrophil/ interferon-associated regulation rather than a single cohesive non-immune function.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":15},{"id":"GO:0071357","count":3},{"id":"GO:0039573","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0070206","count":2}]},{"hash":"827632696964808142","title":"DNA Replication & Cell-Cycle Machinery","description":"Based on the top GO terms, the set centers on DNA replication, centromeric chromatin assembly (CENP-A), and cell division, with related involvement in microtubule dynamics and DNA damage response. While a few terms touch vesicle transport and ERAD, the dominant theme is replication/centromere maintenance and mitotic progression, justifying a label focused on DNA replication and cell-cycle machinery.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0019079","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0051013","count":3},{"id":"GO:0030433","count":3}]},{"hash":"498962891629644104","title":"Diverse stress-responsive transcription factors","description":"The top GO term is regulation of DNA-templated transcription, suggesting transcriptional regulators. The other terms indicate cellular responses to a broad set of stimuli (vitamin E, herbicide, ethanol, iron, lipopolysaccharide, interleukin-4, glucocorticoids, etc.), pointing to proteins that modulate gene expression in response to stress or signaling cues. Although the cluster includes varied cues, the common thread appears to be transcriptional regulation under diverse environmental and hormonal stimuli.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0033197","count":1},{"id":"GO:0009635","count":1},{"id":"GO:0043200","count":1},{"id":"GO:0051384","count":1}]},{"hash":"222250229370586674","title":"Unknown","description":"The GO terms span several distinct developmental morphogenesis processes (otic vesicle formation, lacrimal gland development, atrial septum morphogenesis, embryonic digestive tract morphogenesis) as well as regulation of transcription and apoptosis, with some calcium transport activity. This lack of a single unifying function makes it hard to assign a coherent, specific label to the cluster.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901896","count":2},{"id":"GO:0071866","count":1},{"id":"GO:0048557","count":1},{"id":"GO:0060784","count":1},{"id":"GO:0030916","count":1}]},{"hash":"1563987951195453861","title":"RNA and Protein Methylation Cluster","description":"The terms cluster around various methylation processes (RNA guanine-N7 methylation, tRNA wobble uridine modification, N-terminal trimethylation, arginine dimethylation, and histone methylation), suggesting a cohesive theme of methyltransferase activities modifying both RNA and proteins. Some terms like cobalamin biosynthesis and nodulation are less directly connected and may reflect broad annotations or incidental associations.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009236","count":1},{"id":"GO:0000154","count":1},{"id":"GO:0090398","count":1},{"id":"GO:0036265","count":1},{"id":"GO:0019919","count":1}]},{"hash":"43157286493141299","title":"Membrane transport and secretion","description":"This cluster is dominated by transmembrane transport terms (amino acids, glycerophosphodiesters, long-chain fatty acids into peroxisomes, ceramide, taurine) and by protein secretion via a Type I secretion system. A few translation initiation and antigen processing terms are present but less coherent with the main theme, suggesting some annotation noise. Overall, the proteins appear to be involved in membrane-associated transport and secretion pathways.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0099040","count":3},{"id":"GO:0015734","count":3},{"id":"GO:0019885","count":3}]},{"hash":"250475030952303503","title":"Unknown","description":"The top terms span neural regeneration, cell-cycle control, immune cytokine production, erythropoietin signaling, cardiac development, and NFAT signaling, with no single cohesive function tying all proteins together. This diffuse mix across tissues and processes suggests no clear common theme to label the cluster with a specific function.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":10},{"id":"GO:0007095","count":10},{"id":"GO:0000320","count":10},{"id":"GO:0010954","count":10},{"id":"GO:0038162","count":10}]},{"hash":"464265702377557964","title":"Unknown","description":"The top GO terms span B cell receptor signaling, memory T cell differentiation, skeletal muscle development, plant gravitropism/phototropism, ubiquitination, and renal sodium absorption. This mix indicates no single coherent function tying the proteins together, suggesting annotation noise or diverse roles. ","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":7},{"id":"GO:0007519","count":7},{"id":"GO:0043380","count":6},{"id":"GO:0009958","count":6},{"id":"GO:0045497","count":6}]},{"hash":"993758854683218982","title":"Unknown","description":"The top GO terms cover disparate processes across blood development, lipid biosynthesis, skin differentiation, neural plasticity, axon regeneration, cell cycle checkpoints, erythropoietin signaling, and cytokine production, with no clear shared function. This lack of a unifying biological theme makes a precise, concise label unlikely.","confidence":"","size":16,"edges":16,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0030097","count":2},{"id":"GO:0006695","count":2},{"id":"GO:0030216","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0048680","count":1}]},{"hash":"1836542652794766303","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071030","count":1},{"id":"GO:0000460","count":1},{"id":"GO:0071039","count":1},{"id":"GO:0071031","count":1},{"id":"GO:0042254","count":1}]},{"hash":"1443958295907121024","title":"Mitochondrial targeting and inner-membrane assembly","description":"These proteins are flagged by mitochondrial-related GO terms such as targeting to mitochondrion, insertion into the mitochondrial inner membrane, and assembly of the respiratory chain (complex IV), along with proton transmembrane transport. Despite no observed edges among them, the repeated emphasis on mitochondrial processes suggests a shared mitochondrial localization/assembly theme rather than a unified cytosolic function. Overall, the cluster best maps to mitochondrial targeting and inner-membrane assembly roles.","confidence":"Medium","size":16,"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:0006810","count":1},{"id":"GO:0050826","count":1}]},{"hash":"1792330147304050911","title":"Unknown","description":"The terms span immune signaling, ubiquitination, renal development, and plant tropisms, with no clear shared function across all proteins. The lack of edges/triangles and the heterogeneous GO terms suggest no cohesive theme, so the cluster is best labeled Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":2},{"id":"GO:0009958","count":2},{"id":"GO:0045497","count":2},{"id":"GO:0009638","count":2},{"id":"GO:0050853","count":2}]},{"hash":"1201606727721405395","title":"Nutrient-responsive transcriptional regulation","description":"This cluster is dominated by GO terms about transcription regulation, especially RNA polymerase II\u2013driven transcription under various nutrient conditions (nonfermentable carbon source, oleic acid, nitrogen catabolite activation) and DNA-templated transcription, plus regulation of cellular respiration. The recurring theme is proteins that modulate transcription in response to nutrient status, with additional links to specific metabolic processes, supporting a cohesive label of nutrient-responsive transcriptional regulation.","confidence":"High","size":16,"edges":7,"triangles":0,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0033138","count":3},{"id":"GO:1901714","count":2},{"id":"GO:0061414","count":2},{"id":"GO:1901717","count":2}]},{"hash":"1630145906894128938","title":"Quinone biosynthesis and prenylation metabolism","description":"This cluster shows explicit terms for quinone biosynthesis (menaquinone, phylloquinone) and antibiotic biosynthesis, plus prenylation-related processes (prenylated protein catabolic process, CAAX-box protein processing). These points suggest a theme around isoprenoid/quinone biosynthesis and related lipid/protein modification pathways, rather than a single, narrow function. Confidence: Medium","confidence":"","size":16,"edges":11,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":1},{"id":"GO:0010124","count":1},{"id":"GO:0017000","count":1},{"id":"GO:0042372","count":1},{"id":"GO:0006574","count":1}]},{"hash":"1242202130385646529","title":"Cardiac Electrical Activity and Heart Morphogenesis","description":"The proteins cluster around GO terms tied to cardiac electrophysiology and heart development, including regulation of atrial and SA node action potentials, Purkinje signaling, Ca2+ release from the sarcoplasmic reticulum, and morphogenesis of the outflow tract and left ventricle. While a few terms (e.g., skin or bone processes) are present, the dominant signal is heart electrical activity and structural development.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098910","count":2},{"id":"GO:0071313","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0014808","count":2},{"id":"GO:0098907","count":2}]},{"hash":"979346735351515960","title":"Maternal mRNA Localization and Embryogenesis","description":"GO terms cluster around maternal control of early development, including oskar mRNA localization to pole plasm and maternal axis specification, plus embryonic morphogenesis and fertilization-related processes. The presence of nonsense-mediated decay also supports post-transcriptional regulation of transcripts during early development. Overall, the theme is embryogenesis guided by maternally deposited transcripts.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048632","count":1},{"id":"GO:0035124","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0018996","count":1},{"id":"GO:0007313","count":1}]},{"hash":"2305122773572072416","title":"Plant metabolism and aging","description":"Most GO terms here point to plant metabolic and energy pathways, including light-independent chlorophyll biosynthesis, ubiquinone and vitamin E biosynthesis, and aerobic respiration. There are also aging/stress-related terms (cellular senescence, hyperosmotic response) suggesting a link to plant metabolic states under stress. A dubious term (response to cocaine) likely reflects annotation noise rather than a true functional theme. Overall, the cluster appears to reflect plant metabolism with aging/stress aspects rather than a single precise function, hence a moderate level of confidence.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":3},{"id":"GO:0001300","count":2},{"id":"GO:0031167","count":2},{"id":"GO:0090398","count":2},{"id":"GO:0006972","count":2}]},{"hash":"88396410480293391","title":"Signaling Pathways Across Development","description":"The proteins appear to cluster around receptor- and calcium-dependent signaling (insulin receptor signaling, B cell receptor signaling, and calcium-triggered exocytosis) with supporting links to nervous system and skeletal muscle development, as well as cell movement (chemotaxis). This suggests a broad theme of signaling cascades that regulate cell behavior across tissues and during development. Some terms (like rRNA methylation and an obsolete aging term) are less directly connected and likely represent noise, but do not outweigh the signaling/development pattern. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":3},{"id":"GO:0045956","count":2},{"id":"GO:0008286","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0045719","count":2}]},{"hash":"528927480525451309","title":"DNA Replication and Repair","description":"The top GO terms are dominated by DNA synthesis and maintenance activities, including UV-damage repair, replication proofreading, RNA-templated DNA biosynthesis, gene conversion, and lagging-strand elongation during mitosis. Although a few terms touch on development or immune differentiation, these are less prominent and do not define the cluster's core function. Thus, the cluster is best described as representing DNA replication and repair processes.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016539","count":2},{"id":"GO:0046638","count":2},{"id":"GO:0060484","count":2},{"id":"GO:0003430","count":2},{"id":"GO:1904161","count":1}]},{"hash":"2100993604468324692","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000389","count":1},{"id":"GO:0000380","count":1},{"id":"GO:0000350","count":1},{"id":"GO:0048680","count":1},{"id":"GO:0046641","count":1}]},{"hash":"584648544733653577","title":"Actin cytoskeleton remodeling and cell migration","description":"The cluster is enriched for terms tied to actin dynamics (activation of GTPase activity; lamellipodium and stress fiber assembly) and cell movement (chemotaxis, localization related to muscle M-band), suggesting proteins that cooperate in cytoskeletal remodeling and motility rather than a single isolated pathway.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":3},{"id":"GO:0051496","count":3},{"id":"GO:2000973","count":2},{"id":"GO:1900169","count":2},{"id":"GO:0060268","count":2}]},{"hash":"1486360035534124285","title":"Histone Modification and Transcription Regulation","description":"The cluster\u2019s top GO terms center on histone methylation (H3K4, H3K79) and H2B deubiquitination, along with DNA-templated transcription, pointing to epigenetic control of gene expression. Additional terms reference RNA localization maintenance and stress-related ubiquitin signaling, but the dominant signal\u2014chromatin modification tied to transcription\u2014best explains the cluster.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034729","count":2},{"id":"GO:0051568","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051237","count":1},{"id":"GO:2001240","count":1}]},{"hash":"1825430973126343637","title":"Sphingolipid Catabolism","description":"This cluster is driven by a single GO term, sphingoid catabolic process (GO:0046521), with no interactions among proteins, suggesting a loose grouping around sphingolipid breakdown. The label captures the apparent functional theme despite limited connectivity.","confidence":"Low","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046521","count":1}]},{"hash":"645307907057338740","title":"Neural development","description":"Dominant GO terms cluster around neural development: negative regulation of neurogenesis, positive regulation of neural precursor cell proliferation, neuron maturation, and neuron projection extension, indicating a focus on neuronal differentiation and maturation. A few outlier terms exist but do not obscure the central neural development signal.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050768","count":1},{"id":"GO:0010725","count":1},{"id":"GO:0046203","count":1},{"id":"GO:2000179","count":1},{"id":"GO:0045793","count":1}]},{"hash":"1296999755257210599","title":"RNA Pol II termination and mRNA decay","description":"The enriched GO terms cluster around termination of RNA polymerase II transcription (both exosome-dependent and poly(A)-coupled), mRNA surveillance and decay (including nonsense-mediated decay), and related RNA processing routes (histone mRNA decay, nonfunctional rRNA decay, ITS2 processing). This points to a cohesive theme of RNA metabolism, transcription termination, and quality control, hence the label focusing on RNA Pol II termination and mRNA decay.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030846","count":1},{"id":"GO:0000184","count":1},{"id":"GO:0034244","count":1},{"id":"GO:0000448","count":1},{"id":"GO:0000738","count":1}]},{"hash":"1286077735568431684","title":"Unknown","description":"The top GO terms point to three distinct domains: activation of protein kinase activity (signaling), mitotic spindle assembly/regulation (cell division), and mitochondrial respiratory chain complex assembly (mitochondrial assembly). With no single functional theme dominating the cluster, and each term represented by only one protein, there isn't a coherent shared process to name beyond Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032147","count":1},{"id":"GO:0090307","count":1},{"id":"GO:0060236","count":1},{"id":"GO:0033108","count":1}]},{"hash":"2050567152033602141","title":"Intracellular vesicle trafficking and organelle transport","description":"The GO terms cluster around intracellular transport processes, including endosome-to-Golgi transport, retrograde transport, Golgi-related vesicle transport, vacuole targeting, and mitochondrial distribution, with additional links to cytoskeletal rearrangements and cell division that support intracellular organization.","confidence":"Medium","size":15,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0048312","count":2},{"id":"GO:0032258","count":2},{"id":"GO:0043149","count":2},{"id":"GO:0055059","count":1},{"id":"GO:0045053","count":1}]},{"hash":"685403126647961059","title":"Golgi vesicle trafficking and synaptic receptor localization","description":"The top terms center on ER-to-Golgi and intra-Golgi transport, SNARE complex assembly, and exocytic insertion of neurotransmitter receptors to the postsynaptic membrane, with links to receptor localization at synapses and long-term potentiation, indicating a cluster focused on Golgi-/secretory-pathway\u2013mediated receptor trafficking relevant to synaptic function.","confidence":"High","size":15,"edges":47,"triangles":50,"max_degree":11,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006888","count":9},{"id":"GO:0048280","count":9},{"id":"GO:0006891","count":9},{"id":"GO:0090161","count":9},{"id":"GO:0035493","count":8}]},{"hash":"2281609359047810359","title":"Ubiquitin-Regulated Immune Signaling","description":"The cluster is enriched for ubiquitination/deubiquitination processes, NF-kappaB and TNF signaling, C-type lectin receptor\u2013mediated immune responses, and proteasome assembly, with viral processes suggesting antiviral involvement. The common theme is ubiquitin-dependent regulation of immune signaling and protein turnover, including proteasome-associated modulation. ","confidence":"High","size":15,"edges":80,"triangles":286,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":11},{"id":"GO:0038061","count":10},{"id":"GO:0033209","count":10},{"id":"GO:0002223","count":10},{"id":"GO:0016032","count":10}]},{"hash":"619834172720607429","title":"Karyogamy and Nuclear Membrane Fusion","description":"This cluster is characterized by GO terms tied to nuclear membrane fusion during karyogamy and conjugation-associated cellular fusion, pointing to proteins involved in mating-related nuclear fusion processes (karyogamy). The terms together suggest a cohesive function in nuclear envelope fusion during sexual reproduction, likely in fungi/yeast.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048288","count":1},{"id":"GO:0000742","count":1}]},{"hash":"2084973293074035457","title":"ER Stress and Membrane Targeting Regulation","description":"This cluster is dominated by GO terms for SRP-dependent cotranslational and post-translational protein targeting to membranes, plus several entries on regulation of ER-stress\u2013related and heat- or oxidative-stress\u2013induced apoptosis. Together they point to a group of proteins involved in membrane-associated protein targeting and protein quality control, with some noise from unrelated terms and obsolete annotations.","confidence":"Medium","size":15,"edges":72,"triangles":186,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006880","count":3},{"id":"GO:0031204","count":3},{"id":"GO:0070389","count":3},{"id":"GO:1903382","count":3}]},{"hash":"888280326883481391","title":"Neuronal axon regeneration and guidance signaling","description":"The top GO terms cluster around neuronal development with a focus on axon biology: positive regulation of axon regeneration and retinal ganglion cell axon guidance. This is complemented by signaling pathways driven by tyrosine kinases (Kit, collagen receptor) and downstream STAT phosphorylation, as well as regulation of focal adhesion\u2014together pointing to growth-factor\u2013mediated signaling that promotes axon growth and guidance. Immune-related cytokine production terms appear but do not define the main theme; the dominant signal is neuronal axon growth and navigation.","confidence":"High","size":15,"edges":20,"triangles":11,"max_degree":10,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":8},{"id":"GO:0010954","count":8},{"id":"GO:0038162","count":8},{"id":"GO:0032633","count":8},{"id":"GO:0045425","count":8}]},{"hash":"1678197477024258644","title":"Methylation and transcription regulation cluster","description":"Dominant GO terms center on various methylation processes (rRNA methylation, peptidyl-glutamine and -arginine methylation, histone methylation) and a link to transcriptional control (negative regulation of transcription by RNA polymerase II). This convergence suggests the proteins function in methylation-based regulation of RNA/protein function and gene expression. Some auxiliary terms (cobalamin biosynthesis, cellular growth, responses) are present but secondary to the core methylation/transcription theme.","confidence":"High","size":15,"edges":42,"triangles":62,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0009236","count":3},{"id":"GO:0031167","count":3},{"id":"GO:0090398","count":3},{"id":"GO:0018364","count":3},{"id":"GO:0016049","count":3}]},{"hash":"2024230750637823001","title":"Chloroplast metabolism and senescence","description":"The top GO terms cluster around plastid-associated processes such as light-independent chlorophyll biosynthetic process and chlorophyll metabolism, with related biosynthesis of vitamin E and ubiquinone, and a link to respiration. Aging/senescence terms and stress responses also appear, suggesting a plastid-centered metabolism theme tied to stress-induced aging. Methylation terms (rRNA and peptide methylation) may reflect regulation within plastids, supporting a cohesive view of chloroplast metabolism linked to senescence and redox balance.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001300","count":3},{"id":"GO:0031167","count":3},{"id":"GO:0090398","count":3},{"id":"GO:0006972","count":3},{"id":"GO:0036068","count":3}]},{"hash":"1396497354278417626","title":"Meiosis DNA Repair and Ubiquitination","description":"This cluster shows a strong enrichment for meiotic processes (meiotic DSB formation, chiasma assembly) and DNA repair (error-free postreplication repair), with accompanying ubiquitin/SUMO signaling (K27/K6-linked ubiquitination, SUMO transferase activity). Together these suggest a cohesive role in genome maintenance during meiosis, regulated by ubiquitin/SUMO pathways. Some peripheral terms (peroxisome import, fungal cell wall organization) appear as secondary annotations but do not override the core meiotic repair theme.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0042275","count":15},{"id":"GO:0043524","count":15},{"id":"GO:0044314","count":15},{"id":"GO:0016558","count":15},{"id":"GO:0031505","count":15}]},{"hash":"1308375279228493346","title":"Ribosome biogenesis and translation initiation","description":"The top GO terms are dominated by translation initiation (GO:0002188, GO:0001731) and rRNA maturation (GO:0000466), pointing to ribosome assembly and the start of protein synthesis. Additional terms suggest supplementary roles in ubiquitin-dependent protein turnover, fertilization, defense, and development, which may reflect multifunctional proteins rather than a single cohesive process. Overall, the cluster appears centered on ribosome biogenesis and translation initiation.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0002188","count":8},{"id":"GO:0001731","count":8},{"id":"GO:0000466","count":6},{"id":"GO:2000060","count":6},{"id":"GO:0007338","count":6}]},{"hash":"1357222470103801096","title":"Unknown","description":"The GO terms are highly heterogeneous, including immune signaling (B cell receptor signaling; memory T cell differentiation), development (skeletal muscle, nervous system), plant tropisms (gravitropism; phototropism), and mitosis/ubiquitination-related terms, with almost no overlap suggesting a single functional module. The lack of edges or shared pathways among the 15 proteins supports labeling as Unknown since no cohesive theme emerges from these annotations.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:0007519","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0043380","count":1},{"id":"GO:0009958","count":1}]},{"hash":"969283625258364071","title":"Amino acid catabolism","description":"This cluster shows a prominent presence of catabolic processes for amino acids, notably L-alanine and L-kynurenine (derived from tryptophan), as well as glyoxylate catabolism, suggesting a metabolic focus on amino acid breakdown. The inclusion of pyridoxine (vitamin B6) biosynthesis supports cofactor-related aspects of amino acid metabolism. A Notch signaling pathway term and DNA-templated transcription are present but appear less central to the main theme, indicating they may be background or cross-annotation. Overall, the dominant signal points to amino acid catabolic pathways as the defining function of this cluster.","confidence":"High","size":15,"edges":93,"triangles":319,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042853","count":4},{"id":"GO:0019878","count":4},{"id":"GO:0097053","count":4},{"id":"GO:0007219","count":4},{"id":"GO:0009436","count":4}]},{"hash":"1653009559907517297","title":"Protein quality control and stress response","description":"The top GO terms cluster around stress-related processes and proteostasis, including innate immune response, cellular response to cadmium ion, response to unfolded protein, chaperone-mediated protein folding, and ubiquitination. While a few terms like photosynthesis and steroid receptor assembly appear, they are peripheral to the main theme. Overall, the proteins seem tied together by roles in managing protein folding/quality control and associated stress signaling rather than a single, cohesive pathway.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0000278","count":2},{"id":"GO:1903646","count":1},{"id":"GO:0006986","count":1}]},{"hash":"237662070316777867","title":"RNA processing, splicing, and export","description":"The top GO terms cluster around mRNA maturation and handling, including regulation of translational initiation (IRES-dependent translation, translational inhibition), splicing-related processes (splice site recognition, spliceosome-mediated splicing, polyadenylation-linked steps), and mRNA export from the nucleus. A DNA damage checkpoint signaling component also ties into transcriptional/processing responses, supporting a broad RNA processing/transport theme. Overall, this set most coherently reflects RNA processing and nuclear export functions.","confidence":"High","size":15,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0075522","count":2},{"id":"GO:0035278","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0072423","count":1},{"id":"GO:0048026","count":1}]},{"hash":"518652063896595814","title":"Unknown","description":"The top GO terms are highly diverse, spanning oxidative stress responses, nitrosylation regulation, and a mix of plant (gravitropism, phototropism, pollen sperm differentiation) and animal (brown fat differentiation, memory T cell differentiation) developmental processes, plus an obsolete term. This lack of a single coherent function or pathway suggests there isn\u2019t a clear unifying theme for the cluster.","confidence":"","size":15,"edges":13,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0071447","count":2},{"id":"GO:1902083","count":2},{"id":"GO:1903204","count":2},{"id":"GO:0040015","count":1},{"id":"GO:0048235","count":1}]},{"hash":"29964235055791109","title":"Potassium/Calcium Ion Transport and Signaling","description":"This cluster is led by GO terms for potassium ion transmembrane transport and cellular response to calcium ion, indicating a core theme of ion handling and calcium- or signal-driven responses. The presence of a PI3K/AKT signaling term supports a signaling-regulation angle, with additional metabolic and physiological terms (e.g., urine volume regulation, bile acid/fructose biosynthesis) that appear ancillary to the central ion-transport/signaling theme. Overall, the dominant pattern points to ion transport coupled with cellular signaling rather than a single metabolic pathway.","confidence":"Medium","size":15,"edges":40,"triangles":48,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":6},{"id":"GO:0051897","count":5},{"id":"GO:0030573","count":5},{"id":"GO:0035809","count":5},{"id":"GO:1901653","count":5}]},{"hash":"1846909234924438049","title":"Unknown","description":"The top GO terms are highly diverse, covering axon regeneration, cell-cycle checkpoints, erythropoietin and immune signaling, transcriptional regulation, granulocyte/macrophage colony-stimulating factor production, and heart development, with no single dominant process. This lack of a cohesive theme suggests no specific cluster function can be confidently assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":15},{"id":"GO:0007095","count":15},{"id":"GO:0000320","count":15},{"id":"GO:0010954","count":15},{"id":"GO:0038162","count":15}]},{"hash":"1446448818398995750","title":"Innate Immune Signaling and Hematopoietic Cytokine Regulation","description":"The strongest signals are related to innate immunity and regulation of immune cell activity, notably negative regulation of neutrophil activation and innate immune response, with several cytokine-related terms (IL-4 production, GM-CSF production, erythropoietin signaling) pointing to hematopoietic and immune regulation. Some terms (axon regeneration, mitotic checkpoints) are less directly connected and may reflect broader stress or cross-talk functions. Overall, the cluster seems centered on immune signaling and blood cell regulation.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:1902564","count":15},{"id":"GO:0045087","count":6},{"id":"GO:0048680","count":5},{"id":"GO:0007095","count":5},{"id":"GO:0000320","count":5}]},{"hash":"319171106575798817","title":"Ubiquitin-Proteasome Regulation and Stress Response","description":"The top GO terms cluster around ubiquitin-mediated proteostasis (polyubiquitination, SCF-dependent degradation, proteolytic catabolism) and stress-related signaling (cadmium/methylmercury response, oxidative stress\u2013induced neuronal apoptosis, circadian rhythm regulation). There are also links to cell-cycle checkpoints (DNA replication initiation, DNA damage signaling) and synapse assembly, which can be influenced by proteostasis and stress pathways. Together, these suggest a coherent theme of ubiquitin-regulated protein turnover coupled to cellular stress and cell-cycle control.","confidence":"Medium","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":3},{"id":"GO:0030174","count":3},{"id":"GO:0042752","count":3},{"id":"GO:0031146","count":3},{"id":"GO:1903378","count":3}]},{"hash":"201276194444543912","title":"DNA replication and mitosis regulators","description":"The cluster is dominated by GO terms tied to DNA replication and mitosis (DNA replication, mitotic cell cycle, mitotic G2 DNA damage checkpoint signaling, re-entry into mitotic cell cycle). While a few signaling/cytokine-related terms appear, the strongest and most frequent annotations point to cell-cycle progression and DNA synthesis, suggesting these proteins function together in cell-cycle control.","confidence":"High","size":15,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":15},{"id":"GO:0000278","count":15},{"id":"GO:0048680","count":14},{"id":"GO:0007095","count":14},{"id":"GO:0000320","count":14}]},{"hash":"2269033518154650969","title":"UPS-driven cell cycle regulation and stress signaling","description":"This cluster is dominated by ubiquitin-proteasome\u2013mediated protein degradation (SCF-dependent, polyubiquitination) and cell-cycle related regulation (G1/S transition, DNA damage checkpoints). Additional terms touch on circadian rhythm regulation and stress responses, including oxidative stress and heavy metal exposure in neurons. Taken together, the proteins seem to coordinate proteostasis with cell-cycle control and stress-response pathways, rather than a single, narrow function.","confidence":"High","size":15,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":3},{"id":"GO:0008285","count":2},{"id":"GO:1902916","count":2},{"id":"GO:0030174","count":2},{"id":"GO:0042752","count":2}]},{"hash":"951563520651235431","title":"Unknown","description":"The GO terms are highly heterogeneous (metabolism of amino acids and fatty acids, vitamin biosynthesis, hormone and neurotransmitter related responses, and cell proliferation) and include several obsolete terms, offering no clear, single biological theme to define the cluster.","confidence":"","size":15,"edges":14,"triangles":0,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0009228","count":1},{"id":"GO:0010725","count":1},{"id":"GO:1902114","count":1},{"id":"GO:0006552","count":1}]},{"hash":"1926664214238776134","title":"Unknown","description":"The GO terms across the proteins are highly heterogeneous (immune regulation, development, transcription, axon regeneration, cell cycle signaling, and other signaling pathways), with no clear single functional theme or interaction pattern tying them together, so a cohesive label isn\u2019t supported.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1902564","count":15},{"id":"GO:0060068","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0010863","count":6},{"id":"GO:0043433","count":6}]},{"hash":"2182140959161490255","title":"Diverse Regulation of Signaling and Development","description":"The terms point to a broad mix of signaling and developmental regulation (immune cytokine signaling with erythropoietin, IL-4, GM-CSF, and NFAT pathways) plus neural/heart development and cell-cycle checkpoint control. There isn't a single cohesive process, so the label emphasizes general regulatory roles rather than a specific pathway.","confidence":"Low","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":15},{"id":"GO:0007095","count":15},{"id":"GO:0000320","count":15},{"id":"GO:0010954","count":15},{"id":"GO:0038162","count":15}]},{"hash":"270007725049995175","title":"Ubiquitin-Mediated Proteostasis and Stress Signaling","description":"This cluster is dominated by GO terms for ubiquitin-proteasome\u2013dependent protein turnover (positive regulation of polyubiquitination, SCF-dependent proteolysis) and cell-cycle regulation (DNA replication initiation, G1/S checkpoint). Additional terms link to circadian rhythm control and various stress responses (heavy metals, oxidative stress) in neurons, plus synapse assembly, suggesting a cohesive theme of regulated proteostasis and stress-responsive cell-cycle and neuronal signaling.","confidence":"Medium","size":15,"edges":15,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":4},{"id":"GO:0030174","count":4},{"id":"GO:0042752","count":4},{"id":"GO:0031146","count":4},{"id":"GO:1903378","count":4}]},{"hash":"366461590715390518","title":"Sphingolipid and Phospholipid Metabolism","description":"The proteins are enriched for sphingolipid pathways (sphingosine and sphinganine-1-phosphate metabolism) and phospholipid turnover and biosynthesis (phospholipid dephosphorylation, phospholipid catabolic processes, and phosphatidylglycerol biosynthesis), pointing to a lipid metabolism/signaling module. Some obsolete Wnt signaling terms appear but do not define the core theme. ","confidence":"High","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0044330","count":1},{"id":"GO:0044328","count":1},{"id":"GO:0006670","count":1},{"id":"GO:0015760","count":1},{"id":"GO:0046839","count":1}]},{"hash":"215836051575299712","title":"Ubiquitin-mediated transcription regulation","description":"The GO terms cluster around deubiquitination and ubiquitin ligase regulation (monoubiquitinated protein deubiquitination, negative regulation of ubiquitin ligase activity), along with histone modifications (H2B deubiquitination, H3-K79 methylation) and DNA-templated transcription, pointing to a core function in controlling transcription through ubiquitin signaling and chromatin state. Some peripheral terms (ethanol response, ERAD, cell differentiation) may reflect broader roles of ubiquitin pathways but do not contradict the central theme.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0035616","count":1},{"id":"GO:0048149","count":1},{"id":"GO:0035520","count":1},{"id":"GO:0034729","count":1}]},{"hash":"1558047708340480352","title":"Chromatin regulation and cell cycle control","description":"This cluster centers on chromatin biology and epigenetic regulation, with terms pointing to histone modifications (acetylation), nucleosome assembly, and chromatin maintenance, alongside processes related to cell cycle regulation and cellular senescence. The presence of autophagy regulation and senescence links complements the theme of cellular state control tied to chromatin dynamics. Despite some terms being obsolete, the overall pattern suggests proteins involved in chromatin remodeling and coordination of the cell cycle and aging-related responses.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043966","count":1},{"id":"GO:0006334","count":1},{"id":"GO:0090398","count":1},{"id":"GO:0043981","count":1},{"id":"GO:0071392","count":1}]},{"hash":"100181843571357812","title":"Cytokine signaling in hematopoiesis and development","description":"This cluster centers on immune cytokine production and signaling (IL-4, GM-CSF, erythropoietin signaling) and development-related processes, with additional cell-cycle and NFAT-related regulation terms. Together, these terms point to cytokine-mediated signaling in hematopoietic/immune contexts and developmental pathways as the common theme.","confidence":"Medium","size":15,"edges":28,"triangles":6,"max_degree":6,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":15},{"id":"GO:0007095","count":15},{"id":"GO:0000320","count":15},{"id":"GO:0010954","count":15},{"id":"GO:0038162","count":15}]},{"hash":"1299832155718596896","title":"Transmembrane Metabolite Transport","description":"The top GO terms point to transport of various small molecules across membranes, notably mitochondrial ornithine transport, phosphate ion transport, pyrimidine nucleotide import into mitochondria, glycine import, and thiamine pyrophosphate transport. This suggests a cluster of membrane transport proteins coordinating metabolite exchange at mitochondrial and cellular membranes, with metabolic context such as insulin secretion responsiveness and adaptive thermogenesis supporting function.","confidence":"High","size":15,"edges":16,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0000066","count":3},{"id":"GO:0035435","count":3},{"id":"GO:1990519","count":3},{"id":"GO:0061179","count":3},{"id":"GO:0036233","count":3}]},{"hash":"767720869481547796","title":"Developmental morphogenesis with apoptotic regulation","description":"This cluster groups proteins annotated to embryonic tissue morphogenesis (otic vesicle, lacrimal gland, atrial septum, digestive tract) and to negative regulation of apoptosis and transcriptional processes, suggesting a theme of developmentally coordinated tissue morphogenesis coupled with cell survival regulation, rather than a single, cohesive pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071866","count":1},{"id":"GO:0048557","count":1},{"id":"GO:0060784","count":1},{"id":"GO:0030916","count":1},{"id":"GO:0001195","count":1}]},{"hash":"660719160588087283","title":"Unknown","description":"The top GO terms cover immune signaling, ubiquitination, kidney development, and even plant tropisms, with no single shared function tying the proteins together. This mixed set suggests no coherent biological theme for the cluster, so a specific label cannot be assigned.","confidence":"","size":15,"edges":18,"triangles":4,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":8},{"id":"GO:0009958","count":8},{"id":"GO:0045497","count":8},{"id":"GO:0009638","count":8},{"id":"GO:0050853","count":8}]},{"hash":"144511271235204314","title":"Negative regulation of TCR and MAPK signaling","description":"Top GO terms point to inhibiting T cell receptor signaling and the MAPK cascade, plus regulation of IL-2/IL-6 pathways and STAT phosphorylation, suggesting these proteins act as immune signaling inhibitors.","confidence":"High","size":15,"edges":69,"triangles":220,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":8},{"id":"GO:0050860","count":8},{"id":"GO:0000200","count":8},{"id":"GO:0008285","count":8},{"id":"GO:0050852","count":8}]},{"hash":"846881665395707465","title":"Unknown","description":"The top GO terms span a wide range of processes (axon regeneration, mitotic checkpoints, cytokine production, erythropoietin signaling, and heart development) with little overlap, and there are no edges connecting proteins, so there is no clear cohesive function to label.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":1},{"id":"GO:0007095","count":1},{"id":"GO:0000320","count":1},{"id":"GO:0010954","count":1},{"id":"GO:0038162","count":1}]},{"hash":"376347028841654897","title":"Developmental Polarity and Neural Transport","description":"The terms point to broad developmental processes with emphasis on cell polarity (planar polarity, embryonic epithelium polarity) and neural-related events (auditory receptor development, corpus callosum morphogenesis, retrograde axonal transport, microtubule localization). While other terms touch on growth signaling and membrane repair, the clustering seems driven by developmental patterning and cytoskeletal transport functions.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001778","count":1},{"id":"GO:0060117","count":1},{"id":"GO:0036095","count":1},{"id":"GO:1901253","count":1},{"id":"GO:0042249","count":1}]},{"hash":"2205779771297314174","title":"Cardiac and Visual Signaling Regulators","description":"This cluster shows enrichment for proteins involved in signaling modulation that affects both heart and vision processes, including regulation of cardiac muscle contraction and heart development, as well as visual perception and opsin signaling. It also includes broader signaling-related terms like protein phosphorylation and regulation of GTPase and kinase activities, suggesting these proteins act as modulators of signaling pathways rather than core effectors. Given the dual involvement in cardiac and visual signaling, the label reflects a cohesive but broad signaling regulator group. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0001975","count":2},{"id":"GO:0043950","count":2},{"id":"GO:0006468","count":2},{"id":"GO:0043547","count":2}]},{"hash":"2182183866606502396","title":"Retinoic acid\u2013driven neural development","description":"This cluster is strongestly linked to retinoic acid signaling and brain development, with explicit terms for cellular response to retinoic acid, RA receptor signaling, forebrain development, and nucleus accumbens development. The presence of GABA shunt supports neural metabolism, suggesting a neural development theme guided by retinoic acid, despite some broader developmental terms like cardiac muscle development. Overall, the neural/RA-driven patterning is the most coherent explanation for the cluster.","confidence":"High","size":15,"edges":18,"triangles":4,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0071300","count":4},{"id":"GO:0048384","count":3},{"id":"GO:0015976","count":3},{"id":"GO:0001936","count":3},{"id":"GO:0021768","count":3}]},{"hash":"2072642920329399654","title":"Unknown","description":"Top GO terms span steroid hormone signaling, prostate development, male differentiation, immune and stress responses, and protein quality control, with no single cohesive biological theme; this dispersion makes a concise, representative label difficult, so Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0006463","count":9},{"id":"GO:0030850","count":9},{"id":"GO:0046661","count":9},{"id":"GO:0071357","count":9},{"id":"GO:0006986","count":8}]},{"hash":"1148895298840070702","title":"Drosophila developmental patterning and sensory organ formation","description":"These GO terms cluster around segment specification and the development of sensory and neural tissues, including antennal and compound eye formation, CNS development, and muscle development. This points to a broad developmental program in Drosophila that patterns body segments and builds sensory organs and the nervous system.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007379","count":2},{"id":"GO:0007469","count":2},{"id":"GO:1902064","count":2},{"id":"GO:0021556","count":2},{"id":"GO:0048749","count":2}]},{"hash":"861436509934941912","title":"Hematopoietic and organ development under RA/PPAR signaling","description":"Many top terms center on blood development (hemopoiesis, bone marrow development) and organ morphogenesis (heart, lung). RA signaling and PPAR pathway regulation appear among both positive and negative terms, suggesting a developmental program where retinoic acid and PPAR regulate hematopoiesis and organogenesis.","confidence":"High","size":15,"edges":13,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0030097","count":1},{"id":"GO:0045599","count":1},{"id":"GO:0048386","count":1},{"id":"GO:0003007","count":1},{"id":"GO:0048387","count":1}]},{"hash":"2153129381761692417","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032968","count":1},{"id":"GO:0045899","count":1},{"id":"GO:0097190","count":1},{"id":"GO:0042797","count":1},{"id":"GO:0006362","count":1}]},{"hash":"96470879287471135","title":"Neural development, synaptic plasticity, and myelination","description":"The cluster's top GO terms emphasize brain development and neuronal connectivity: substantia nigra development, sensory perception of sound, and regulation of neuronal synaptic plasticity (both short-term and long-term). Additionally, myelination is represented, suggesting glial involvement in insulating neural circuits. A subset of terms refer to endothelial barrier establishment and tight junction assembly, which aligns with blood-brain barrier organization important for neural function. Taken together, the proteins likely participate in brain development and synaptic regulation, possibly coordinating neural circuit maturation with barrier integrity.","confidence":"Medium","size":15,"edges":25,"triangles":22,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0021762","count":1},{"id":"GO:0061028","count":1},{"id":"GO:0048169","count":1},{"id":"GO:0042552","count":1},{"id":"GO:0035208","count":1}]},{"hash":"2213963701884587986","title":"Ubiquitin-Proteasome Regulation in Stress and DNA Damage","description":"This cluster is dominated by ubiquitin-related processes (ubiquitin-dependent protein catabolic process, SCF-dependent proteasomal degradation, and polyubiquitination), pointing to a core role in proteostasis. Additional terms on circadian rhythm regulation and DNA damage checkpoint signaling, along with stress responses to arsenic and methylmercury, suggest a broader theme where protein turnover intersects with stress responses and genome integrity.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903378","count":10},{"id":"GO:0042787","count":10},{"id":"GO:0030174","count":9},{"id":"GO:0042752","count":9},{"id":"GO:0071406","count":9}]},{"hash":"344700475113989917","title":"Unknown","description":"The terms span mitochondrial assembly, metabolism, development in muscle and nervous system, autophagy, chromatin localization, and immune signaling. There's no dominant shared function or pathway among the proteins, and the cluster has no edges, suggesting a heterogeneous, non-cohesive group. Hence no specific label can be assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033108","count":1},{"id":"GO:2001172","count":1},{"id":"GO:0090180","count":1},{"id":"GO:0007527","count":1},{"id":"GO:1903212","count":1}]},{"hash":"1584463748052373406","title":"Unknown","description":"The cluster contains a highly diverse set of functions (transcription, rRNA maturation, development, immune defense, fertilization, actin nucleation, growth) with no single unifying biological theme, and its sparse connectivity provides little support for a cohesive label. Therefore, Unknown with None.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0035948","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0000466","count":2},{"id":"GO:0007338","count":2}]},{"hash":"1622182846710244040","title":"Ceramide Transport and Immune Signaling","description":"The cluster is dominated by terms related to ceramide and glycosphingolipid transport and metabolism (ER to Golgi ceramide transport, ceramide transport, glycosphingolipid metabolic process, ceramide phosphate transport), as well as several transmembrane transport activities (ammonium, organic cation, polyol). Additionally, there are immune-related terms (defense response to bacterium, regulation of T cell differentiation, response to salicylic acid), which can be linked to sphingolipid signaling in immune responses. Together, these suggest a set of membrane transporters involved in sphingolipid trafficking and related immune signaling. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046638","count":2},{"id":"GO:0009816","count":1},{"id":"GO:0072488","count":1},{"id":"GO:0009751","count":1},{"id":"GO:0015695","count":1}]},{"hash":"254310094279672074","title":"Unknown","description":"These terms point to unrelated processes (meiosis cytokinesis, phospholipid transport, axonogenesis) and there is no shared function linking the proteins, so a cohesive label cannot be assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007111","count":1},{"id":"GO:0015914","count":1},{"id":"GO:0007409","count":1}]},{"hash":"740702134263164796","title":"Axon guidance and immune signaling","description":"This cluster shows neurons-related terms such as fasciculation of motor neuron axon and positive regulation of axon regeneration, plus immune signaling terms like interleukin production, T cell proliferation, and erythropoietin/integrin signaling. The common theme appears to be proteins involved in neural connectivity that also participate in immune and growth factor signaling pathways, suggesting a dual role in development and signaling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":2},{"id":"GO:0046641","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0097156","count":2},{"id":"GO:0070671","count":2}]},{"hash":"658943821448989072","title":"Embryonic morphogenesis and transcription regulation","description":"The cluster shows a mix of transcription-related terms (DNA-templated transcription; transcription fidelity during elongation) and several embryonic development/morphogenesis terms (otic vesicle formation, atrial septum morphogenesis, lacrimal gland development, digestive tract morphogenesis). This suggests proteins that coordinate transcriptional control during embryonic organ development, with additional signaling and apoptotic regulation relevant to development. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0090090","count":2},{"id":"GO:0071866","count":1},{"id":"GO:0048557","count":1},{"id":"GO:0060784","count":1}]},{"hash":"1013963092886480037","title":"Immune response regulation and protein turnover","description":"These proteins show a mix of immune-related processes (TNF signaling, negative regulation of RIG-I signaling, V(D)J recombination, vitamin D response) together with ubiquitination and ERAD-related terms, suggesting a theme of immune regulation coupled with protein quality control/degradation and chromatin-associated regulation of gene expression. The diverse terms point to a general immune regulation cluster rather than a single precise pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0030433","count":1},{"id":"GO:0033209","count":1}]},{"hash":"882722053755143920","title":"Plant meiosis and gametophyte development","description":"The top GO terms point to pollen development and embryo sac development, along with meiotic recombination and double-strand break repair, indicating a cohesive theme of plant meiosis and gametophyte development (pollen/embryo sac) and associated DNA repair during reproduction.","confidence":"High","size":14,"edges":84,"triangles":289,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006302","count":1},{"id":"GO:0009555","count":1},{"id":"GO:0009553","count":1},{"id":"GO:0007131","count":1}]},{"hash":"2129925737638493625","title":"Spliceosome and RNA processing","description":"The cluster is dominated by GO terms for mRNA splicing via the spliceosome, spliceosomal and snRNP assembly, and RNA maturation processes (rRNA maturation, tRNA processing, histone mRNA metabolism) with indications of nuclear import. This points to a coherent RNA processing and ribonucleoprotein assembly module, with broader RNA metabolism and chromatin-related roles suggested by P-body assembly and pericentric heterochromatin formation.","confidence":"Medium","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":8},{"id":"GO:0030490","count":7},{"id":"GO:0000245","count":6},{"id":"GO:0000387","count":6},{"id":"GO:0051170","count":6}]},{"hash":"1742687209119969744","title":"Membrane trafficking and actin remodeling","description":"These terms cluster around endocytosis and vesicle trafficking, driven by actin cytoskeleton remodeling and Rho signaling. Additional notes on endosomal transport of receptors, membrane localization, and vesicle morphogenesis support a common theme of membrane trafficking coordinated with actin dynamics, potentially in neuronal signaling contexts.","confidence":"Medium","size":14,"edges":35,"triangles":39,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":1},{"id":"GO:1903778","count":1},{"id":"GO:0006897","count":1},{"id":"GO:0060990","count":1},{"id":"GO:1900740","count":1}]},{"hash":"377731858836380878","title":"Unknown","description":"Top terms span axon regeneration, mitotic cell cycle entry, RNA polymerase transcription regulation, erythropoietin signaling, IL-4 production, lacrimal gland development; no single overarching process ties them together, and there are no edges, so the proteins do not form a cohesive functional module. Unknown function.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":1},{"id":"GO:0007095","count":1},{"id":"GO:0000320","count":1},{"id":"GO:0010954","count":1},{"id":"GO:0038162","count":1}]},{"hash":"2158978035659612095","title":"Neuroimmune Axon Regeneration Signaling","description":"The top GO terms converge on neural regeneration and axon guidance (positive regulation of axon regeneration, retinal ganglion cell axon guidance) together with cytokine and growth factor signaling (IL-4 and GM-CSF production, erythropoietin signaling, STAT phosphorylation) and tyrosine kinase/adhesion pathways (KIT signaling, collagen receptor signaling, focal adhesion regulation). This suggests a cohesive theme where immune/growth factor signaling modulates neural repair and axon growth, defining a neuroimmune axon regeneration signaling cluster.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":13},{"id":"GO:0010954","count":13},{"id":"GO:0038162","count":13},{"id":"GO:0032633","count":13},{"id":"GO:0045425","count":13}]},{"hash":"1513735930555721021","title":"Metabolic and Signaling Pathways","description":"The cluster centers on core metabolism (fatty acid biosynthesis, carbohydrate metabolism, GTP biosynthesis, transsulfuration) and pathway regulation (activation of protein kinase activity, responses to glucose starvation, interleukin-4 signaling). Transport and nuclear import terms support a theme of intracellular resource management and signaling, with retina development as a less prominent outlier. Overall, the proteins appear linked to metabolic processes closely tied to cellular signaling.","confidence":"Medium","size":14,"edges":83,"triangles":286,"max_degree":13,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:1902593","count":10},{"id":"GO:0006633","count":10},{"id":"GO:0060041","count":10},{"id":"GO:0042149","count":10},{"id":"GO:0031460","count":10}]},{"hash":"2100109961639693458","title":"TLR-Mediated Immune Activation","description":"The terms cluster around toll-like receptor signaling (TLR8, TLR10), cytokine production (IL-6, type II IFN), and antimicrobial defense (Gram-positive bacteria), with links to TH17 differentiation and xenophagy, plus some cytoskeletal remodeling. Together they point to a module of innate immune sensing leading to broad immune activation and antimicrobial responses.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2000321","count":1},{"id":"GO:0034166","count":1},{"id":"GO:1904417","count":1},{"id":"GO:0071406","count":1},{"id":"GO:0045078","count":1}]},{"hash":"2084621456469508836","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":50,"triangles":75,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0009228","count":8},{"id":"GO:0043046","count":8},{"id":"GO:0055114","count":7},{"id":"GO:0021762","count":6},{"id":"GO:0007275","count":6}]},{"hash":"1811780339503891456","title":"Unknown","description":"The listed GO terms are from disparate processes (immune signaling, chromosome segregation, ubiquitination, ion transport, kidney development, tRNA modification, viral latency), and there are no edges or consistent functional themes linking the proteins. Because there is no shared biological process or pathway evident, I cannot assign a meaningful, specific function to this cluster.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":1},{"id":"GO:0035853","count":1},{"id":"GO:0031397","count":1},{"id":"GO:2000312","count":1},{"id":"GO:0051260","count":1}]},{"hash":"814385954683840462","title":"Post-transcriptional regulation: splicing and translation","description":"The GO terms are dominated by mRNA processing and translational control, including spliceosome-mediated splicing, splice site recognition, and regulation of translational initiation, as well as ncRNA- and miRNA-mediated gene silencing. This pattern suggests a cluster of proteins involved in post-transcriptional regulation, especially mRNA splicing and regulation of translation, possibly with RNA silencing factors.","confidence":"High","size":14,"edges":89,"triangles":341,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":9},{"id":"GO:0031047","count":8},{"id":"GO:0048026","count":8},{"id":"GO:0045292","count":6},{"id":"GO:0035278","count":5}]},{"hash":"1306577182085524157","title":"Meiotic homologous recombination and repair","description":"The top GO terms center on meiotic recombination and DNA damage repair (synaptonemal complex assembly, sister chromatid cohesion in meiosis, heteroduplex formation, synthesis-dependent strand annealing, DSB repair via HR) plus cellular responses to replication stress and gamma radiation. This combination strongly points to a coordinated meiotic HR and genome maintenance function, rather than generic protein interactions.","confidence":"High","size":14,"edges":69,"triangles":172,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051260","count":5},{"id":"GO:0071480","count":5},{"id":"GO:1990414","count":5},{"id":"GO:0010569","count":5},{"id":"GO:0090656","count":4}]},{"hash":"125418650805633157","title":"Cofactor Biosynthesis and Protein Modifications","description":"The cluster centers on biosynthetic processes for cofactors (ubiquinone, phylloquinone, vitamin E) and polyamines, paired with protein post-translational modifications (peptidyl-serine dimethylation, peptidyl-arginine hydroxylation) and links to aerobic respiration, suggesting a metabolic module focused on cofactor production and related protein modification in respiration-associated pathways.","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":1},{"id":"GO:0001300","count":1},{"id":"GO:0090398","count":1},{"id":"GO:0009060","count":1},{"id":"GO:0035572","count":1}]},{"hash":"2036291290505065004","title":"Embryonic Organ Morphogenesis","description":"Top terms point to the development and morphogenesis of embryonic tissues and organs (otic vesicle formation, atrial septum morphogenesis, lacrimal gland development, embryonic digestive tract morphogenesis) with supporting regulatory processes (transcription regulation, tissue homeostasis). This cohesive developmental theme justifies naming the cluster Embryonic Organ Morphogenesis.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033153","count":2},{"id":"GO:0071866","count":1},{"id":"GO:0048557","count":1},{"id":"GO:0060784","count":1},{"id":"GO:0030916","count":1}]},{"hash":"610512737634078982","title":"RNA processing and translation regulation","description":"This cluster is enriched for RNA-centric functions: miRNA-mediated gene silencing, regulation of translational initiation, IRES-dependent translation, and positive regulation of mRNA splicing, suggesting a core theme around RNA processing and translation control. Some developmental and metabolic terms appear but are less cohesive with the main RNA-regulation signal.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001172","count":2},{"id":"GO:0035212","count":2},{"id":"GO:0090180","count":2},{"id":"GO:0061328","count":2},{"id":"GO:0007527","count":2}]},{"hash":"530359658423417464","title":"Mitotic progression and septin ring assembly","description":"Top terms indicate a strong focus on cell division and septin cytoskeleton remodeling (mitotic cell cycle, exit from mitosis, mitotic cytokinesis, septin ring assembly, bud neck septin ring organization). Ribosome biogenesis appears but is probably secondary to growth linked to division; outliers like neuron projection development and cellular fusion are less representative. Overall, the cluster centers on mitosis and septin dynamics.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000747","count":4},{"id":"GO:0031175","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0000278","count":4}]},{"hash":"355861081767974685","title":"Lipid and hormone biosynthesis","description":"The cluster\u2019s top GO terms center on biosynthetic processes for signaling lipids and hormones (prostaglandin/oxylipin biosynthesis, brassinosteroid homeostasis, calcitriol biosynthesis), suggesting a unifying theme of lipid- and hormone-related metabolism; additional terms reflect related metabolic or stress-response contexts, but still connect to biosynthetic capacity across systems.","confidence":"Medium","size":14,"edges":18,"triangles":6,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":11},{"id":"GO:0032094","count":11},{"id":"GO:0031408","count":10},{"id":"GO:0017143","count":10},{"id":"GO:0010268","count":10}]},{"hash":"1227315319293421444","title":"ER Proteostasis and Trafficking","description":"The cluster is dominated by terms related to protein homeostasis and ER-associated processing: tail-anchored membrane protein insertion into the ER, aggresome assembly, and negative regulation of ER stress\u2013induced apoptotic signaling, plus suppression of autophagosome maturation. Protein localization to the nuclear pore also points to cellular trafficking. A few terms (nucleotide-excision repair, miRNA-mediated silencing, obsolete sterol regulatory element cleavage) appear peripheral. Overall, the set centers on ER-associated proteostasis and membrane trafficking.","confidence":"High","size":14,"edges":17,"triangles":6,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006289","count":2},{"id":"GO:0090204","count":1},{"id":"GO:1901340","count":1},{"id":"GO:0035278","count":1},{"id":"GO:1901097","count":1}]},{"hash":"260246413030752761","title":"Immune and developmental regulatory signaling","description":"The top GO terms point to regulation and signaling across immune-related processes (negative regulation of neutrophil activation, IL-4 and GM-CSF production, erythropoietin signaling) and developmental pathways (axon regeneration, cardiac neural crest cell development), alongside cell-cycle and transcriptional regulation terms. This suggests the proteins function as regulators of multiple signaling and developmental programs rather than a single cohesive pathway. Therefore, a broad label focusing on regulatory signaling in immune and developmental contexts is most appropriate.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:1902564","count":14},{"id":"GO:0048680","count":13},{"id":"GO:0007095","count":13},{"id":"GO:0000320","count":13},{"id":"GO:0010954","count":13}]},{"hash":"1606944453403198703","title":"Unknown","description":"There are no edges or enriched GO terms to connect the proteins, and the ReCIPE re-additions do not reveal a cohesive shared function, so a specific label cannot be inferred.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2244506234489759710","title":"Immune cytokine signaling and hematopoietic development","description":"Most of the top GO terms point to cytokine-mediated immune regulation and hematopoietic signaling, including negative regulation of neutrophil activation, IL-4 production, GM-CSF production, and erythropoietin signaling, with additional associations to related developmental processes (e.g., cardiac neural crest development). While there are some cell-cycle related terms, the dominant pattern suggests a cluster of proteins involved in immune/cytokine signaling and hematopoietic development. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:1902564","count":14},{"id":"GO:0048680","count":5},{"id":"GO:0007095","count":5},{"id":"GO:0000320","count":5},{"id":"GO:0010954","count":5}]},{"hash":"2260684877717980246","title":"Ubiquitin-Proteasome Regulation and Stress","description":"The GO terms are dominated by ubiquitination and proteasomal degradation processes (protein polyubiquitination, SCF-dependent proteasomal ubiquitin-dependent protein catabolic process, regulation of protein polyubiquitination) and by various cellular stress responses (detox to arsenic and methylmercury, oxidative stress-induced neuronal apoptosis) along with cell cycle/DNA damage signaling and even circadian rhythm regulation. This pattern suggests a cohesive theme around regulation of protein turnover under stress, with neuronal stress pathways represented; hence a label focused on ubiquitin-proteasome\u2013mediated regulation and stress is apt.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030174","count":4},{"id":"GO:0042752","count":4},{"id":"GO:0071406","count":4},{"id":"GO:0060386","count":4},{"id":"GO:1902916","count":4}]},{"hash":"1511634354327008948","title":"Regulatory Signaling and Development","description":"The GO terms are dominated by regulatory roles across diverse processes: positive and negative regulation of signaling pathways (erythropoietin signaling, IL-4 and GM-CSF production), transcriptional regulation (regulation of transcription from RNA polymerase II promoter), cell cycle control (mitotic G2 DNA damage checkpoint signaling, re-entry into mitotic cell cycle), neuronal repair (positive regulation of axon regeneration), and development (cardiac neural crest cell development). This suggests the proteins act mainly as regulators coordinating signaling, transcription, and developmental processes rather than carrying a single enzymatic function. ","confidence":"Medium","size":14,"edges":5,"triangles":0,"max_degree":3,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":14},{"id":"GO:0007095","count":14},{"id":"GO:0000320","count":14},{"id":"GO:0010954","count":14},{"id":"GO:0038162","count":14}]},{"hash":"1270969205593283230","title":"Developmental and Cytokine Signaling","description":"These proteins cluster around positive regulation of signaling and production of cytokines/growth factors (erythropoietin signaling; IL-4 and GM-CSF production) and developmental processes (cardiac neural crest development; axon regeneration). While there are also cell-cycle related terms, the dominant theme is modulation of signaling pathways involved in development and immune/growth factor responses, suggesting a cluster of proteins that function in developmental signaling and cytokine regulation.","confidence":"Medium","size":14,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0046827","count":14},{"id":"GO:0048680","count":13},{"id":"GO:0007095","count":13},{"id":"GO:0000320","count":13},{"id":"GO:0010954","count":13}]},{"hash":"383627374019513087","title":"Ubiquitin-Proteasome Regulation of Cell Cycle","description":"The terms cluster around ubiquitination and proteasomal degradation (positive regulation of protein polyubiquitination, SCF-dependent proteasomal ubiquitin-dependent protein catabolic process), which connect to cell-cycle control (mitotic G1 DNA damage checkpoint signaling, regulation of DNA-templated DNA replication initiation, G1/S transcription regulation) and clock/stress-related processes (circadian rhythm regulation, oxidative stress responses, metal ion responses), suggesting a cohesive theme of proteostasis governing cell cycle and stress signaling.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":6},{"id":"GO:0030174","count":6},{"id":"GO:0042752","count":6},{"id":"GO:0031146","count":6},{"id":"GO:1903378","count":6}]},{"hash":"521033830590089814","title":"NMJ Synaptic Assembly and Inflammatory Signaling","description":"The cluster centers on neuromuscular junction synaptic assembly and its regulation, with supporting signals from cytoskeletal dynamics (microtubule depolymerization, ER organization) and protein interactions, plus inflammatory pathways (IL-18 production and NLRP3 inflammasome assembly). This combination suggests proteins involved in NMJ formation/maintenance that also participate in immune signaling cross-talk.","confidence":"Medium","size":14,"edges":23,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":5},{"id":"GO:0007019","count":4},{"id":"GO:0072616","count":4},{"id":"GO:0008582","count":4},{"id":"GO:0051124","count":4}]},{"hash":"880862986386614745","title":"Neuronal proteostasis and cytoskeleton dynamics","description":"The GO terms point to ubiquitin-mediated protein turnover (ubiquitin-dependent proteolysis and protein polyubiquitination), microtubule polymerization, and synapse assembly in neural contexts, along with neuronal development and stress-response signaling. This suggests a cluster of neuronal proteins tied to proteostasis and cytoskeletal remodeling rather than a single, cohesive pathway. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903378","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0030174","count":2},{"id":"GO:0042752","count":2},{"id":"GO:0008285","count":2}]},{"hash":"1276954403274479217","title":"Unknown","description":"The GO terms are highly heterogeneous, including immune signaling (B cell receptor pathway; memory T cell differentiation), ubiquitination (regulated and K33-linked ubiquitination), oxidative stress (cellular response to hydroperoxide), plant developmental/tropic processes (positive gravitropism, phototropism), development terms (female analia development), and renal ion transport. With no edges or shared functional module among the proteins (0 edges, 0 triangles), there isn't a clear, single biological theme tying the proteins together. Therefore a cohesive, specific label cannot be assigned.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":6},{"id":"GO:0043380","count":5},{"id":"GO:0009958","count":5},{"id":"GO:0045497","count":5},{"id":"GO:0009638","count":5}]},{"hash":"20459802344918278","title":"Mitochondrial Metabolite Transport","description":"The top GO terms are dominated by transport into mitochondria for various metabolites and cofactors (mitochondrial L-ornithine transport, pyrimidine nucleotide import into mitochondrion, thiamine pyrophosphate transport), with additional transmembrane transport terms (phosphate ion, glycine). This pattern points to a set of proteins that facilitate mitochondrial substrate supply and cofactor movement, typical of mitochondrial transporter families. A couple of terms touch on energy regulation and organ metabolism (adaptive thermogenesis, regulation of insulin secretion), which align with mitochondrial roles in energy homeostasis. Overall, the cluster best fits mitochondrial metabolite transport functions.","confidence":"High","size":14,"edges":21,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0000066","count":2},{"id":"GO:0035435","count":2},{"id":"GO:1990519","count":2},{"id":"GO:0061179","count":2},{"id":"GO:0036233","count":2}]},{"hash":"1493829032018722129","title":"Proteostasis and misfolded protein response","description":"This set centers on responses to misfolded or damaged proteins and their degradation. The top terms include cellular response to misfolded protein, ubiquitin-dependent ERAD pathway, proteasomal protein catabolic process, aggresome and inclusion body assembly, and SCF complex disassembly under stress. Together these point to a proteostasis network that identifies, sequesters, and eliminates defective proteins. A few terms about mitochondrial protein insertion and Golgi vesicle trafficking suggest broader cellular quality-control processes, but the dominant signal is misfolded protein handling and degradation.","confidence":"Medium","size":14,"edges":12,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071218","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0032979","count":1},{"id":"GO:0048219","count":1},{"id":"GO:1901800","count":1}]},{"hash":"1599232434263960476","title":"Cytokine and growth factor signaling","description":"The proteins are dominated by GO terms involving production and signaling of cytokines and growth factors (interleukin-4, GM-CSF, erythropoietin pathways), indicating a common theme of immune signaling and hematopoietic growth factor regulation. Additional terms touch transcriptional regulation and development, and there are some cell-cycle and neural-development related terms, but the central signal is cytokine/growth factor signaling and its regulation. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":14},{"id":"GO:0007095","count":14},{"id":"GO:0000320","count":14},{"id":"GO:0010954","count":14},{"id":"GO:0038162","count":14}]},{"hash":"840334047418158125","title":"RNA splicing and translation factors","description":"The cluster shows strong enrichment for RNA processing and protein synthesis functions: spliceosome-related terms (tri-snRNP complex assembly and catalytic spliceosome formation) alongside multiple translation-related terms (translation itself, initiation, elongation, termination). This points to proteins involved in RNA maturation and ribosome-mediated translation. Some contextual terms about brain-derived neurotrophic factor signaling or cell differentiation appear as broader context, but the core signal is RNA splicing and translation. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":4},{"id":"GO:0006413","count":4},{"id":"GO:0045901","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0000244","count":3}]},{"hash":"1648965790308202452","title":"Unknown","description":"The two top GO terms are not functionally aligned: one relates to negative regulation of gluconeogenesis, and the other to vacuolar protein catabolism. With no edges or coherent shared function, there isn\u2019t a clear theme to label the cluster beyond Unknown.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045721","count":1},{"id":"GO:0007039","count":1}]},{"hash":"1621234203113928739","title":"Developmental signaling with cytokine regulation","description":"The Top Terms point to signaling in development (cardiac neural crest development, axon regeneration), immune/hematopoietic cytokine pathways (erythropoietin signaling, IL-4 and GM-CSF production), and some cell cycle regulation signals (mitotic checkpoint, re-entry into mitosis). This suggests a cluster of proteins involved in developmental and cytokine signaling with ancillary cell cycle cues, justifying a unifying label that emphasizes signaling across development and immune/hematopoietic contexts.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043433","count":2},{"id":"GO:0048680","count":1},{"id":"GO:0007095","count":1},{"id":"GO:0000320","count":1},{"id":"GO:0010954","count":1}]},{"hash":"1130199855550459800","title":"Proteostasis and protein quality control","description":"Top GO terms cluster around misfolded protein response and degradation (cellular response to misfolded protein, ubiquitin-dependent ERAD, proteasomal protein catabolic process, SCF complex disassembly). This points to a shared function in proteostasis\u2014recognition, processing, and degradation of aberrant proteins\u2014and to stress-related remodeling. While a few terms touch on unrelated processes, the dominant theme is protein quality control.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071218","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0032979","count":1},{"id":"GO:0048219","count":1},{"id":"GO:0070512","count":1}]},{"hash":"184976009149934626","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0015074","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0075713","count":1}]},{"hash":"1490548832633298442","title":"Mitochondrial Metabolite Transport and Energy Homeostasis","description":"The cluster is dominated by GO terms for transmembrane transport of various metabolites into or related to mitochondria (ornithine, phosphate, pyrimidine nucleotides, glycine, thiamine pyrophosphate) and terms tied to energy regulation (adaptive thermogenesis, insulin secretion in response to glucose). This points to a cohesive function around mitochondrial metabolite transport coupled to energy balance, rather than disparate roles.","confidence":"High","size":14,"edges":18,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0000066","count":2},{"id":"GO:0035435","count":2},{"id":"GO:1990519","count":2},{"id":"GO:0061179","count":2},{"id":"GO:0036233","count":2}]},{"hash":"286204291027246438","title":"Methylation-focused biosynthesis","description":"Most terms point to methylation processes (rRNA methylation, N-terminal peptidyl-serine dimethylation, peptidyl-lysine monomethylation, and general methylation). The set also includes chlorophyll, ubiquinone and vitamin E biosynthesis, and aerobic respiration, suggesting a plant metabolic cluster where methylation intersects diverse biosynthetic pathways.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001300","count":1},{"id":"GO:0031167","count":1},{"id":"GO:0090398","count":1},{"id":"GO:0032259","count":1},{"id":"GO:0036068","count":1}]},{"hash":"2240075095328190493","title":"Unknown","description":"This cluster has no GO terms or network connections reported (edges/triangles = 0), so there is no evident shared function to group by; with only a list of protein IDs, a specific functional theme cannot be inferred.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1879520053801245030","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072553","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0045638","count":1},{"id":"GO:2001165","count":1},{"id":"GO:0090262","count":1}]},{"hash":"2241177077292605917","title":"Unknown","description":"The top GO terms span diverse processes (adrenergic signaling, insulin secretion, neuronal differentiation, microvillus assembly, immune cell differentiation and regulation, dendrite morphogenesis, cellular response to cGMP, cardiac muscle apoptosis, interferon production), with no clear single function or pathway linking them. The network has no edges, suggesting no cohesive functional cluster emerges from these proteins. ","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071880","count":1},{"id":"GO:0030073","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0030033","count":1},{"id":"GO:2000973","count":1}]},{"hash":"1306993951681516838","title":"Unknown","description":"The top GO terms span immune signaling, ribosome biogenesis and rRNA processing, development of skeletal and muscle tissues, protein catabolism, transcription, and defense responses, with no observed network connectivity (Edges 0, Triangles 0). This lack of a single, cohesive biological theme makes it inappropriate to assign a precise functional label, so the cluster is best described as Unknown.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0042254","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0007519","count":3},{"id":"GO:0042787","count":3}]},{"hash":"909866810832436529","title":"Unknown","description":"There is no GO term enrichment or interaction data to tie these 14 proteins into a shared function, so a meaningful label cannot be assigned; the cluster remains Unknown.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1529108197843445582","title":"Unknown","description":"The top GO terms show a mix of muscle-related development and heart contraction, plant tropisms, immune signaling, and general regulatory processes, with no dominant shared function across the cluster.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":2},{"id":"GO:0098735","count":2},{"id":"GO:0006817","count":1},{"id":"GO:0043380","count":1},{"id":"GO:0009958","count":1}]},{"hash":"447003716902512581","title":"Unknown","description":"The top GO terms span neural development, immune differentiation, biofilm adhesion, tissue morphogenesis, epigenetic regulation, and insulin/glucose signaling, with no single shared function tying the proteins together. The lack of edges/triangles and the diversity of terms suggest this cluster represents a heterogeneous set rather than a coherent biological process.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022037","count":1},{"id":"GO:0031496","count":1},{"id":"GO:0002574","count":1},{"id":"GO:0010742","count":1},{"id":"GO:1900189","count":1}]},{"hash":"439158398699726342","title":"Immune signaling and endocytosis regulation","description":"The GO terms center on regulating endocytosis and immune receptor signaling (negative regulation of endocytosis; endocytosis; Fc receptor signaling; IL-4 production; respiratory burst regulation), with a few terms pointing to membrane/cytoskeletal context (M-band localization; lipid tube assembly). This suggests a cohesive theme around how cells regulate uptake and downstream immune signaling, even though some terms reflect broader structural roles.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045806","count":2},{"id":"GO:0006897","count":1},{"id":"GO:0060268","count":1},{"id":"GO:0060368","count":1},{"id":"GO:1990416","count":1}]},{"hash":"1704944964423037173","title":"Embryonic organ morphogenesis and transcriptional regulation","description":"The top GO terms cluster around development of multiple organs (otic vesicle, lacrimal gland, atrial septum, digestive tract) and include regulation of transcription (RNA Pol II and III) plus anti-apoptotic signaling, suggesting a theme of embryonic morphogenesis paired with gene expression and cell survival control rather than a single specific pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071866","count":2},{"id":"GO:0048557","count":2},{"id":"GO:0060784","count":2},{"id":"GO:0030916","count":2},{"id":"GO:0001195","count":2}]},{"hash":"1231339210794183198","title":"Unknown","description":"The terms span immune signaling, ubiquitination, stress responses, and plant/renal processes with no clear unifying function, making a coherent cluster label infeasible.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":13},{"id":"GO:0009958","count":13},{"id":"GO:0045497","count":13},{"id":"GO:0009638","count":13},{"id":"GO:0050853","count":13}]},{"hash":"7164706281047367","title":"Antennal and Compound Eye Development & Transcription Regulation","description":"The GO terms predominantly describe antennal development and compound eye development, with additional signals for CNS formation and segment specification, all tied to regulation of transcription. This points to a coherent theme of sensory organ and neural development governed by transcriptional control.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007469","count":2},{"id":"GO:0034975","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0045316","count":1},{"id":"GO:0006351","count":1}]},{"hash":"435718871125246931","title":"Post-transcriptional RNA processing and translation control","description":"This cluster\u2019s terms cluster around RNA metabolism and translation regulation, including mRNA splicing (spliceosome), mRNA export, regulation of translational initiation, eIF4F complex assembly, and miRNA-mediated gene silencing. The convergence on splicing, export, and initiation steps suggests a cohesive role in post-transcriptional gene expression control rather than transcriptional regulation, with some emphasis on translation initiation and RNA processing.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035278","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0075522","count":1},{"id":"GO:0048026","count":1},{"id":"GO:1903586","count":1}]},{"hash":"2044449456112828778","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":2},{"id":"GO:1900865","count":2},{"id":"GO:0042793","count":2},{"id":"GO:0080156","count":2},{"id":"GO:0031425","count":2}]},{"hash":"400214486734537702","title":"Neurovascular development","description":"This cluster\u2019s top terms center on neural development (interneuron migration, trabecula morphogenesis, neuron apoptosis regulation) and vascular formation (sprouting angiogenesis, establishment of endothelial barrier), with supporting cellular processes like protein transport, reticulophagy, copper homeostasis, and transcription. The common theme appears to be coordinated development and maintenance of neural vasculature, i.e., neurovascular development.","confidence":"Medium","size":13,"edges":18,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0061383","count":5},{"id":"GO:0006360","count":5},{"id":"GO:0021830","count":5},{"id":"GO:0010514","count":5},{"id":"GO:0061028","count":5}]},{"hash":"440025606880218574","title":"Innate and Adaptive Immune Signaling","description":"The top GO terms cluster around immune functions, including interferon-beta production, defense against Gram-positive bacteria, dsRNA response, and B cell receptor signaling, indicating a core theme of immune signaling. While neural development terms appear (axonogenesis, corpus callosum development), they are less representative and likely reflect pleiotropy or annotation noise. Overall, the dominant theme is immune response pathways.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0045359","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0006349","count":4}]},{"hash":"177827369700889069","title":"Glucocorticoid-regulated inflammatory signaling","description":"The cluster centers on inflammatory pathway regulation and glucocorticoid response, with GO terms highlighting COX signaling, TNF signaling modulation, and ERK pathway regulation, all classic nodes of glucocorticoid-mediated control of inflammation and stress responses. Supplemental terms about DNA repair and osteoblast differentiation may reflect broader stress and tissue remodeling contexts but do not outweigh the core theme of inflammation signaling modulated by glucocorticoids.","confidence":"Medium","size":13,"edges":53,"triangles":148,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006289","count":10},{"id":"GO:0070458","count":8},{"id":"GO:0033591","count":8},{"id":"GO:0019371","count":8},{"id":"GO:0010804","count":8}]},{"hash":"806965099715282327","title":"Endosome\u2013lysosome and synaptic vesicle trafficking","description":"This cluster is enriched for multiple vesicle trafficking processes: endosome to lysosome transport, intralumenal vesicle formation, endosome to melanosome transport, lysosomal enzyme secretion, lysosomal lumen acidification, and both anterograde and retrograde synaptic vesicle transport, plus synaptic vesicle maturation. The recurring theme is intracellular vesicle formation and movement across endosomal, lysosomal, and synaptic pathways, indicating a cohesive vesicle trafficking program.","confidence":"High","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0008333","count":2},{"id":"GO:0070676","count":2},{"id":"GO:0031629","count":1},{"id":"GO:0033299","count":1},{"id":"GO:0008090","count":1}]},{"hash":"78877695674420256","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016311","count":2},{"id":"GO:0016042","count":2},{"id":"GO:0052889","count":2},{"id":"GO:2000344","count":2},{"id":"GO:0038203","count":1}]},{"hash":"1120264249398473628","title":"Unknown","description":"The top GO terms span immune signaling (memory T cell differentiation, B cell receptor signaling), plant growth responses (gravitropism, phototropism), ubiquitination regulation, and kidney development (renal sodium absorption, distal tubule morphogenesis). There is no single cohesive theme connecting these functions, indicating either a highly heterogeneous cluster or annotation noise. ","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":2},{"id":"GO:0009958","count":2},{"id":"GO:0045497","count":2},{"id":"GO:0009638","count":2},{"id":"GO:0050853","count":2}]},{"hash":"1270975374686653662","title":"Unknown","description":"The GO terms are highly diverse (plant phytoalexin metabolism, calcium signaling, fibroblast migration, cuticle pigmentation, Leydig/Luteinization, taurine biosynthesis, thermotaxis, and miscellaneous biosynthetic processes) with little overlap, and each appears only once. There is no coherent shared function or pathway linking these proteins, so a specific descriptive name cannot be assigned.","confidence":"","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0052314","count":1},{"id":"GO:0019722","count":1},{"id":"GO:0010761","count":1},{"id":"GO:0048085","count":1},{"id":"GO:0033327","count":1}]},{"hash":"1960206959838670860","title":"Unknown","description":"The Top Terms include a mix of neuronal regeneration, cell-cycle regulation, cytokine signaling (erythropoietin, IL-4, GM-CSF), cardiac development, and NFAT pathway regulation. This spread suggests no single cohesive function for the cluster, making a precise label difficult.","confidence":"","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":2},{"id":"GO:0007095","count":2},{"id":"GO:0000320","count":2},{"id":"GO:0010954","count":2},{"id":"GO:0038162","count":2}]},{"hash":"1227985131259634101","title":"Mitosis and cell cycle regulation","description":"The terms show a clear emphasis on cell cycle control: multiple entries for G1/S and G2/M transitions, mitotic spindle pole separation, and histone H3-S10 phosphorylation involved in chromosome condensation, plus DNA-templated transcription. These collectively point to a cluster of proteins involved in regulating cell cycle progression and mitosis. Some signaling-related terms (retinoic acid response, angiogenesis, insulin signaling, cocaine response) appear, but they seem secondary to the core theme of cell-cycle control. ","confidence":"Medium","size":13,"edges":25,"triangles":19,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071300","count":4},{"id":"GO:0045766","count":4},{"id":"GO:0000320","count":4},{"id":"GO:2000775","count":4},{"id":"GO:0006351","count":4}]},{"hash":"1210754776559868353","title":"Transcription Regulation and RNA Processing","description":"The top GO terms cluster around transcription control (DNA-templated transcription, negative regulation of transcription by RNA polymerase II) and RNA metabolism/modification (rRNA processing, tRNA methylation, protein methylation), with mitochondrial transcription and related processes. This points to a group of proteins involved in regulating gene expression and RNA maturation, with a few peripheral biosynthetic annotations that are less central to the cluster\u2019s core theme.","confidence":"High","size":13,"edges":63,"triangles":163,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0071899","count":3},{"id":"GO:0009236","count":3},{"id":"GO:0009809","count":3}]},{"hash":"1552467285469996555","title":"Ribosome Biogenesis and RNA Modification","description":"This cluster centers on RNA processing and ribosome assembly, including tRNA pseudouridine synthesis, rRNA pseudouridine synthesis, rRNA methylation, ribosome biogenesis, and translation. While a few terms relate to neural development and cell-cycle signaling, the dominant theme is the machinery and modification of ribosomes and protein synthesis.","confidence":"Medium","size":13,"edges":18,"triangles":6,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0001843","count":2},{"id":"GO:0000455","count":1},{"id":"GO:0031119","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0031167","count":1}]},{"hash":"1349641569281851740","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning skeletal muscle differentiation, immune signaling (B and T cells), plant tropisms (gravitropism/phototropism), chromosome passenger complex localization to the spindle midzone, ubiquitination regulation, and oxidative stress responses. There is no single coherent function or pathway uniting these terms, so a specific label is not discernible beyond Unknown.","confidence":"","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":2},{"id":"GO:0043380","count":1},{"id":"GO:0009958","count":1},{"id":"GO:0045497","count":1},{"id":"GO:0009638","count":1}]},{"hash":"662025854010585267","title":"Ribosome Biogenesis and Translation Initiation","description":"This cluster is dominated by GO terms for ribosome assembly and rRNA maturation (5.8S and LSU) along with translation initiation/ reinitiation, indicating a core function in ribosome production and protein synthesis; the additional development terms appear less central to the main theme.","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042273","count":3},{"id":"GO:0000466","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0001525","count":2}]},{"hash":"712167357048657568","title":"Nuclear chromatin regulation and RNA processing","description":"The cluster centers on nuclear processes involving chromatin assembly/heterochromatin formation and transcription regulation (RNA Pol II transcription and elongation), together with RNA processing activities (tRNA and snoRNA processing) and related RNA decay pathways. This combination points to a cohesive theme of chromatin state control linked to RNA processing and transcription, despite one outlier term related to pollen sperm cell differentiation.","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048235","count":1},{"id":"GO:0008033","count":1},{"id":"GO:0034965","count":1},{"id":"GO:0000294","count":1},{"id":"GO:0030261","count":1}]},{"hash":"751928290281342108","title":"Unknown","description":"The top GO terms span thiol biosynthesis (bacillithiol, mycothiol), RNA methylation, various carbohydrate metabolism and glycosylation/cell-wall biosynthesis (sucrose, amylopectin, alpha-glucan, GPI anchor, ER glycosylation), and stress responses (flooding, water deprivation). They mix bacterial/actinobacterial pathways with fungal/eukaryotic glycosylation and cell-wall processes, with no single cohesive function linking all proteins. ","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071793","count":4},{"id":"GO:0010125","count":4},{"id":"GO:0031167","count":3},{"id":"GO:0005985","count":3},{"id":"GO:0010021","count":3}]},{"hash":"2153578763726719179","title":"DNA damage response and cell cycle/apoptosis control","description":"This cluster\u2019s terms cluster around regulation of DNA damage signaling (p53-mediated), positive regulation of apoptosis, and control of mitotic exit, which together point to cell fate decisions under stress. While a few terms touch on cytoskeletal remodeling and polarity, the dominant theme is cellular stress response affecting division and survival.","confidence":"Medium","size":13,"edges":9,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0043517","count":1},{"id":"GO:0043065","count":1},{"id":"GO:0060244","count":1},{"id":"GO:0007096","count":1},{"id":"GO:0007121","count":1}]},{"hash":"2209201963732568304","title":"Bacterial metal transport and redox metabolism","description":"This cluster's top GO terms are dominated by metal ion transport (iron, copper, arsenate) and redox-related processes (oxidation\u2013reduction, denitrification, reductive iron assimilation), suggesting a primary theme of microbial metal handling and redox metabolism. Additional terms reference bacterial cell division and environmental biodegradation, which aligns with a broad bacterial lifestyle but with the central thread being metal transport and redox chemistry. Overall, the label reflects the strongest signal while acknowledging some peripheral functions.","confidence":"Medium","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":12},{"id":"GO:0030435","count":11},{"id":"GO:0019333","count":11},{"id":"GO:0033215","count":11},{"id":"GO:0034755","count":11}]},{"hash":"487145723521214507","title":"Metabolic transcriptional regulation","description":"The dominant signal is DNA-templated transcription with multiple entries for positive regulation of transcription from RNA polymerase II promoter in response to various nutrient or metabolic cues (nonfermentable carbon source, oleic acid, starvation). Additional terms point to regulation of respiration and several biosynthetic pathways (leucine, proline, pyrimidine). This pattern suggests a cluster of proteins that coordinate transcriptional programs according to metabolic state. Some terms are obsolete but convey the same theme. ","confidence":"High","size":13,"edges":14,"triangles":8,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0061414","count":3},{"id":"GO:2001278","count":3},{"id":"GO:0061429","count":3},{"id":"GO:1904741","count":3}]},{"hash":"2169273558453504219","title":"Polyamine and protein acetylation pathways","description":"The top GO terms converge on acetylation events, including polyamine acetylation (putrescine, spermidine, spermine) and various protein acetylations (N-terminal, peptidyl-lysine), plus a related polyamine catabolic process. Some chromatin-related terms and angiogenesis appear but are less central. Overall, the cluster seems tied to acetylation chemistry affecting polyamines and proteins, suggesting involvement of acetyltransferase\u2013type activities and polyamine metabolism.","confidence":"High","size":13,"edges":42,"triangles":86,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0017198","count":9},{"id":"GO:0032920","count":9},{"id":"GO:0071962","count":9},{"id":"GO:0006348","count":9},{"id":"GO:0032919","count":9}]},{"hash":"1059242187200377892","title":"Regulation of Signaling and Development","description":"The top GO terms center on regulatory roles across diverse biological processes (positive/negative regulation, signaling, development, and immune/cardiac/neuronal contexts). While the specific pathways differ (axon regeneration, erythropoietin signaling, cytokine production, cardiac neural crest development, etc.), the common theme is modulation of signaling and developmental processes rather than a single concrete function, suggesting a cluster of regulatory proteins spanning multiple systems.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":13},{"id":"GO:0007095","count":13},{"id":"GO:0000320","count":13},{"id":"GO:0010954","count":13},{"id":"GO:0038162","count":13}]},{"hash":"586975333349173050","title":"Unknown","description":"The GO terms span cytoskeletal transport (microtubule localization), innate immunity, protein ubiquitination, cell cycle progression, neuronal signaling and development, vitamin D response, and telomere maintenance, with no single dominant function linking them all.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035372","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0033280","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0016567","count":2}]},{"hash":"390911096061909123","title":"Mitochondrial and fungal sterol/lipid biosynthesis","description":"This cluster is dominated by mitochondria-related terms (mitochondrion inheritance; mitochondrial respiratory chain complex IV assembly) and lipid/sterol metabolism terms (ergosterol biosynthetic process regulation; unsaturated fatty acid biosynthesis; glycosphingolipid metabolism via mannosyl-inositol phosphorylceramide). The fungal-specific sterol pathway terms point to a shared mitochondrial-lipid function in a fungal context, while a few annotations (nitrate assimilation; nitric oxide biosynthesis) appear less central and may reflect cross-species annotation. Overall, the proteins likely participate in mitochondrial organization/assembly coupled to lipid and sterol biosynthesis pathways.","confidence":"Medium","size":13,"edges":15,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":2},{"id":"GO:0006675","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0001949","count":2},{"id":"GO:0006809","count":2}]},{"hash":"398804519875335926","title":"Developmental and Hematopoietic Signaling Regulation","description":"The proteins in this cluster are linked to diverse signaling and regulatory processes across development, hematopoiesis, and immune signaling (e.g., axon regeneration, erythropoietin signaling, IL-4 and GM-CSF production, heart development, NFAT pathway regulation, and transcriptional regulation). The common thread is modulation of signaling pathways and transcription during development and blood/immune system contexts, rather than a single, cohesive pathway. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":13},{"id":"GO:0007095","count":13},{"id":"GO:0000320","count":13},{"id":"GO:0010954","count":13},{"id":"GO:0038162","count":13}]},{"hash":"1071625260226329998","title":"Epidermal development and pigmentation","description":"This cluster is dominated by GO terms for skin development and pigmentation, suggesting roles in epidermal differentiation and coloration. Additional terms point to signaling and cellular transport processes that can accompany epidermal maturation, supporting a cohesive theme around skin biology with signaling context. Overall, the proteins seem tied to epidermal development and pigmentation.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0043473","count":2},{"id":"GO:0071902","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0007275","count":2}]},{"hash":"920830605480397156","title":"Unknown","description":"The top GO terms come from neural regeneration, cell cycle regulation, various signaling pathways, immune cytokine production, and heart development, with no clear single function linking all proteins. This dispersion suggests there isn\u2019t a coherent biological theme for the cluster. ","confidence":"","size":13,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":13},{"id":"GO:0007095","count":13},{"id":"GO:0000320","count":13},{"id":"GO:0010954","count":13},{"id":"GO:0038162","count":13}]},{"hash":"145997911754006418","title":"Biosynthesis and Central Metabolism","description":"The top GO terms are dominated by biosynthetic and energy metabolism processes: thiamine biosynthesis, the 1-deoxy-D-xylulose 5-phosphate pathway, pentose-phosphate shunt, terpenoid biosynthesis, and the TCA cycle. This pattern points to a cluster of proteins involved in core metabolism and production of essential metabolites. A few terms (thalamus development, tangential migration, and cellular responses to chloramphenicol/paraquat) appear as unrelated outliers, likely annotation noise from cross-species data, but they do not override the central metabolic theme. Overall, the label Biosynthesis and Central Metabolism best captures the shared function.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009228","count":1},{"id":"GO:0052865","count":1},{"id":"GO:0005999","count":1},{"id":"GO:0006098","count":1},{"id":"GO:0021794","count":1}]},{"hash":"37114771432055394","title":"Endocannabinoid Signaling and Lipid Catabolism","description":"The terms show a cluster around endocannabinoid signaling, with several entries for endocannabinoid signaling pathway and related retrograde signaling, plus lipid catabolic processes such as diacylglycerol and triglyceride catabolism, suggesting a lipid-mediated signaling theme. There are additional terms related to plant-specific processes (aerenchyma formation, camalexin biosynthesis) and neural development, which are less connected to the core endocannabinoid/lipid signals. Overall, the most coherent axis is endocannabinoid signaling intertwined with lipid metabolism, hence the chosen label.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042136","count":3},{"id":"GO:0046340","count":3},{"id":"GO:0030245","count":3},{"id":"GO:0071926","count":2},{"id":"GO:0019433","count":2}]},{"hash":"1107769087610067644","title":"Nuclear chromatin remodeling and transcription","description":"This cluster\u2019s terms cluster around nuclear processes: nucleosome assembly, chromatin remodeling, and snRNA transcription point to regulation of chromatin structure and gene expression. Other terms involving DNA structures (G-quadruplex formation) and telomere-associated regulation further support a chromatin/ transcription-centric theme, with some plant signaling terms acting as contextual regulatory processes. Overall, the common thread is nuclear chromatin dynamics governing transcriptional control.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":1},{"id":"GO:0071919","count":1},{"id":"GO:0009751","count":1},{"id":"GO:0016032","count":1},{"id":"GO:1904850","count":1}]},{"hash":"474706774548849336","title":"Unknown","description":"There are no GO terms or network connections to reveal a shared function among the 13 proteins, so there\u2019s no basis to assign a specific biological label. The cluster lacks identifiable themes, hence Unknown.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2012271021089960427","title":"Fungal sporulation and conidium formation","description":"Dominant GO terms are about sporulation and conidium formation in fungi (including regulation of conidiation and sexual sporulation), suggesting the cluster centers on fungal spore development. Some terms like sterigmatocystin biosynthesis and transcription/translation regulation appear as ancillary associations, but the core theme is clearly fungal sporulation/conidiation.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010914","count":1},{"id":"GO:0030435","count":1},{"id":"GO:0043941","count":1},{"id":"GO:0045461","count":1},{"id":"GO:0048315","count":1}]},{"hash":"450748442093782048","title":"Endomembrane trafficking and Golgi\u2013endosome transport","description":"The GO terms point to intracellular vesicle movement and organelle organization, especially transport between the plasma membrane, endosomes, and Golgi, plus endomembrane system regulation. Although one term about oskar mRNA localization hints a specialized developmental context, the dominant theme is vesicular trafficking and Golgi\u2013endosome coordination, justifying a focused label.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048227","count":1},{"id":"GO:0007183","count":1},{"id":"GO:0048549","count":1},{"id":"GO:0045451","count":1},{"id":"GO:0010256","count":1}]},{"hash":"1096717046139632072","title":"NF-kappaB-driven innate immune signaling","description":"The cluster\u2019s top terms center on innate immunity and regulation of NF-kappaB transcription factor activity, suggesting proteins involved in inflammatory signaling; while some terms reference differentiation processes, the dominant theme is NF-kappaB\u2013mediated immune response.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0010954","count":2},{"id":"GO:0022037","count":1},{"id":"GO:0031496","count":1}]},{"hash":"1698209219739797153","title":"Actin cytoskeleton organization and polarity","description":"The terms cluster around actin dynamics and cell shape (Arp2/3-mediated nucleation, endocytosis, actin cortical patch localization) and establishment of polarity, with a few development/morphogenesis notes. This suggests the proteins share a core function in actin-based cytoskeleton organization and cell polarity, justifying the label, though a few developmental terms are secondary. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071963","count":1},{"id":"GO:0006897","count":1},{"id":"GO:0051666","count":1},{"id":"GO:0051654","count":1},{"id":"GO:0034314","count":1}]},{"hash":"476946250178749769","title":"ER-Golgi vesicle trafficking and mitosis","description":"The top GO terms converge on ER-Golgi vesicle transport (COPII budding, retrograde Golgi-ER transport, transmembrane transport) and core mitotic processes (spindle assembly, mitotic cell cycle, cell division), with growth/development terms suggesting broader developmental roles. This points to a cluster of proteins coordinating vesicle trafficking with mitotic progression and growth, hence the label.","confidence":"Medium","size":12,"edges":30,"triangles":31,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071806","count":7},{"id":"GO:0035264","count":7},{"id":"GO:0008283","count":7},{"id":"GO:0000060","count":7},{"id":"GO:0051301","count":7}]},{"hash":"1150110128259081965","title":"Mitochondrial protein import and nucleotide salvage","description":"The terms cluster around mitochondrial functions: protein targeting to mitochondrion and insertion into the inner membrane, plus nucleotide salvage pathways (CMP/UMP) and pyrimidine metabolism, indicating a mitochondrion-centered module. A few outlier terms (e.g., antibiotic biosynthetic process, transcription initiation) are less representative. ","confidence":"Medium","size":12,"edges":20,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":2},{"id":"GO:0017000","count":1},{"id":"GO:0006352","count":1},{"id":"GO:0008202","count":1},{"id":"GO:0006626","count":1}]},{"hash":"2087441529499598205","title":"Adhesion and migration signaling","description":"Proteins in this cluster are enriched for pathways that control how cells attach to surfaces and to each other (integrin signaling, focal adhesion assembly, cell spreading) and coordinate movement via small GTPases. While some terms reflect broader signaling modules (Wnt, ephrin, TCR), the common theme ties to adhesion-related signaling and cytoskeletal dynamics.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":3},{"id":"GO:0000186","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0048013","count":3},{"id":"GO:0043552","count":3}]},{"hash":"902717200962735842","title":"RNA splicing and translational regulation","description":"This cluster is dominated by GO terms related to RNA processing and translation control: mRNA splicing via the spliceosome, spliceosomal conformational changes, and regulation of translational initiation (including IRES-dependent initiation). While a few terms touch on peroxisome fission and proteasome storage granule assembly, the strongest and most consistent signal is RNA splicing coupled with regulation of protein synthesis.","confidence":"High","size":12,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":1},{"id":"GO:0048140","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0075522","count":1},{"id":"GO:0010950","count":1}]},{"hash":"706636188840142300","title":"Unknown","description":"The listed GO terms span epigenetic modification, signaling regulation, neural and cardiac development, mesoderm and nephron differentiation, immune modulation, wound healing, and synaptic processes, with no connectivity among proteins. There isn\u2019t a single cohesive function that ties these terms together, so a specific, representative cluster label isn\u2019t supported.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097198","count":1},{"id":"GO:0070373","count":1},{"id":"GO:0043524","count":1},{"id":"GO:0061051","count":1},{"id":"GO:0048368","count":1}]},{"hash":"171591540845080041","title":"Vitamin and small-molecule metabolism","description":"The cluster\u2019s top GO terms center on processing of vitamins and small metabolites (retinol, retinoids, L-ascorbic acid) and carbohydrate-related metabolism (fructose, bile acids). A regulatory signaling term (PI3K/AKT) and physiological processes like urine volume regulation tie into metabolic control, suggesting a coherent theme around nutrient metabolism with related signaling. Some terms (e.g., maternal pregnancy) seem ancillary noise but do not outweigh the metabolic pattern.","confidence":"Medium","size":12,"edges":36,"triangles":84,"max_degree":8,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0046370","count":9},{"id":"GO:0042572","count":9},{"id":"GO:0055114","count":9},{"id":"GO:0051897","count":6},{"id":"GO:0030573","count":6}]},{"hash":"1126365602213701987","title":"Unknown","description":"The Top Terms span diverse, largely unrelated processes across plant, animal, and immune systems (muscle development, brassinosteroid signaling, meiosis checkpoint, DNA replication, translation, circadian regulation, flower development, B cell receptor signaling). With no connectivity (Edges 0), there is no coherent shared function to label the cluster.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":2},{"id":"GO:0009742","count":2},{"id":"GO:0072462","count":2},{"id":"GO:1902660","count":2},{"id":"GO:2001034","count":2}]},{"hash":"1433752424888072048","title":"Plant light signaling and antiviral defense","description":"The top GO terms show blue and red light responses, regulation of photomorphogenesis, and ethylene signaling, all characteristic of plant light signaling. Several terms also indicate defense against viruses, aligning with plant antiviral responses; transcription-related terms and miRNA processing provide general cellular context but do not override the light- and defense-focused theme. Despite one outlier term (interferon-beta production), the dominant signal is plant photomorphogenesis coupled with antiviral defense.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032728","count":2},{"id":"GO:0035196","count":1},{"id":"GO:0010099","count":1},{"id":"GO:0009873","count":1},{"id":"GO:0009637","count":1}]},{"hash":"28038169389426999","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0015074","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0075713","count":1}]},{"hash":"711356618104973439","title":"Plant energy metabolism and aging","description":"The cluster\u2019s terms center on energy production and pigment/metabolite biosynthesis (aerobic respiration, ubiquinone and chlorophyll-related pathways, vitamin E), alongside cellular aging/senescence and stress-related responses, with additional protein modification terms (methylation). This combination points to a plant-focused metabolic and aging-related module rather than a single specific process.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001300","count":1},{"id":"GO:0031167","count":1},{"id":"GO:0090398","count":1},{"id":"GO:0006972","count":1},{"id":"GO:0036068","count":1}]},{"hash":"1586622107918184348","title":"Calcium- and metal-ion transport with synaptic signaling","description":"These proteins are enriched for calcium and other metal ion transport across membranes, mitochondrial calcium homeostasis, and related signaling processes like synaptic depression and regulation of muscle contraction. The common theme is ion transport and calcium signaling that influence neuronal communication and muscle function.","confidence":"Medium","size":12,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006828","count":4},{"id":"GO:0098703","count":4},{"id":"GO:0097369","count":3},{"id":"GO:0006851","count":3},{"id":"GO:0060292","count":3}]},{"hash":"1654714383107382681","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":12,"triangles":2,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0010610","count":2},{"id":"GO:0000398","count":1},{"id":"GO:0022013","count":1},{"id":"GO:0098908","count":1},{"id":"GO:0070935","count":1}]},{"hash":"2033477738846585","title":"Unknown","description":"The top GO terms span very different biological areas\u2014immune signaling (B cell receptor signaling), mitosis (chromosome passenger complex localization to spindle midzone), ubiquitination regulation (negative regulation and K33-linked), neuronal signaling (kainate receptor activity), protein oligomerization, tRNA modification (wybutosine biosynthesis), renal physiology (sodium absorption and distal tubule morphogenesis), and viral latency. There isn\u2019t a unifying theme or shared process connecting these terms, so a coherent single-label name isn\u2019t supported by the data.","confidence":"","size":12,"edges":18,"triangles":9,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":7},{"id":"GO:0035853","count":7},{"id":"GO:0031397","count":7},{"id":"GO:2000312","count":7},{"id":"GO:0051260","count":7}]},{"hash":"642026164841276867","title":"Epigenetic chromatin remodeling and histone modification","description":"The top GO terms strongly emphasize chromatin remodeling and histone modification (including transcription initiation-coupled remodeling, H3-K36 dimethylation, and heterochromatin regulation). Though there are several development and differentiation terms, the dominant signal points to epigenetic regulation of transcription via chromatin state.","confidence":"High","size":12,"edges":22,"triangles":15,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0045815","count":11},{"id":"GO:0022037","count":8},{"id":"GO:0031496","count":8},{"id":"GO:0002574","count":8},{"id":"GO:0010742","count":8}]},{"hash":"950911265998071784","title":"Lipid Hormone Biosynthesis and Detoxification","description":"These proteins show enrichment for lipid-derived hormone biosynthesis (oxylipin, brassinosteroid, calcitriol) and detoxification/metabolic processes (insecticide metabolism, copper ion response, methylation, organofluorine metabolism). The common theme appears to be synthesis of lipid-based signals together with xenobiotic processing and regulatory modifications, suggesting a role in both signaling and detox metabolism. ","confidence":"Medium","size":12,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031408","count":9},{"id":"GO:0017143","count":9},{"id":"GO:0010268","count":9},{"id":"GO:0071280","count":9},{"id":"GO:0060137","count":9}]},{"hash":"328347327933377139","title":"Unknown","description":"The GO terms are very diverse, spanning skeletal and retina development, fertilization, defense responses, ribosomal RNA processing, ubiquitin-mediated proteolysis, actin nucleation, and protein oligomerization, with no single coherent function linking them. A concise, representative label cannot be confidently assigned.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0000466","count":1},{"id":"GO:2000060","count":1},{"id":"GO:0071406","count":1}]},{"hash":"2060306513315794554","title":"Innate Immune Regulation and Ubiquitination","description":"The terms highlight innate immune activity (innate immune response, negative regulation of neutrophil activation) and protein ubiquitination (K48-linked ubiquitination, autoubiquitination), suggesting a module where immune signaling is controlled by ubiquitin-mediated protein turnover. Some unrelated terms like peroxisome import and microtubule localization are present but don\u2019t override the core theme.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":7},{"id":"GO:0042220","count":4},{"id":"GO:0035372","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0045087","count":3}]},{"hash":"530424169097076001","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":11,"triangles":0,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001081","count":3},{"id":"GO:1902138","count":3},{"id":"GO:1902125","count":3},{"id":"GO:1902135","count":3},{"id":"GO:0009244","count":3}]},{"hash":"1167240275430604919","title":"DNA replication and repair proteins","description":"The top GO terms point strongly to DNA replication and maintenance: proofreading, leading and lagging strand elongation, RNA-templated DNA biosynthesis, UV-damage repair, and gene conversion. While a few terms are peripheral or obsolete, the dominant theme is genome replication and repair, making \"DNA replication and repair proteins\" a concise, representative label.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016539","count":1},{"id":"GO:1904161","count":1},{"id":"GO:0045004","count":1},{"id":"GO:0035822","count":1},{"id":"GO:0006278","count":1}]},{"hash":"1945522020898071091","title":"Ribosome Biogenesis and Translation Preparation","description":"The cluster is dominated by GO terms related to ribosome biogenesis, ribosomal subunit export, and tRNA modification, indicating a core role in assembling ribosomes and prepping components for translation. Additional terms on ribosome biogenesis and cell division/septum assembly support a growth-related, biosynthetic program, with a single outlier term (brain-derived neurotrophic factor stimulus) likely representing noise rather than a coherent theme.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990416","count":2},{"id":"GO:1901001","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0006400","count":2},{"id":"GO:0000747","count":2}]},{"hash":"1212082343709924322","title":"Translation Initiation & Cell Cycle Regulation","description":"Most terms point to translation initiation machinery, including formation of cytoplasmic translation initiation complex and eIF2 complex assembly, along with regulation of the cell cycle and cell division. There is also a related ER-Golgi transport term, suggesting a broader coordination of protein processing with cell cycle-related translation control. This combination supports labeling the cluster as Translation Initiation & Cell Cycle Regulation.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902083","count":1},{"id":"GO:0071447","count":1},{"id":"GO:1903204","count":1},{"id":"GO:0007050","count":1},{"id":"GO:0051301","count":1}]},{"hash":"1266520209786142041","title":"GPI-anchored Protein Maturation and ER Targeting","description":"The top GO terms cluster around GPI anchor biosynthesis and attachment (GO:0006506, GO:0016255) and SRP-dependent cotranslational targeting to the membrane (GO:0006616), pointing to proteins involved in the secretory pathway and membrane anchoring of proteins via GPI anchors. The additional terms for fungal-type cell wall organization and mechanosensory detection are less central but may reflect species-specific annotations; overall, the pattern supports a membrane-targeting/maturation theme for these proteins.","confidence":"Medium","size":12,"edges":14,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006616","count":1},{"id":"GO:0031505","count":1},{"id":"GO:0016255","count":1},{"id":"GO:0050976","count":1},{"id":"GO:0046425","count":1}]},{"hash":"1163412092045567879","title":"Unknown","description":"The top GO terms span axon regeneration, mitotic checkpoint and cell cycle re-entry, various cytokine signaling pathways (erythropoietin, IL-4, GM-CSF), transcription regulation, and neural/heart development, indicating a broad, non-specific mix rather than a single shared function. This makes it hard to assign a cohesive, concise label representing the cluster\u2019s biology. ","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":12},{"id":"GO:0007095","count":12},{"id":"GO:0000320","count":12},{"id":"GO:0010954","count":12},{"id":"GO:0038162","count":12}]},{"hash":"1972588000950879868","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0039657","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0019076","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0015074","count":1}]},{"hash":"1307218963382701902","title":"Centromere/kinetochore assembly during mitosis","description":"The proteins show a cohesive pattern around centromere and kinetochore biology: multiple GO terms describe CENP-A\u2013containing chromatin assembly, kinetochore assembly/localization to the centromere, and regulation of mitotic progression (G2/M). This points to a functional cluster in centromere/kinetochore maintenance and mitosis, with ubiquitination-related processes as a supporting mechanism. A single outlier term (eye-antennal disc development) is likely non-recore to this theme. ","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000059","count":2},{"id":"GO:0071459","count":1},{"id":"GO:1903099","count":1},{"id":"GO:0051382","count":1},{"id":"GO:0034080","count":1}]},{"hash":"659058917771798429","title":"Ribosome Biogenesis and Translation with Iron-Sulfur Cluster","description":"The cluster is dominated by translation-related terms (cytoplasmic and mitochondrial translation) and ribosome biogenesis/large-subunit preribosome assembly, along with iron-sulfur cluster assembly/maturation. This combination strongly suggests a group of proteins involved in ribosome production and translation that require iron-sulfur cluster maturation, with some mitochondrial components. Minor terms related to nerve growth factor response and neuromuscular processes appear incidental to the core translational theme.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0032543","count":2},{"id":"GO:0016226","count":1},{"id":"GO:0097428","count":1},{"id":"GO:1990090","count":1}]},{"hash":"202314274096742432","title":"Unknown","description":"The top GO terms span immune signaling, plant tropisms, development, cell division, ubiquitination, and renal ion transport, with no clear shared function or pathway tying them together. This heterogeneity suggests no coherent cluster theme can be assigned from the available terms.","confidence":"","size":12,"edges":11,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":1},{"id":"GO:0009958","count":1},{"id":"GO:0045497","count":1},{"id":"GO:0009638","count":1},{"id":"GO:0050853","count":1}]},{"hash":"808082836881536132","title":"RNA Pol II Transcription Regulation","description":"These proteins consistently map to RNA polymerase II\u2013related transcription processes, including initiation, promoter selection/clearance, elongation, and mRNA capping, with some annotation to snRNA transcription and overall gene expression regulation. The absence of edges suggests individual components or regulators rather than a tightly interconnected complex, but the GO terms point strongly to Pol II transcription regulation as the central theme. ","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060261","count":1},{"id":"GO:0001174","count":1},{"id":"GO:0006370","count":1},{"id":"GO:0032968","count":1},{"id":"GO:0006367","count":1}]},{"hash":"1542503764860403412","title":"Lipid Metabolism and Fatty Acid Biosynthesis","description":"The top terms converge on fatty acid handling\u2014import, long-chain fatty acid metabolism, and fatty acid biosynthesis\u2014as well as related lipid pathways (carnitine and bile acid metabolism) and a lipid-rich biosynthetic process (lipoteichoic acid). While plant-specific terms like seed germination and seed coat development appear, the dominant theme is lipid metabolism and lipid biosynthesis across organisms, justifying a cohesive label focused on lipids. ","confidence":"Medium","size":12,"edges":23,"triangles":17,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:1902987","count":8},{"id":"GO:0044539","count":8},{"id":"GO:0070395","count":8},{"id":"GO:0043041","count":8},{"id":"GO:0009437","count":8}]},{"hash":"2272153511868016122","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning skin and flower development, plant brassinosteroid signaling, B cell signaling and germinal center formation, circadian regulation, and DNA repair. With no cohesive common function or pathway across the majority of terms and no edges linking proteins, there isn\u2019t a clear shared theme to name a specific cluster function.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":1},{"id":"GO:0051452","count":1},{"id":"GO:0031552","count":1},{"id":"GO:0042752","count":1},{"id":"GO:0009911","count":1}]},{"hash":"828861943127516311","title":"Chromatin Modification and Transcription","description":"The cluster is dominated by histone modification terms (peptidyl-lysine monomethylation; H3-K4 trimethylation; H4-K16 acetylation) and DNA-templated transcription, suggesting a core role in regulating chromatin state and gene expression. Additional terms for rRNA methylation and cellular senescence indicate broader RNA processing and aging-related connections, but the strongest signal centers on chromatin modification and transcription control. Some terms (aging, chlorophyll biosynthesis, vitamin E biosynthesis) may reflect annotation noise or cross-links in this mixed protein set.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018026","count":2},{"id":"GO:0080182","count":2},{"id":"GO:0043984","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0001300","count":1}]},{"hash":"365238400925706936","title":"Mitotic spindle assembly","description":"The GO terms cluster around mitotic spindle organization, kinetochore\u2013microtubule attachment, chromatid biorientation, and microtubule polymerization, all core to spindle assembly and chromosome alignment during mitosis. This makes \"Mitotic spindle assembly\" a precise, representative label.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030472","count":1},{"id":"GO:0051987","count":1},{"id":"GO:1990758","count":1},{"id":"GO:0031116","count":1}]},{"hash":"383969467436966670","title":"Unknown","description":"The Top Terms include immune-related processes (regulation of memory T cell differentiation; B cell receptor signaling), protein ubiquitination regulation, and developmental/physiological processes from plants (gravitropism, phototropism) to kidney function (renal sodium ion absorption, distal tubule morphogenesis). With 12 proteins and no edges or triangles, there is no detectable shared pathway or coherent functional theme binding these annotations. Because the terms span disparate biological contexts, I cannot assign a single, representative function to this cluster.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":4},{"id":"GO:0009958","count":4},{"id":"GO:0045497","count":4},{"id":"GO:0009638","count":4},{"id":"GO:0050853","count":4}]},{"hash":"2043949153330099510","title":"G2/M transition and chromosome segregation","description":"This cluster is dominated by GO terms related to the mitotic cell cycle, especially G2/M transition, mitotic progression, and chromosome segregation, with additional signals of meiosis-specific cohesion. These collectively point to proteins involved in driving cells through mitosis and ensuring accurate chromosome separation, even though one or two terms (like mRNA stabilization) are peripheral. The overall theme is cell division machinery.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":1},{"id":"GO:0045792","count":1},{"id":"GO:0048255","count":1},{"id":"GO:0032515","count":1},{"id":"GO:1905287","count":1}]},{"hash":"1327197989317154191","title":"Developmental morphogenesis and transcriptional regulation","description":"The top GO terms point to multiple developmental and morphogenesis processes across tissues (muscle differentiation, otic vesicle and heart septum morphogenesis, lacrimal gland development, digestive tract morphogenesis). There are also terms relating to transcriptional control (RNA Pol II/III regulation) and apoptosis. Together, these terms suggest a cluster of proteins involved in broad developmental regulation and maintenance of tissue homeostasis rather than a single specific function.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":2},{"id":"GO:0071866","count":1},{"id":"GO:0048557","count":1},{"id":"GO:0060784","count":1},{"id":"GO:0030916","count":1}]},{"hash":"2224521922025942052","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070816","count":1},{"id":"GO:0006295","count":1},{"id":"GO:0006370","count":1},{"id":"GO:0006296","count":1},{"id":"GO:0006294","count":1}]},{"hash":"898937218309770475","title":"Unknown","description":"The GO terms are scattered across immune signaling, plant tropisms, kidney development, and ubiquitination regulation, with little overlap and no connections among proteins. This lack of a coherent functional theme suggests there is no specific, shared cluster function to name beyond Unknown. ","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":1},{"id":"GO:0009958","count":1},{"id":"GO:0045497","count":1},{"id":"GO:0009638","count":1},{"id":"GO:0050853","count":1}]},{"hash":"572874803611830615","title":"Unknown","description":"This cluster has no top GO terms and no network connections (Edges: 0, Triangles: 0, Max Degree: 0), with only a single re-added protein from ReCIPE; without functional annotations, a coherent, specific label cannot be determined.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1308086072106590978","title":"Telomere maintenance and DNA repair regulation","description":"This cluster is dominated by telomere- and subtelomere-associated terms: telomere maintenance via lengthening, protection from NHEJ at telomeres, subtelomeric heterochromatin formation, G-quadruplex DNA formation, and regulation of double-strand break repair via homologous recombination. Together, these terms point to a cohesive role in telomere chromatin state and genome stability, with additional hints of chromatin modification (acetylation) affecting telomere function.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048239","count":1},{"id":"GO:0071919","count":1},{"id":"GO:0031936","count":1},{"id":"GO:0035390","count":1},{"id":"GO:0031848","count":1}]},{"hash":"2258022824227149362","title":"Unknown","description":"There are no shared GO terms or interactions among the 12 proteins; the Top Terms list is empty and the network has no edges, so a common functional theme cannot be inferred. Therefore the cluster is unknown.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"255592530636388272","title":"Golgi\u2013ER vesicle trafficking and Golgi organization","description":"The top GO terms cluster around vesicle transport between the Golgi and the ER (retrograde and ER-to-Golgi), and Golgi organization, pointing to a core function in Golgi trafficking and organelle biogenesis. Additional terms like the Cvt pathway and ribosome biogenesis suggest related but broader cellular processes; overall, the dominant signal is Golgi trafficking, warranting a name focused on Golgi\u2013ER transport and organization.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006890","count":5},{"id":"GO:0032258","count":5},{"id":"GO:0007030","count":4},{"id":"GO:0035264","count":3},{"id":"GO:0008283","count":3}]},{"hash":"2299058264744326226","title":"Hematopoietic Differentiation and Cell Cycle Signaling","description":"The top GO terms point to hematopoietic processes (myeloid progenitor differentiation; erythropoietin-mediated signaling) alongside transcriptional regulation (DNA-templated transcription) and cell cycle control (G2 DNA damage checkpoint, re-entry into mitosis). While some terms are more general or peripheral (vascular development, axon regeneration), the cluster is most coherently tied to blood cell lineage specification and the proliferative signaling that accompanies it. Obsolete terms are ignored in the interpretation.","confidence":"Medium","size":11,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0002318","count":6},{"id":"GO:0019858","count":6},{"id":"GO:0051092","count":6},{"id":"GO:0060716","count":6}]},{"hash":"2169035493660786152","title":"Unknown","description":"The top GO terms span diverse, unrelated biological domains (immune signaling, plant tropisms, insect development, kidney function) with no single cohesive process or function linking the proteins. This lack of a shared functional theme makes a specific label inappropriate.","confidence":"","size":11,"edges":21,"triangles":11,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":1},{"id":"GO:0009958","count":1},{"id":"GO:0045497","count":1},{"id":"GO:0009638","count":1},{"id":"GO:0050853","count":1}]},{"hash":"1819228537557291959","title":"Differentiation Signaling and ER Protein Quality Control","description":"Based on the top GO terms, these proteins cluster around cell differentiation programs across multiple lineages (neuron, lung epithelium, keratinocytes) and signaling influences (NFAT via calcineurin, TGF-beta receptor signaling). Cocloping with this are terms tied to protein homeostasis in the secretory pathway (protein ubiquitination, deglycosylation, ERAD, unfolded protein response). This suggests a theme of differentiation-related signaling integrated with ER-associated protein quality control.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030182","count":3},{"id":"GO:0060487","count":3},{"id":"GO:0051533","count":3},{"id":"GO:0030512","count":2},{"id":"GO:0051865","count":2}]},{"hash":"912474063048948257","title":"Immune Receptor Signaling and NF-kB Pathways","description":"The GO terms point to signaling through multiple immune receptors (T cell receptor, B cell receptor, C-type lectin receptors) and downstream NF-kB pathways (canonical and non-canonical, including TNF-mediated signaling). While there are mentions of proteasome assembly and Wnt regulation, the dominant theme is immune receptor\u2013mediated signaling and NF-kB\u2013driven responses, making this a cohesive immune signaling cluster.","confidence":"High","size":11,"edges":10,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0038061","count":1},{"id":"GO:0033209","count":1}]},{"hash":"1081336151304778252","title":"Proteostasis and Protein Degradation","description":"The GO terms cluster around misfolded protein response, ubiquitin-dependent ERAD, and proteasomal/overall protein catabolic processes, highlighting a theme of protein quality control and turnover under stress. Additional terms touch trafficking and inclusion body-related processes, but the dominant signal is maintaining protein homeostasis through recognition, targeting, and degradation of aberrant proteins.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071218","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0032979","count":1},{"id":"GO:0048219","count":1},{"id":"GO:1901800","count":1}]},{"hash":"2134879281297528574","title":"DNA replication and mitotic checkpoint signaling","description":"This cluster is dominated by DNA replication and mitotic cell cycle terms (DNA replication; mitotic G2 DNA damage checkpoint signaling; re-entry into mitotic cell cycle), suggesting a group of proteins that coordinate DNA synthesis with mitotic progression, with additional regulatory signaling terms.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0007095","count":5},{"id":"GO:0000320","count":5},{"id":"GO:0000435","count":5},{"id":"GO:0061308","count":5}]},{"hash":"663251661295190018","title":"Developmental Cell-Cycle Regulation","description":"The cluster features strong representation of DNA replication and mitotic control (DNA replication; mitotic G2 DNA damage checkpoint signaling; re-entry into mitotic cell cycle) together with a developmental context (embryonic cranial skeleton morphogenesis). Additional terms point to hematopoietic/immune signaling (erythropoietin-mediated signaling; interleukin-4 and GM-CSF production), suggesting a theme of coordinated cell proliferation and differentiation signaling during development. Overall, the terms cohere around developmental cell-cycle regulation with related signaling pathways.","confidence":"High","size":11,"edges":18,"triangles":9,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048701","count":11},{"id":"GO:0006260","count":11},{"id":"GO:0048680","count":9},{"id":"GO:0007095","count":9},{"id":"GO:0000320","count":9}]},{"hash":"1073119098443385791","title":"Dopaminergic neural metabolism and development","description":"The top GO terms center on dopamine metabolism and CNS neuron development, plus grooming behavior, suggesting a neural function tied to dopaminergic signaling. The presence of nucleotide and nucleoside salvage and metabolism terms (hypoxanthine/xanthine/xMP/uracil salvage, nucleoside metabolic processes) alongside DNA-templated transcription hints at neuron-specific metabolic and transcriptional activity during development. Overall, this cluster appears to reflect neural development with dopaminergic metabolism and associated nucleotide turnover.","confidence":"Medium","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006541","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0043103","count":3},{"id":"GO:0032265","count":3},{"id":"GO:0021954","count":3}]},{"hash":"1991160173304924213","title":"Translational initiation and mRNA splicing regulation","description":"Enriched for translation initiation and reinitiation processes (translation reinitiation, preinitiation complex formation, IRES-dependent initiation, regulation of translational initiation) with supporting hints of mRNA splicing via spliceosome-related terms (splice site recognition; splicing regulation). This points to a function in controlling gene expression at both translation and RNA processing.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0075522","count":4},{"id":"GO:0075525","count":4},{"id":"GO:0006446","count":4}]},{"hash":"2256611543493710390","title":"Apoptosis and immune cell development","description":"The top GO terms point to programmed cell death and apoptotic signaling (nurse cell apoptotic process, germ cell death, cytochrome c\u2013related activation) alongside immune-related processes (negative regulation of neutrophil activation, hemocyte development). Additional terms reflect stress and tissue repair (response to glucocorticoid, wound healing). Together these suggest a cluster centered on apoptosis coupled with immune development and stress responses, rather than a single specialized function. ","confidence":"Medium","size":11,"edges":23,"triangles":16,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":1},{"id":"GO:0045476","count":1},{"id":"GO:2001269","count":1},{"id":"GO:0035234","count":1},{"id":"GO:0008635","count":1}]},{"hash":"1896015468981457271","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":10,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":2},{"id":"GO:0015074","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0075713","count":1}]},{"hash":"1848956173226236980","title":"Peroxisomal protein import and ubiquitination","description":"The strongest signals are terms for importing proteins into the peroxisome matrix (and receptor recycling) and for ubiquitination at K27 and K6, pointing to a functional module centered on peroxisomal import regulated by ubiquitin signaling. Other terms related to DNA repair and meiosis appear less central and may reflect broader ubiquitin-related roles or annotation overlap. Confidence: High","confidence":"","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0042275","count":11},{"id":"GO:0043524","count":11},{"id":"GO:0044314","count":11},{"id":"GO:0016558","count":11},{"id":"GO:0031505","count":11}]},{"hash":"815034736611988045","title":"Neuronal proteostasis and ubiquitin signaling","description":"The top GO terms point to protein quality control in neurons, including ubiquitin-dependent proteasomal degradation (K48 and K11 linkages), aggresome assembly, and the unfolded protein response, along with neuronal maturation and homeostasis. This suggests the cluster comprises proteins coordinating proteostasis and stress responses in neurons, including regulation of oxidative stress. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032436","count":3},{"id":"GO:0006986","count":2},{"id":"GO:0070936","count":2},{"id":"GO:0042551","count":2},{"id":"GO:0070842","count":2}]},{"hash":"880894025458871684","title":"Carnitine-dependent fatty acid oxidation","description":"This cluster is driven by GO terms for carnitine biosynthesis/metabolism and fatty acid beta-oxidation (including acyl-CoA dehydrogenase), pointing to lipid-energy metabolism relying on the carnitine shuttle. Leucine catabolism also feeds into energy production, with liver/heart development terms likely reflecting tissue contexts where such metabolism is prominent; overall, the core theme is fatty acid oxidation via carnitine-dependent pathways.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045329","count":2},{"id":"GO:0090305","count":2},{"id":"GO:0018896","count":1},{"id":"GO:0001889","count":1},{"id":"GO:1904070","count":1}]},{"hash":"2179671130000327067","title":"Innate Antiviral Interferon Response","description":"The enriched GO terms cluster around antiviral innate immunity, including responses to dsRNA, type I interferon signaling, and ubiquitin-mediated regulation of antiviral pathways, with additional links to unfolded protein response. A couple of unrelated terms (cell division, prostate gland development) likely reflect annotation noise. Overall, the cluster appears to represent antiviral innate immunity and interferon signaling.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0050689","count":7},{"id":"GO:0071360","count":7},{"id":"GO:0071357","count":7}]},{"hash":"726364538021374465","title":"Cell cycle, ubiquitin-mediated degradation, and innate immunity","description":"The cluster features strong signals for cell cycle control (G2/M transition, mitotic cell cycle) and ubiquitin-dependent protein catabolic process, suggesting coordinated regulation of division and protein turnover. Additional GO terms point to innate immune signaling (innate immune response, negative regulation of neutrophil activation) and stress-related processes (response to cadmium, viral process), plus nuclear maintenance. While diverse, the core themes connect cell cycle/ proteostasis with immune signaling, justifying this combined label.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":4},{"id":"GO:0007275","count":2},{"id":"GO:0000086","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0045087","count":2}]},{"hash":"2211241615135870989","title":"Ubiquitin-regulated proteostasis and stress signaling","description":"The top terms cluster around ubiquitin-mediated protein turnover (polyubiquitination, SCF-dependent proteasomal degradation), regulation of cell cycle and DNA damage checkpoint signaling, and circadian rhythm control, with additional annotations for metal-induced stress responses (cadmium, methylmercury) and neuronal stress pathways including synapse assembly. This suggests a cohesive theme of proteostasis intersecting with stress signaling, hence a label focused on ubiquitin-regulated proteostasis and stress signaling.","confidence":"Medium","size":11,"edges":35,"triangles":48,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":2},{"id":"GO:0030174","count":2},{"id":"GO:0042752","count":2},{"id":"GO:0031146","count":2},{"id":"GO:1903378","count":2}]},{"hash":"1441405049325622389","title":"Immune Cytokine Signaling and Hematopoiesis","description":"The Top Terms point mainly to regulation of immune signaling and cytokine production (negative regulation of neutrophil activation; IL-4 production; GM-CSF production) and hematopoietic pathways (erythropoietin signaling). Additional terms touch on broader regulatory processes like transcription and protein processing, and a few developmental signals, suggesting a cluster of proteins involved in signaling regulation with immune/hematopoietic emphasis rather than a single tightly focused pathway.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":11},{"id":"GO:0048680","count":2},{"id":"GO:0007095","count":2},{"id":"GO:0000320","count":2},{"id":"GO:0010954","count":2}]},{"hash":"99297429582111745","title":"Immune and neural development signaling","description":"The top GO terms cluster around immune signaling (interleukin-4 and GM-CSF production), erythropoietin-mediated signaling, and neural/developmental processes (axon regeneration, cardiac neural crest development), with additional terms touching on NFAT signaling and cell-cycle regulation. This suggests a broad, multi-system signaling group rather than a single cohesive pathway, so the label emphasizes the most represented themes without overstating specificity.","confidence":"Medium","size":11,"edges":4,"triangles":0,"max_degree":4,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":10},{"id":"GO:0007095","count":10},{"id":"GO:0000320","count":10},{"id":"GO:0010954","count":10},{"id":"GO:0038162","count":10}]},{"hash":"256990928325069647","title":"Innate Immunity and Proteostasis","description":"The top GO terms point to innate immune processes (innate immune response, dsRNA response, negative regulation of neutrophil activation) alongside proteostasis features (proteasome assembly, unfolded protein response, endopeptidase activity), suggesting a theme of immune signaling linked to protein quality control.","confidence":"Medium","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":10},{"id":"GO:0010950","count":2},{"id":"GO:0043248","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0045087","count":2}]},{"hash":"2222365272433841886","title":"Ubiquitination-driven proteostasis and cell cycle regulation","description":"The cluster shows strong enrichment for ubiquitin-related processes (positive regulation of polyubiquitination; SCF-dependent proteasomal ubiquitin-dependent protein catabolic process) and cell-cycle control signals (regulation of DNA-templated DNA replication initiation; mitotic G1 DNA damage checkpoint signaling). Additional terms point to circadian rhythm regulation and various stress responses (metal ions, oxidative stress in neurons) as well as neuronal development (synapse assembly), suggesting a core module where protein turnover and cell-cycle/DNA damage regulation interface with broader stress-response pathways. This makes the ubiquitination-proteostasis and cell-cycle regulation theme the most representative shared function.","confidence":"Medium","size":11,"edges":35,"triangles":48,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:1902916","count":2},{"id":"GO:0030174","count":2},{"id":"GO:0042752","count":2},{"id":"GO:0031146","count":2},{"id":"GO:1903378","count":2}]},{"hash":"951025618911450481","title":"Unknown","description":"The GO terms are very diverse (metabolic transport, axon/regeneration, cell cycle checkpoints, signaling, immune cytokine production, development). There is no single cohesive function that ties these proteins together, so a meaningful descriptive label cannot be assigned with confidence. ","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035432","count":1},{"id":"GO:0048680","count":1},{"id":"GO:0007095","count":1},{"id":"GO:0000320","count":1},{"id":"GO:0010954","count":1}]},{"hash":"946227554674534602","title":"Embryonic Organogenesis and Cell Migration","description":"The cluster\u2019s GO terms converge on embryonic development, morphogenesis, and tissue organization, with multiple terms for gastrulation, convergent extension, organogenesis, and various tissue-specific development (pancreas, prostate, cartilage). This suggests proteins collectively involved in embryogenesis and cell movement during organ formation, rather than a single pathway. Confidence: Medium","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030308","count":1},{"id":"GO:0042074","count":1},{"id":"GO:0060029","count":1},{"id":"GO:0014812","count":1},{"id":"GO:0006355","count":1}]},{"hash":"747185545403714963","title":"Nucleosome Assembly and Chromatin Remodeling","description":"Top terms point to chromatin organization and transcription regulation (nucleosome assembly, chromatin remodeling, snRNA transcription), with some signal-responsive terminology (ethylene, salicylic acid) that may reflect regulation of gene expression. The core theme appears to be chromatin dynamics influencing transcription, rather than a single metabolic or signaling pathway. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":1},{"id":"GO:0071919","count":1},{"id":"GO:0009751","count":1},{"id":"GO:0016032","count":1},{"id":"GO:1904850","count":1}]},{"hash":"1142626516348489978","title":"Regulation of transcription, cell fate, and immune signaling","description":"The GO terms point to broad regulatory roles rather than a single pathway: negative regulation of transcription by RNA polymerase II, control of apoptotic and necroptotic processes, regulation of the cell cycle, ubiquitination, and regulation of Toll-like receptor signaling. Together they suggest proteins that modulate gene expression, cell survival/death decisions, and innate immune signaling, constituting a general regulatory cluster rather than a tightly linked, specific process. Confidence: Medium","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":1},{"id":"GO:0043066","count":1},{"id":"GO:0060544","count":1},{"id":"GO:0071157","count":1},{"id":"GO:0000209","count":1}]},{"hash":"1507795345105108645","title":"Cytokine and RTK signaling guiding axon growth","description":"The cluster combines cytokine-related processes (interleukin-4 production, GM-CSF production, erythropoietin signaling) with receptor tyrosine kinase pathways (KIT signaling, collagen-activated TK receptor signaling, STAT phosphorylation), alongside neuronal growth cues (positive regulation of axon regeneration, retinal ganglion cell axon guidance) and focal adhesion regulation. This points to a cohesive theme where cytokine signaling and RTK pathways converge to regulate axon growth and guidance, with adhesion dynamics involved.","confidence":"High","size":11,"edges":14,"triangles":5,"max_degree":6,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":11},{"id":"GO:0010954","count":11},{"id":"GO:0038162","count":11},{"id":"GO:0032633","count":11},{"id":"GO:0045425","count":11}]},{"hash":"2160977726876231646","title":"Unknown","description":"The GO terms are highly diverse (axon regeneration, mitotic checkpoints, cytokine production, erythropoietin signaling, immune signaling, and cardiac neural crest development), with no clear shared function across the proteins. This heterogeneity suggests there isn't a single coherent theme to label, so Unknown is appropriate.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":8},{"id":"GO:0007095","count":8},{"id":"GO:0000320","count":8},{"id":"GO:0010954","count":8},{"id":"GO:0038162","count":8}]},{"hash":"299402394438829311","title":"Telomere maintenance and DNA replication","description":"Explanation: The strongest signals are telomere-related processes (telomere capping, telomere maintenance via lengthening, establishment of protein localization to telomere) and genome stability activities (DNA replication, DNA recombination, mitotic cell cycle checkpoint signaling), suggesting a cluster centered on telomere maintenance during replication and cell division. The tRNA aminoacylation terms appear ancillary.","confidence":"High","size":11,"edges":14,"triangles":4,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0072581","count":5},{"id":"GO:0006422","count":5},{"id":"GO:0016233","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0006310","count":5}]},{"hash":"118117288912679422","title":"Unknown","description":"There are no GO terms listed for this cluster, and the graph has zero edges and triangles, so there is no shared functional signal to determine a meaningful label for the 11 proteins.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1221968803547665187","title":"Retinoic acid signaling in brain development","description":"The cluster centers on retinoic acid pathways (retinoic acid receptor signaling and cellular response to retinoic acid) and forebrain-related development terms (forebrain development, nucleus accumbens development), suggesting proteins involved in neural patterning and brain maturation. While some terms are more general developmental or metabolic (e.g., endothelial proliferation, bilateral symmetry, GABA shunt), the RA signaling and brain development signals are the strongest theme.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0048384","count":1},{"id":"GO:0015976","count":1},{"id":"GO:0001936","count":1},{"id":"GO:0021768","count":1},{"id":"GO:0048738","count":1}]},{"hash":"1151911401116370315","title":"Chromatin dynamics and DNA replication","description":"The cluster is enriched for nucleosome assembly/disassembly and DNA replication terms, pointing to chromatin remodeling and genome duplication. Supporting signals like sperm DNA decondensation and regulation of stem cell division suggest cell-cycle\u2013related chromatin changes, with a minor link to microtubule-associated processes in division.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0007117","count":1},{"id":"GO:0006337","count":1},{"id":"GO:0035041","count":1}]},{"hash":"1314374287988203964","title":"Fatty acid metabolism regulation and redox regulation","description":"The cluster\u2019s top GO terms cluster around fatty acid biosynthesis and metabolism (including negative regulation of fatty acid biosynthetic process, medium- and long-chain fatty-acid related steps) and NAD(P)H metabolism, with a hint of redox and phosphorylation processes, suggesting proteins involved in regulating lipid pathways and associated redox/cofactor signaling. A secondary signal is transcription regulation, which may reflect broader regulatory roles in metabolism. Overall, a cohesive theme is lipid metabolism control with redox and signaling inputs.","confidence":"Medium","size":11,"edges":15,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045717","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0006741","count":2},{"id":"GO:0006797","count":2},{"id":"GO:0019674","count":2}]},{"hash":"774062360289787296","title":"Mitochondrial fatty acid and branched-chain amino acid metabolism","description":"Most prominent GO terms describe mitochondrial lipid and amino acid catabolism (fatty acid beta-oxidation via acyl-CoA dehydrogenase, carnitine metabolism, and L-leucine catabolism), supporting a theme of mitochondrial energy production. Additional hints of peroxisomal/lipid-derived biosynthesis and mitochondrial inheritance align with this metabolic orientation. Some unrelated terms (liver/heart development) are present but do not define the core function.","confidence":"High","size":11,"edges":17,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0018896","count":3},{"id":"GO:0001889","count":3},{"id":"GO:1904070","count":3},{"id":"GO:0033539","count":3}]},{"hash":"1965010270422709527","title":"Plant Hormone Biosynthesis and Ripening","description":"This cluster revolves around biosynthesis and catabolism of plant hormones (ethylene, gibberellin, auxin, salicylic acid) and processes tied to fruit ripening and hormone-responsive programmed cell death, suggesting a cohesive theme of plant developmental signaling. Some outlier terms (penicillin biosynthesis, poly-hydroxybutyrate biosynthesis) may be annotation noise rather than core functions of the cluster, but the common thread remains hormone-mediated biosynthesis and ripening.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0042619","count":2},{"id":"GO:0042318","count":1},{"id":"GO:0046244","count":1},{"id":"GO:0009835","count":1}]},{"hash":"1592159431431387745","title":"Meiotic chromosome pairing and telomere tethering","description":"This cluster is dominated by terms about meiosis, chromosome pairing, centromere clustering, telomere tethering to the nuclear envelope, and nuclear envelope organization, pointing to meiotic chromosome dynamics; a couple bone-related terms appear incidental.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007129","count":1},{"id":"GO:0007283","count":1},{"id":"GO:0072766","count":1},{"id":"GO:0045669","count":1},{"id":"GO:0006998","count":1}]},{"hash":"2208145839293858016","title":"Unknown","description":"The GO terms here are scattered across unrelated processes (unfolded protein response, photosynthesis, steroid receptor assembly, ubiquitination, morphine response, leptin signaling, and blood pressure regulation) and several entries are obsolete. There is no clear shared function or pathway tying these proteins together, and the network shows no interactions (Edges 0, Triangles 0), so a coherent label cannot be assigned.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903646","count":1},{"id":"GO:0006986","count":1},{"id":"GO:0015979","count":1},{"id":"GO:0006463","count":1},{"id":"GO:0003085","count":1}]},{"hash":"2206413453914447540","title":"Unknown","description":"The proteins show a mix of GO terms spanning signaling (Wnt, neural crest regulation, aldosterone response, estrogen metabolism), development (smooth muscle tissue development), and core cell processes (spindle assembly, lagging strand elongation) plus telomere maintenance\u2014no single dominant function emerges to cohesively define the cluster.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":2},{"id":"GO:0051225","count":1},{"id":"GO:0008210","count":1},{"id":"GO:0048745","count":1},{"id":"GO:2001170","count":1}]},{"hash":"200971458401618005","title":"Immune Signaling and Membrane Repair","description":"The cluster centers on immune signaling terms (innate immune response, B cell receptor signaling) and integrin-mediated signaling, with plasma membrane repair, suggesting a core function in immune communication and maintaining membrane integrity; additional terms related to apoptosis regulation and metallopeptidase activity may reflect downstream remodeling and developmental contexts.","confidence":"Medium","size":10,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043065","count":3},{"id":"GO:0001778","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0035372","count":2},{"id":"GO:0051092","count":2}]},{"hash":"1079866548387868661","title":"Unknown","description":"The GO terms span plant development (leaf morphogenesis, phototropism, gravitropism) and animal immune signaling (T cell differentiation, B cell receptor signaling, interferon regulation) plus membrane repair and cardiac activity, with no single cohesive function tying them together. The lack of connecting edges suggests there is no consistent theme for this protein cluster.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":2},{"id":"GO:0060776","count":2},{"id":"GO:0009958","count":2},{"id":"GO:0001778","count":2},{"id":"GO:0045497","count":2}]},{"hash":"63175129344001108","title":"Oogenesis and axis specification","description":"The top GO terms cluster around oocyte development and axis formation, including axis specification, egg chamber stalk formation, and Wnt signaling, with supporting microtubule-associated processes (nuclear migration along microtubules, spindle orientation) and trafficking steps, all indicative of roles in oogenesis and early embryonic axis establishment.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043001","count":1},{"id":"GO:0000226","count":1},{"id":"GO:0045773","count":1},{"id":"GO:0030473","count":1},{"id":"GO:0030713","count":1}]},{"hash":"1570958817708084778","title":"ER proteostasis and membrane trafficking","description":"The terms cluster around endoplasmic reticulum proteostasis and membrane trafficking\u2014ER stress response, autophagy/aggresome dynamics, deglycosylation, tail-anchored protein insertion into the ER membrane, and ER-calcium regulation\u2014suggesting a coherent ER quality-control module.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:1901340","count":10},{"id":"GO:1901097","count":10},{"id":"GO:0000753","count":10},{"id":"GO:0071816","count":10},{"id":"GO:1902236","count":10}]},{"hash":"1849377101090468202","title":"Proteostasis and ER Stress Response","description":"This cluster centers on proteins involved in managing protein folding, targeting and quality control under stress, including post-translational targeting to membranes, ER stress-related anti-apoptotic signaling, and regulation of heat response and inclusion body assembly. Although a few terms are distinct (e.g., DNA replication, fungal cell wall biosynthesis), the dominant signals point to proteostasis and survival mechanisms during cellular stress. ","confidence":"Medium","size":10,"edges":12,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0006880","count":2},{"id":"GO:0031204","count":2},{"id":"GO:0070389","count":2},{"id":"GO:1903382","count":2}]},{"hash":"1486377684820816609","title":"ER Quality Control and Protein Homeostasis","description":"The terms cluster around protein processing, modification, turnover, and ER-associated quality control, including ERAD-related processes (sumoylation, deglycosylation, ubiquitin-dependent catabolism, autophagy regulation) and coupling to trafficking/endocytosis and signaling pathways. While there are some neuronal or signaling-specific terms, the dominant theme is proteostasis tied to ER quality control and protein degradation.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0043304","count":2},{"id":"GO:0016925","count":2},{"id":"GO:1901340","count":2}]},{"hash":"1094074158302303530","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0006986","count":1},{"id":"GO:0006458","count":1},{"id":"GO:0090084","count":1},{"id":"GO:1901621","count":1}]},{"hash":"887800540250048129","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006569","count":1},{"id":"GO:0034354","count":1},{"id":"GO:0043420","count":1},{"id":"GO:1901766","count":1},{"id":"GO:0006145","count":1}]},{"hash":"61182944023466285","title":"Ubiquitin-Dependent Degradation and Transcription Regulation","description":"The cluster centers on ubiquitin-mediated protein catabolic processes (K48-linked ubiquitination) and transcription elongation by RNA polymerase II, with links to cell cycle regulation and immune signaling (TNF pathway, V(D)J recombination). This suggests a cohesive theme of ubiquitin-proteasome\u2013driven protein turnover coupled to transcriptional control and cell cycle processes, with some immune-related connections.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0006368","count":2},{"id":"GO:0033209","count":1},{"id":"GO:0070512","count":1},{"id":"GO:0070936","count":1}]},{"hash":"406345190191967394","title":"Nuclear import/export and perinuclear tethering","description":"The top GO terms cluster around nuclear transport (tRNA/mRNA export, nuclear pore organization, NLS-mediated import) and perinuclear localization/tethering (telomere tethering at the nuclear periphery, RNA Pol II tethering, inner nuclear membrane localization). This points to a cohesive function centered on trafficking across the nuclear envelope and anchoring chromatin-elements near the nuclear envelope, fitting a set of proteins involved in nuclear transport and periphery-associated chromatin organization.","confidence":"High","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0035392","count":2},{"id":"GO:0035080","count":2},{"id":"GO:0036228","count":2},{"id":"GO:0034398","count":2},{"id":"GO:0071390","count":2}]},{"hash":"868529119048291204","title":"Cardiac muscle contraction and sarcomere organization","description":"The top GO terms show strong representation for cardiac muscle contraction, sarcomere organization, and heart-rate regulation, pointing to proteins involved in heart muscle function and cytoskeletal structure. Some autophagy and vacuolar processes appear as minor associations, but the dominant theme is cardiac muscle performance.","confidence":"High","size":10,"edges":10,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":2},{"id":"GO:0042144","count":2},{"id":"GO:0016237","count":2},{"id":"GO:0045214","count":1},{"id":"GO:1904753","count":1}]},{"hash":"2023864029778119326","title":"Unknown","description":"The top GO terms are highly diverse, spanning DNA replication, lipid/ubiquinone biosynthesis and regulation, mRNA processing, cellular responses to toxins, hormone signaling, and neural development, with no clear single function tying the cluster together. This lack of a cohesive theme makes a specific, representative label inappropriate.","confidence":"","size":10,"edges":11,"triangles":3,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:1901006","count":3},{"id":"GO:0010795","count":3},{"id":"GO:1902171","count":3},{"id":"GO:0055088","count":3}]},{"hash":"1992029363912272963","title":"Stress-Responsive Translation and Transcription Regulation","description":"The cluster centers on translation (GO:0006412) and ribosome biogenesis, with notable links to regulation of translation initiation and transcription elongation, plus responses to DNA-damage and UV/gamma radiation, indicating coordinated control of protein synthesis and gene expression under stress.","confidence":"High","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:1901194","count":2},{"id":"GO:0042273","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0071480","count":1}]},{"hash":"2301125074685231874","title":"Plant Chromatin Remodeling and Transcription Regulation","description":"This cluster is enriched for GO terms related to chromatin structure and transcription (nucleosome assembly, chromatin remodeling, snRNA transcription) and includes plant-specific signaling terms (response to salicylic acid and ethylene) and developmental processes (negative regulation of trichome patterning). The combination points to coordinated chromatin-mediated control of gene expression in plants, modulated by hormonal cues and developmental pathways.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016032","count":2},{"id":"GO:0006334","count":1},{"id":"GO:0071919","count":1},{"id":"GO:0009751","count":1},{"id":"GO:1904850","count":1}]},{"hash":"1874395815126804214","title":"Membrane Transporters for Diverse Substrates","description":"Most GO terms describe transmembrane transport for a wide range of substrates (vitamins, xenobiotics, ions, sugars, sialic acid, and aromatic compounds) and a note on neurotransmitter loading into synaptic vesicles, pointing to transporter proteins that move diverse substances across membranes.","confidence":"High","size":10,"edges":10,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":9},{"id":"GO:0006855","count":9},{"id":"GO:0035435","count":7},{"id":"GO:0015751","count":7},{"id":"GO:0015739","count":7}]},{"hash":"731381537126315546","title":"Ribosome biogenesis and pre-rRNA processing","description":"The top GO terms cluster around ribosome biogenesis (90S preribosome and ribosome assembly) and pre-rRNA processing steps (ITS1/5.8S cleavage, pre-catalytic spliceosome assembly), indicating a focus on maturation of ribosomal RNA and ribosomal subunits, with some RNA-processing/splicing activity tied to RNA maturation. This makes the label representative of the core function of the cluster.","confidence":"High","size":10,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0032147","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0000354","count":1},{"id":"GO:0034463","count":1},{"id":"GO:0042868","count":1}]},{"hash":"701134444029324211","title":"DNA Damage Response and Cell Cycle Regulation","description":"These terms cluster around DNA damage sensing/repair and cell-cycle control (ionizing radiation response, meiotic DSB processing, DNA replication, G2 checkpoint signaling, and re-entry into mitosis), with some pleiotropic signaling terms that are less central.","confidence":"High","size":10,"edges":34,"triangles":51,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071479","count":9},{"id":"GO:0000706","count":9},{"id":"GO:0048701","count":9},{"id":"GO:0006260","count":9},{"id":"GO:0048680","count":8}]},{"hash":"418831659467835749","title":"Plant Flower Development and Pollination","description":"This cluster is dominated by plant reproductive terms, highlighted by pollination and positive regulation of flower development, with circadian rhythm regulation suggesting timing control of reproduction, and supportive transcriptional/nuclear signaling terms. A couple of terms (e.g., male gonad development) may be less relevant annotations, but the core signal points to flowering and pollination processes in plants.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0031930","count":2},{"id":"GO:0031940","count":2},{"id":"GO:0060303","count":2}]},{"hash":"1832822896837472070","title":"Insect segmentation and sensory organ development","description":"These proteins are annotated with GO terms tied to segmentation (GO:0007379), antennal and compound eye development, CNS formation, and muscle development, all hallmark insect developmental processes. The diversity of terms\u2014covering early patterning, sensory organogenesis, and later muscle formation\u2014suggests a general developmental program rather than a single molecular function or pathway, so the label captures the common theme of insect body plan and organ formation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007379","count":1},{"id":"GO:0007469","count":1},{"id":"GO:1902064","count":1},{"id":"GO:0021556","count":1},{"id":"GO:0048749","count":1}]},{"hash":"797218530280023329","title":"Unknown","description":"The GO terms span nitrogen metabolism, lipid/sterol pathways, organelle inheritance, circadian regulation, and diverse developmental processes across plants, fungi, and animals, with no single cohesive biological function tying them together. Because the protein set appears heterogeneous and species-diverse, a meaningful, specific label cannot be assigned.","confidence":"","size":10,"edges":11,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006809","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0000001","count":2},{"id":"GO:0006636","count":2},{"id":"GO:0032286","count":2}]},{"hash":"23253167666474366","title":"Cytokine production and hematopoietic signaling","description":"The top GO terms converge on regulation of cytokine production (IL-4, GM-CSF) and hematopoietic signaling (erythropoietin), pointing to immune modulation and blood cell development as the core theme, with a few outliers related to cell cycle and development.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:1902564","count":10},{"id":"GO:0048680","count":8},{"id":"GO:0007095","count":8},{"id":"GO:0000320","count":8},{"id":"GO:0010954","count":8}]},{"hash":"421519255167975127","title":"Signaling Regulation and Cytokine Production","description":"The cluster centers on regulatory signaling and gene expression, with terms covering erythropoietin signaling, cytokine production (IL-4, GM-CSF), transcriptional regulation, and cell-cycle checkpoints, suggesting a broad module of signaling and transcription control rather than a single specific function.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":10},{"id":"GO:0007095","count":10},{"id":"GO:0000320","count":10},{"id":"GO:0010954","count":10},{"id":"GO:0038162","count":10}]},{"hash":"1852346386154621448","title":"Developmental transcription and stress response","description":"The cluster is enriched for DNA-templated transcription and several development terms (forebrain development, skeletal system development, multicellular organism development), suggesting roles in developmental gene regulation. Additional terms indicate cellular stress responses (cadmium ion, ER stress\u2013related apoptotic signaling), pointing to stress-responsive transcription during development. A minor immune-related term is present but not central. Overall, the label reflects a core theme of developmental transcription with stress response.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0030900","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0001501","count":2}]},{"hash":"1288150477072111362","title":"Biosynthesis and Metabolism","description":"Top GO terms are dominated by biosynthetic and metabolic processes (lipoprotein biosynthesis, NAD+ biosynthesis, polyamine biosynthesis, and oxaloacetate metabolism), with an additional stress-response (cadmium ion) and a proteasomal regulation term. The cluster therefore centers on core metabolic and biosynthetic functions, with a possible stress-adaptation angle, rather than a single specific pathway.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042158","count":2},{"id":"GO:0009435","count":2},{"id":"GO:0046686","count":2},{"id":"GO:0006107","count":2},{"id":"GO:0006596","count":2}]},{"hash":"1269520944176247481","title":"Unknown","description":"The listed GO terms come from very different biological contexts (muscle differentiation, T cell regulation, gravitropism/phototropism, B cell signaling, ubiquitination, renal ion transport), and there are no connections or edges tying them into a single functional theme, so a cohesive label cannot be assigned.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":2},{"id":"GO:0043380","count":2},{"id":"GO:0009958","count":2},{"id":"GO:0045497","count":2},{"id":"GO:0009638","count":2}]},{"hash":"1705689927569743796","title":"Germline development and organ morphogenesis","description":"The GO terms point to developmental processes across germline and organ formation, with strong signals from piRNA processing and spermatid nucleus differentiation (germline-related), as well as various morphogenesis terms (otic vesicle formation, atrial septum morphogenesis, embryonic digestive tract morphogenesis). While there are a few more regulatory or immune-related terms present, the core pattern supports a developmental/regulatory module centered on germline development and organ morphogenesis.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071866","count":2},{"id":"GO:0048557","count":2},{"id":"GO:0007289","count":2},{"id":"GO:0060784","count":2},{"id":"GO:0034587","count":2}]},{"hash":"1368237290524366199","title":"Unknown","description":"The Top Terms include highly diverse processes (toxic substance response, axon regeneration, cell-cycle checkpoints, various signaling pathways, and developmental processes), with little overlap and no interactions among proteins, making a cohesive functional label unreliable.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":2},{"id":"GO:0048680","count":1},{"id":"GO:0007095","count":1},{"id":"GO:0000320","count":1},{"id":"GO:0010954","count":1}]},{"hash":"1214551250681000111","title":"Unknown","description":"This cluster has no GO terms or interactions to infer a common function, so no clear theme emerges; labeling as Unknown reflects the lack of identifiable shared biology.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1254486127907674440","title":"Neuroimmune signaling and axon development","description":"The cluster includes GO terms tied to neural development and axon interactions (positive regulation of axon regeneration, axon fasciculation, planar polarity establishment) as well as immune/cytokine signaling (interleukin-12/IL-4 production, T cell proliferation) and signaling pathways like integrin and erythropoietin signaling. This combination suggests a theme of neuroimmune communication and neural development rather than a single narrow function.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":1},{"id":"GO:0046641","count":1},{"id":"GO:0008285","count":1},{"id":"GO:0097156","count":1},{"id":"GO:0070671","count":1}]},{"hash":"431099391200018441","title":"Innate Immune Signaling and Autophagy","description":"The terms point to innate immune signaling and autophagy: NLRP3 inflammasome assembly, Toll-like receptor signaling, and positive regulation of interferon production, along with cellular defences like xenophagy and defense against Gram-positive bacteria. These converge on host defense and autophagic processes, supporting a label tied to immune response. Some entries (brassinosteroid sensing, actin uncapping) appear as peripheral/outlier annotations rather than core functions.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044546","count":1},{"id":"GO:0009729","count":1},{"id":"GO:2000321","count":1},{"id":"GO:1902350","count":1},{"id":"GO:0034166","count":1}]},{"hash":"940226878333711537","title":"Mitochondrial Electron Transport and Respiration","description":"The GO terms converge on mitochondrial energy metabolism: electron transport from ubiquinol to cytochrome c, complex III assembly, proton transmembrane transport, and aerobic respiration. These collectively point to proteins involved in the mitochondrial respiratory chain and oxidative phosphorylation, particularly complex III-related processes.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034551","count":1},{"id":"GO:0009060","count":1},{"id":"GO:1902600","count":1},{"id":"GO:0006122","count":1}]},{"hash":"602420007941283468","title":"Peroxisomal protein import and microtubule transport","description":"The GO terms point to steps of importing proteins into the peroxisome matrix (docking, translocation, substrate release, targeting) and to transport along microtubules to peroxisomes, plus vesicle-related trafficking to the Golgi. This combination suggests a cohesive role in peroxisomal protein targeting and cytoskeletal-mediated movement. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034453","count":1},{"id":"GO:0016561","count":1},{"id":"GO:0044721","count":1},{"id":"GO:0032091","count":1},{"id":"GO:0036250","count":1}]},{"hash":"1585875655122898897","title":"Vacuolar Transport and Autophagy","description":"The top GO terms cluster around vacuolar functions: vacuolar transport, microautophagy, and vacuole fusion (non-autophagic), with supporting terms like polyphosphate biosynthesis that occurs in vacuoles. These point to a shared theme of vacuolar trafficking and autophagic processes, with some peripheral links to cell wall biosynthesis and cell polarity that can be related to vacuolar roles in fungal cell remodeling. While a few terms (e.g., DNA repair) are unrelated, the dominant signal supports a vacuolar/autophagy-centered theme.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0045910","count":1},{"id":"GO:0006298","count":1},{"id":"GO:0007034","count":1},{"id":"GO:0016237","count":1},{"id":"GO:0042144","count":1}]},{"hash":"1459208612042509954","title":"Developmental chromatin remodeling and transcription regulation","description":"This cluster's GO terms cluster around nuclear regulation of gene expression, dominated by chromatin remodeling and RNA polymerase\u2013mediated transcription control, with several development-related morphogenesis terms (otic vesicle, atrial septum, lacrimal gland, digestive tract) and apoptotic regulation suggesting coordinated growth and cell fate decisions during development.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":3},{"id":"GO:0071866","count":2},{"id":"GO:0048557","count":2},{"id":"GO:0060784","count":2},{"id":"GO:0030916","count":2}]},{"hash":"359717662522865137","title":"Developmental Transcriptional Regulation and Morphogenesis","description":"The cluster centers on transcriptional control (DNA-templated transcription; Pol II/Pol III regulation; transcription fidelity) and developmental morphogenesis across multiple organs (otic vesicle, atrial septum, lacrimal gland, embryonic digestive tract), with related roles in apoptosis and tissue homeostasis, suggesting a cohesive theme of gene expression regulation guiding embryonic development and organ formation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0071866","count":2},{"id":"GO:0048557","count":2},{"id":"GO:0060784","count":2},{"id":"GO:0030916","count":2}]},{"hash":"2174649589881602379","title":"Unknown","description":"Top terms span immune signaling, development, plant tropisms, ubiquitination, oxidative stress, and renal transport, with no single cohesive function binding the proteins. The absence of a unifying pathway and the zero edges indicate this cluster cannot be assigned a meaningful label other than Unknown.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":6},{"id":"GO:0009958","count":6},{"id":"GO:0045497","count":6},{"id":"GO:0009638","count":6},{"id":"GO:0050853","count":6}]},{"hash":"568833166600648518","title":"Unknown","description":"The top GO terms include diverse processes such as regulation of axon regeneration, mitotic checkpoints and cell-cycle re-entry, cytokine production (IL-4, GM-CSF), erythropoietin signaling, transcription regulation, and cardiac neural crest development. This spread across neural, immune, hematopoietic, developmental, and signaling contexts shows no clear, cohesive function tying the proteins together, so a single representative label is not identifiable.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":1},{"id":"GO:0007095","count":1},{"id":"GO:0000320","count":1},{"id":"GO:0010954","count":1},{"id":"GO:0038162","count":1}]},{"hash":"733915264664669011","title":"DNA Damage Response and Replication Stress","description":"The GO terms converge on responses to DNA-damaging agents (cisplatin, bleomycin), replication fork dynamics (arrest/protection), and DNA damage signaling and repair (checkpoint signaling, double-strand break repair), suggesting the proteins participate in DNA damage response during replication stress. Some unrelated terms appear as noise but do not dominate the set.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072719","count":1},{"id":"GO:0048478","count":1},{"id":"GO:0003053","count":1},{"id":"GO:0030324","count":1},{"id":"GO:0043111","count":1}]},{"hash":"1815684201770157416","title":"Unknown","description":"The top terms are a mix of nucleic acid processing, restriction-modification, stress responses, and various developmental and cellular processes, with no single dominant function or pathway across the cluster. Additionally, there are no edges connecting the proteins, so there is no coherent shared role to label. ","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090305","count":1},{"id":"GO:0009307","count":1},{"id":"GO:0071218","count":1},{"id":"GO:0071243","count":1},{"id":"GO:0048745","count":1}]},{"hash":"1125771112824070179","title":"Endomembrane vesicle trafficking and Rab regulation","description":"GO terms reveal intracellular trafficking across endosomes, Golgi, and COPII pathways, with Rab signaling and vesicle fusion regulation, suggesting a coherent endomembrane transport function.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000495","count":1},{"id":"GO:0072327","count":1},{"id":"GO:0048227","count":1},{"id":"GO:0031338","count":1},{"id":"GO:0032483","count":1}]},{"hash":"1770938396902456492","title":"ER-Golgi Vesicle Trafficking & Rab GTPase Regulation","description":"This cluster is dominated by GO terms for ER-to-Golgi vesicle transport and Golgi-to-ER retrograde transport, plus a term for positive regulation of GTPase activity, which aligns with Rab GTPases controlling vesicle trafficking. Some other terms (immune signaling, plant tropisms) appear as noise, but the core function is vesicle trafficking between ER and Golgi with GTPase regulation.","confidence":"Medium","size":9,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0043380","count":1}]},{"hash":"210634482108227993","title":"Deoxynucleotide Biosynthesis & Salvage","description":"The top GO terms cluster around deoxynucleotide production and salvage (deoxyribonucleoside monophosphate biosynthesis, dGTP metabolism, TMP biosynthesis, DNA biosynthetic process, pyrimidine nucleoside salvage, deoxyguanosine salvage, and deoxycytidine metabolism), suggesting a cohesive role in supplying and maintaining deoxynucleotide pools for DNA synthesis. A couple of terms on mitochondrial electron transport and phosphorylation are less central and may reflect broader metabolic context rather than the primary function of this cluster.","confidence":"High","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0009157","count":1},{"id":"GO:0006120","count":1},{"id":"GO:0046070","count":1},{"id":"GO:0006230","count":1},{"id":"GO:0071897","count":1}]},{"hash":"99058743568404314","title":"Developmental Processes and Protein Homeostasis","description":"The top GO terms are heavily focused on development (skin, brain, multicellular organism development), suggesting a developmental role. Additional terms touch on gene expression and protein quality control (transcription, rRNA maturation, ubiquitin-dependent proteolysis/ERAD, protein oligomerization), indicating involvement in both development and general protein homeostasis rather than a single narrow function.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0006366","count":2}]},{"hash":"920348778750015907","title":"Proteostasis and protein quality control","description":"The cluster is dominated by GO terms related to managing misfolded proteins and protein turnover (cellular response to misfolded protein; ubiquitin-dependent ERAD; proteasomal catabolic process; SCF complex disassembly; inclusion body assembly; stress-related transport and insertion events). While other terms touch on membrane trafficking and transcription regulation, the strongest signals point to protein quality control and degradation pathways that maintain proteome integrity.","confidence":"High","size":9,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0071218","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0032979","count":2},{"id":"GO:0048219","count":2}]},{"hash":"1228021263912358981","title":"Stress-Responsive Apoptosis Regulation","description":"Explanation: The dominant GO terms point to regulation (often inhibition) of apoptotic signaling in response to various cellular stresses (ER stress, hydrogen peroxide, heat), indicating a cluster of proteins involved in modulating cell fate under stress. Additional terms about protein targeting, folding, and morphogenesis are present but secondary, reinforcing a theme of stress-related apoptosis control.","confidence":"Medium","size":9,"edges":9,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0006880","count":1},{"id":"GO:0031204","count":1},{"id":"GO:0070389","count":1}]},{"hash":"713857237722683619","title":"Membrane Transporters for Sugars, Ions, Xenobiotics","description":"The GO terms in this cluster mainly point to transmembrane transport activities across diverse substrates, including phosphate ions, glucose, arabinose, sialic acid, nitrate assimilation, and xenobiotics, plus a vesicular neurotransmitter loading term. This suggests a cohesive set of transporter proteins with broad substrate specificity, despite a few unrelated terms that may reflect noise. Overall, the common function is membrane transport, justifying a transporter-focused label.","confidence":"Medium","size":9,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":1},{"id":"GO:0044381","count":1},{"id":"GO:0015751","count":1},{"id":"GO:0043252","count":1},{"id":"GO:0015739","count":1}]},{"hash":"1825514045560230620","title":"Mitosis-linked vesicle trafficking","description":"The top GO terms point to cell division and mitotic processes (mitotic metaphase chromosome alignment, exit from mitosis, regulation of mitotic spindle assembly) alongside vesicle trafficking pathways (multivesicular body assembly, MVB sorting, Golgi protein retention, nuclear membrane reassembly). This suggests a cluster of proteins coordinating chromosome segregation with membrane trafficking and organelle reassembly during mitosis. Some virus-related terms appear obsolete and likely annotation noise.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0039707","count":2},{"id":"GO:0007080","count":2},{"id":"GO:1902188","count":2},{"id":"GO:0010458","count":2}]},{"hash":"155499462174294031","title":"Cytokine signaling and growth factor pathways","description":"The proteins are predominantly linked to cytokine signaling and hematopoietic growth factor pathways\u2014erythropoietin-mediated signaling, interleukin-4 and interleukin-18 signaling, and GM-CSF production\u2014suggesting a coherent theme of cytokine-driven communication and growth factor signaling. Some outlier terms related to cell cycle or cytoskeleton may reflect broader cellular roles, but the cytokine/growth factor connections dominate. ","confidence":"Medium","size":9,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":2},{"id":"GO:0007095","count":2},{"id":"GO:0000320","count":2},{"id":"GO:0010954","count":2},{"id":"GO:0038162","count":2}]},{"hash":"205492893403668577","title":"Cell wall biosynthesis and biofilm formation","description":"Based on the GO terms enriched in this cluster, the strongest signals are about cell envelope construction (cell wall biogenesis, beta-D-glucan biosynthesis, and the specific undecaprenyl phosphate\u2013linked sugar biosynthesis) and biofilm formation. These point to a cohesive theme around cell wall/envelope production and extracellular matrix formation. A few other terms (ribosome biogenesis, mRNA splicing, mitochondrial autophagy) are less clearly connected and may reflect annotation noise or multifunctionality, but do not override the dominant envelope biosynthesis signal.","confidence":"Medium","size":9,"edges":9,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0042546","count":1},{"id":"GO:0006078","count":1},{"id":"GO:1903955","count":1},{"id":"GO:0001522","count":1},{"id":"GO:0042254","count":1}]},{"hash":"1080577534290319030","title":"Notch signaling in embryonic development","description":"The cluster contains Notch signaling (GO:0007219) along with early development processes such as mesoderm formation, regulation of epithelial-to-mesenchymal transition, and placental morphogenesis, suggesting a developmental module governed in part by Notch. The presence of fucose-related glycosylation terms (O-fucosylation) supports regulation of Notch receptor function, while chromatin-related terms (nucleosome assembly, histone acetylation) point to coordinated transcriptional changes during development. Altogether, the strongest common theme is a Notch-driven embryonic-development program.","confidence":"High","size":9,"edges":9,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006627","count":1},{"id":"GO:0000746","count":1},{"id":"GO:0010717","count":1},{"id":"GO:0006004","count":1},{"id":"GO:0007219","count":1}]},{"hash":"2276445897137127402","title":"DNA damage response and repair","description":"The cluster is dominated by GO terms related to DNA replication, DNA repair, DNA-templated transcription, and p53-mediated DNA damage response, including cellular responses to ionizing radiation and toxic substances. These points strongly suggest a shared role in maintaining genome integrity and coordinating cell cycle arrest, with additional developmental terms possibly reflecting multifunctional proteins or broader context, but the core theme centers on DDR/repair pathways.","confidence":"Medium","size":9,"edges":10,"triangles":5,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0006281","count":6},{"id":"GO:0021954","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0048813","count":5}]},{"hash":"1656066964572204389","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0000466","count":4},{"id":"GO:0019079","count":4},{"id":"GO:0000462","count":4},{"id":"GO:0000480","count":4}]},{"hash":"1588874624800358228","title":"Unknown","description":"Top GO terms are diverse: energy metabolism (ATP synthesis), ion transport, riboflavin biosynthesis, water homeostasis, development (erythrocyte, placenta, oogenesis stages), rRNA methylation, and immune activation (T cell proliferation). There is no clear, shared biological process or pathway that ties all nine proteins together, indicating a heterogeneous cluster rather than a specific functional theme.","confidence":"","size":9,"edges":17,"triangles":9,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015986","count":1},{"id":"GO:0099132","count":1},{"id":"GO:0009231","count":1},{"id":"GO:0034220","count":1},{"id":"GO:0009992","count":1}]},{"hash":"941299142149213068","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070935","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0007519","count":3},{"id":"GO:0033129","count":3},{"id":"GO:0045087","count":3}]},{"hash":"235928340268036921","title":"Ribosome Biogenesis and RNA Surveillance","description":"The cluster is enriched for GO terms related to ribosome biogenesis and RNA quality control: maturation of SSU and LSU rRNA from tricistronic transcripts (including 5.8S rRNA), translation and translation termination, and RNA surveillance pathways (non-stop decay, no-go decay). This combination strongly suggests proteins involved in ribosome assembly and RNA quality control mechanisms.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0018298","count":2},{"id":"GO:0035167","count":1},{"id":"GO:0000466","count":1},{"id":"GO:0070481","count":1}]},{"hash":"2303923281479673984","title":"Ribosome Biogenesis and Translation","description":"The top GO terms cluster around ribosome-related processes: ribosome biogenesis, cytoplasmic translation, tRNA modification, and export of the large ribosomal subunit, indicating these proteins are part of the protein synthesis machinery. Some cell division terms appear, but they are less representative of the overall function.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000747","count":3},{"id":"GO:0090529","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006400","count":2},{"id":"GO:1903833","count":2}]},{"hash":"462974664518646244","title":"NF-kB and TLR inflammatory signaling inhibitors","description":"The cluster is characterized mainly by GO terms for negative regulation of NF-kappaB activity, suppression of TNF, IL-8, and IL-1 production, and negative regulation of TLR/LPS signaling, pointing to a core role in dampening inflammatory signaling through NF-kB and TLR pathways. A spliceosome-related term appears but does not define the cluster\u2019s function; overall, these proteins seem to act as anti-inflammatory regulators of NF-kB/TLR signaling.","confidence":"High","size":9,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":1},{"id":"GO:0032720","count":1},{"id":"GO:0071222","count":1},{"id":"GO:0032717","count":1},{"id":"GO:0071347","count":1}]},{"hash":"959804710218936124","title":"DNA Replication Machinery","description":"The top GO terms are strongly centered on DNA replication processes (replication, initiation, primer synthesis, unwinding). While a few other terms appear (ERAD, vesicle transport, heterochromatin formation, intein splicing), the prevailing signal points to proteins involved in DNA replication and related cell cycle activities.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0006268","count":2},{"id":"GO:0006270","count":2},{"id":"GO:0030433","count":2}]},{"hash":"1588859388552230160","title":"RNA processing and ribosome biogenesis under stress","description":"The cluster centers on RNA processing (rRNA, tRNA) and 90S preribosome assembly, plus translation-related terms, indicating a focus on ribosome biogenesis and translational control, with additional stress/xenobiotic response terms suggesting regulation under stress conditions.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0042220","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0032057","count":1},{"id":"GO:0034463","count":1}]},{"hash":"1794079524577081474","title":"Neural signaling and synaptic plasticity","description":"The cluster centers on neuronal communication and plasticity, with GO terms for phototransduction, memory, regulation of long-term potentiation, and excitatory postsynaptic potential, suggesting a shared theme of synaptic signaling. Additional terms like Wnt calcium modulation may support signaling contexts, while the non-neural terms (angiogenesis, kidney development) are less represented and likely incidental. Overall, the strongest signal is neural signaling and synaptic plasticity.","confidence":"Medium","size":9,"edges":11,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007602","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0072286","count":2},{"id":"GO:0007613","count":2},{"id":"GO:1902896","count":2}]},{"hash":"743838382831358122","title":"Unknown","description":"The GO terms span many unrelated processes (organelle assembly, meiosis/mitosis, immune degranulation, spore formation, ECM biosynthesis, and vesicle transport), with no clear shared function or pathway tying the proteins together. The network also shows only a single edge, suggesting no cohesive cluster theme. ","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006461","count":1},{"id":"GO:0032438","count":1},{"id":"GO:0070058","count":1},{"id":"GO:0007130","count":1},{"id":"GO:0007076","count":1}]},{"hash":"1215613442891051324","title":"Lipid and steroid hormone biosynthesis","description":"The top GO terms point to lipid-derived signaling (prostaglandin/oxylipin biosynthesis) and steroid-related pathways (brassinosteroid homeostasis, calcitriol biosynthesis), along with reproductive development terms (uterus, maternal, prostate gland growth). This suggests a cohesive theme around lipid- and steroid-based hormone production and its role in reproductive biology across species, with some related detox/metabolism terms (insecticide metabolism, copper response) possibly reflecting shared enzyme systems. ","confidence":"Medium","size":9,"edges":34,"triangles":70,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":7},{"id":"GO:0060065","count":5},{"id":"GO:0031408","count":4},{"id":"GO:0017143","count":4},{"id":"GO:0010268","count":4}]},{"hash":"1386370098183115661","title":"Developmental transcription regulators","description":"The top GO terms emphasize DNA-templated transcription, negative regulation of transcription by RNA polymerase II, and chromatin remodeling, indicating a core role in transcriptional control and chromatin dynamics. The accompanying organ development terms (trachea/bronchus/lung morphogenesis and atrial septum formation) imply these proteins influence developmental programs in respiratory and cardiac tissues, suggesting a cohesive theme of transcriptional regulation during organogenesis.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0043044","count":4},{"id":"GO:0060534","count":3},{"id":"GO:0060532","count":3}]},{"hash":"1392796524062299613","title":"RNA transcription and ribosome biogenesis","description":"This cluster is dominated by GO terms spanning RNA polymerase-driven transcription (I, II, III), RNA-templated transcription, and tRNA transcription, plus a ribosome biogenesis term. The common theme ties transcription machinery to ribosome component production, suggesting these proteins function in RNA synthesis and ribosome assembly processes.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006360","count":1},{"id":"GO:0001172","count":1},{"id":"GO:0006385","count":1},{"id":"GO:0006366","count":1},{"id":"GO:0042254","count":1}]},{"hash":"1108521124325928308","title":"Unknown","description":"The top GO terms are highly diverse and span nitric oxide and nitrate metabolism, mitochondrial inheritance, various lipid/metabolite pathways (fatty acid, ergosterol, sphingolipid-related), and even tissue-specific differentiation terms. This mix lacks a coherent shared function or pathway linking the proteins, with only single-term annotations, so there isn't a clear cluster theme to label beyond Unknown.","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006809","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0000001","count":1},{"id":"GO:0006636","count":1},{"id":"GO:0032286","count":1}]},{"hash":"1246627592133265997","title":"Unknown","description":"The nine proteins have a scattered set of GO terms spanning mitochondrial inheritance, lipid biosynthesis (sphingosine, unsaturated fatty acids, MIPC), nitrate assimilation, nitric oxide biosynthesis, photoinhibition, and sebaceous gland differentiation, with several terms being obsolete. There is no clear shared function or pathway linking these annotations, suggesting the cluster does not represent a cohesive biological theme. Therefore, Unknown with None confidence.","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":1},{"id":"GO:0006675","count":1},{"id":"GO:0001949","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0010873","count":1}]},{"hash":"91661890331040029","title":"Ubiquitin-dependent proteolysis in neural stress","description":"The cluster centers on ubiquitin-dependent protein catabolic processes and proteasomal degradation (SCF-dependent), with multiple terms tied to proteostasis. It also shows neuronal stress responses (oxidative-stress-induced apoptotic signaling) and metal-response pathways (manganese and methylmercury), plus signals related to neuronal function and circadian regulation. This combination suggests a cohesive theme of protein turnover via the ubiquitin-proteasome system in neural cells under stress, with some auxiliary development and circadian-related signals.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":2},{"id":"GO:1903378","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0071287","count":2},{"id":"GO:0090394","count":2}]},{"hash":"1458353455338105815","title":"Cytokine Signaling and Immune Regulation","description":"The top GO terms cluster around cytokine signaling and production (interleukin-4, GM-CSF, erythropoietin pathways) and related transcriptional regulation, with additional references to NFAT signaling and developmental processes. This suggests a core theme of signaling pathways governing immune responses and development, with some cross-talk to cell cycle processes as a secondary signal. ","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":9},{"id":"GO:0007095","count":9},{"id":"GO:0000320","count":9},{"id":"GO:0010954","count":9},{"id":"GO:0038162","count":9}]},{"hash":"645507976375821376","title":"Innate immune signaling and cytokine production","description":"Most prominent GO term is innate immune response, with multiple terms pointing to regulation of cytokine production (IL-4, GM-CSF) and erythropoietin signaling, suggesting a cluster centered on immune signaling and hematopoietic cytokine activity. A few nonimmune terms (cell cycle, axon regeneration) appear but likely represent secondary annotations, so the label emphasizes innate immunity and cytokine regulation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0045087","count":8},{"id":"GO:0048680","count":7},{"id":"GO:0007095","count":7},{"id":"GO:0000320","count":7},{"id":"GO:0010954","count":7}]},{"hash":"597002189875720208","title":"Lignan and phenylpropanoid biosynthesis","description":"This cluster is dominated by GO terms for phenylpropanoid metabolism and lignan biosynthesis, including secoisolariciresinol and pinoresinol biosynthesis, and also features related flavonoid/anthocyanin biosynthesis terms, suggesting a cohesive lignan/phenylpropanoid functional theme. A few other metabolic terms (galactose metabolism, nitrate assimilation) seem ancillary. ","confidence":"High","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0042128","count":2},{"id":"GO:0006012","count":2},{"id":"GO:0001081","count":2},{"id":"GO:1901006","count":2}]},{"hash":"15660069161438566","title":"Unknown","description":"This cluster shows a mix of GO terms including proteolysis, protein catabolic processes, antigen processing, amyloid-beta metabolism, and even behavioral and plant-related processes, with no strong, single functional thread. The scattered terms suggest no cohesive function linking all proteins, so Unknown with no confidence.","confidence":"","size":9,"edges":9,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":1},{"id":"GO:0070305","count":1},{"id":"GO:0042985","count":1},{"id":"GO:0019886","count":1},{"id":"GO:0042756","count":1}]},{"hash":"1250318171091254365","title":"Unknown","description":"The nine proteins show GO terms spanning membrane targeting and transport, immune peptide processing, and diverse cell-cycle signaling. There is no single dominant biological process tying these terms together, making a cohesive functional theme unlikely.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006616","count":1},{"id":"GO:0006614","count":1},{"id":"GO:0031573","count":1},{"id":"GO:0030866","count":1},{"id":"GO:0035331","count":1}]},{"hash":"609260977593562171","title":"Tyrosine kinase signaling for axon growth and cytokines","description":"This cluster centers on tyrosine kinase\u2013driven signaling (KIT and collagen receptor pathways), with emphasis on neuronal growth processes (axon regeneration and guidance) and cytokine production (IL-4, GM-CSF) along with STAT activation, suggesting a shared theme of growth-factor signaling coordinating neural growth and immune signaling.","confidence":"Medium","size":9,"edges":28,"triangles":50,"max_degree":8,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":8},{"id":"GO:0010954","count":8},{"id":"GO:0038162","count":8},{"id":"GO:0032633","count":8},{"id":"GO:0045425","count":8}]},{"hash":"346890886471561279","title":"Unknown","description":"The top terms span signaling (PI3K/AKT regulation; calcium response) and a wide range of metabolic and physiological processes (bile acid catabolism; urine volume regulation; biosynthesis of ascorbic acid, fructose, and pyridoxal; retinoic acid regulation; maternal pregnancy processes). There isn\u2019t a clear, single functional theme tying these proteins together, suggesting a heterogeneous cluster rather than a cohesive pathway or process.","confidence":"","size":9,"edges":28,"triangles":45,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0051897","count":6},{"id":"GO:0030573","count":6},{"id":"GO:0035809","count":6},{"id":"GO:1901653","count":6},{"id":"GO:0019853","count":6}]},{"hash":"1747541049373457576","title":"Mitochondrial Respiratory Chain Assembly (Complex I & II)","description":"The top GO terms point to mitochondrial electron transport (NADH to ubiquinone) and assembly of the respiratory chain complex II, indicating the proteins cluster around mitochondrial respiration and assembly processes, particularly components related to Complex I activity and Complex II assembly.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":1},{"id":"GO:0034553","count":1}]},{"hash":"1510283824032279694","title":"Transmembrane amino acid and ion transport","description":"The top GO terms mostly describe import or transport of amino acids (methionine, L-ornithine, L-lysine, D-alanine) and ions across the plasma membrane, with additional terms tied to osmotic and cell volume regulation. Although one term mentions nitric oxide production, the prevailing theme is membrane transport of substrates, which justifies the label as representative of the cluster\u2019s function.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044690","count":1},{"id":"GO:1902269","count":1},{"id":"GO:0035826","count":1},{"id":"GO:0042941","count":1},{"id":"GO:0002537","count":1}]},{"hash":"1902048832983961780","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016042","count":1},{"id":"GO:2000344","count":1},{"id":"GO:0052889","count":1},{"id":"GO:0032805","count":1},{"id":"GO:0007354","count":1}]},{"hash":"364663495518463923","title":"Embryonic Development and Morphogenesis","description":"The top GO terms cluster around morphogenesis of various tissues (hindgut, anterior commissure, embryonic digestive tract, salivary gland) and general development, with supporting signals for cell division and ribosome biogenesis. This suggests a developmental, tissue-patterning role rather than a single specialized function.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0000747","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0007442","count":2}]},{"hash":"2272778490534433412","title":"RNA Processing and mRNA Decay","description":"Most terms point to RNA metabolism, especially mRNA processing and decay (deadenylation-dependent/independent decay) and splicing. A few terms relate to unrelated processes, so the connection is modest but the RNA-focused signal is the strongest.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901253","count":1},{"id":"GO:0031086","count":1},{"id":"GO:0071385","count":1},{"id":"GO:1900153","count":1},{"id":"GO:0090073","count":1}]},{"hash":"1373593450092712798","title":"Peroxisome biogenesis and inheritance","description":"The top GO terms cluster around peroxisome biology, including ER-dependent peroxisome organization, membrane biogenesis, fission, inheritance, and protein import into the peroxisomal membrane. Minor terms about chaperone transport or mitotic cohesion are incidental. This points to a cohesive group of proteins involved in assembling and maintaining peroxisomes and their components.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032581","count":1},{"id":"GO:0072321","count":1},{"id":"GO:0032527","count":1},{"id":"GO:0050821","count":1},{"id":"GO:0016557","count":1}]},{"hash":"1840996098938013183","title":"Unknown","description":"The top GO terms cover a wide range of processes across plants and animals (leaf morphogenesis, skin development, cardiac electrophysiology, immune signaling, synapse assembly, caffeine response, IGF signaling, calcium handling, and intracellular transport of viral material) with no coherent shared function, so a single meaningful label cannot be assigned.","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060776","count":2},{"id":"GO:0001778","count":2},{"id":"GO:0098910","count":2},{"id":"GO:1901253","count":2},{"id":"GO:0032479","count":2}]},{"hash":"1332112092482584013","title":"Unknown","description":"The GO terms are highly diverse with single occurrences (membrane repair, synapse assembly, apoptosis regulation, antibiotic response, GABAergic transmission regulation, intracellular transport, granuloma formation, phospholipid catabolism, angiogenesis regulation, reelin signaling). There is no dominant shared function or cohesive pathway linking the proteins, and there are no edges; therefore a single descriptive name is not justifiable.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001778","count":1},{"id":"GO:0007416","count":1},{"id":"GO:0043065","count":1},{"id":"GO:0071236","count":1},{"id":"GO:0032228","count":1}]},{"hash":"171717267467296107","title":"Mitotic spindle and kinetochore assembly","description":"Top GO terms center on mitotic spindle organization, kinetochore assembly, chromosome alignment, and spindle\u2013kinetochore attachments, indicating a cohesive set of proteins involved in mitosis and kinetochore function.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007052","count":2},{"id":"GO:0007121","count":2},{"id":"GO:0000902","count":2},{"id":"GO:1905561","count":1},{"id":"GO:0051455","count":1}]},{"hash":"2101703824712717046","title":"Developmental signaling and cytoskeletal regulation","description":"This cluster is enriched for focal adhesion regulation, Wnt and JNK signaling, cytoskeleton remodeling, and developmental processes (heart and hippocampus), plus transcriptional regulation and apoptosis. The combined signals point to proteins that coordinate developmental signaling with cytoskeletal dynamics and gene expression.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051893","count":8},{"id":"GO:0090263","count":8},{"id":"GO:0021766","count":8},{"id":"GO:0031532","count":8},{"id":"GO:0043065","count":8}]},{"hash":"930506776189263327","title":"Neuronal signaling with cytoskeletal remodeling","description":"The cluster combines terms related to brain-derived neurotrophic factor signaling, calcium-dependent cell adhesion, and myosin II cytoskeletal disassembly, along with protein autophosphorylation/regulation and stress responses (anoxia, necroptosis). This points to a core theme of neuronal signal transduction coupled to cytoskeletal remodeling and stress-induced pathways, rather than a single narrowly defined function.","confidence":"Medium","size":8,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1990416","count":4},{"id":"GO:0010961","count":2},{"id":"GO:1990637","count":2},{"id":"GO:0016340","count":2},{"id":"GO:0051262","count":2}]},{"hash":"5306743748696477","title":"Developmental Signaling and Transcription Regulation","description":"The cluster is enriched for developmental terms across multiple tissues (skeletal system, heart, nervous system, forebrain), suggesting a module involved in developmental signaling. The presence of Rho-mediated signaling and positive regulation of calcium-dependent exocytosis points to cytoskeletal and vesicular trafficking roles that support morphogenesis and cell communication. DNA-templated transcription aligns with transcriptional regulation during development, though some terms like pseudohyphal growth hint at conserved signaling pathways. Overall, it seems to reflect a developmental signaling and transcription-regulatory module.","confidence":"Medium","size":8,"edges":18,"triangles":18,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001501","count":7},{"id":"GO:0045956","count":6},{"id":"GO:0007266","count":6},{"id":"GO:0007124","count":6},{"id":"GO:0007507","count":6}]},{"hash":"146884215853596349","title":"Symbiont-host interaction and immune modulation","description":"Based on terms like symbiont-mediated evasion of host immune response and interaction with host via surface, plus associated host-modulatory processes (epithelial proliferation) and related metabolic/transcriptional regulation terms, the cluster appears to center on symbiotic interfaces and immune modulation rather than a single pathway. The presence of nitrogen metabolism terms suggests microbial metabolic activity linked to the symbiosis. Confidence: High","confidence":"","size":8,"edges":8,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0009405","count":4},{"id":"GO:1904797","count":3},{"id":"GO:0044044","count":3},{"id":"GO:0020012","count":3},{"id":"GO:0032024","count":3}]},{"hash":"720431476852665062","title":"Potassium Channel Regulation and Electrical Signaling","description":"The GO terms cluster around potassium channel activity regulation, membrane repolarization, and action potential generation in neural and cardiac tissues (neuronally and heart-related electrophysiology), with some developmental neural terms (optic nerve structure, globus pallidus development) that still point toward neural excitability. This suggests a cohesive theme of ion-channel\u2013driven electrical signaling in neurons and heart. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902260","count":1},{"id":"GO:0021633","count":1},{"id":"GO:0060372","count":1},{"id":"GO:0086091","count":1},{"id":"GO:0098914","count":1}]},{"hash":"1052386259585181797","title":"SRP-dependent membrane targeting and translocation","description":"Top terms point to SRP-dependent cotranslational protein targeting to the membrane (GO:0006616) and general membrane targeting (GO:0031204), indicating a cluster of proteins involved in directing nascent peptides to membranes. Additional terms related to ER stress regulation and chaperone-related processes support a role in protein quality control linked to membrane trafficking. The DNA replication term and some stress-related terms may be incidental. Overall, the core theme is membrane targeting/translocation.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0006880","count":2},{"id":"GO:0031204","count":2},{"id":"GO:0070389","count":2},{"id":"GO:1903382","count":2}]},{"hash":"876464504418939565","title":"Kinase signaling and cytoskeletal remodeling","description":"The cluster is dominated by GO terms tied to protein autophosphorylation and its regulation, calcium-dependent cell-matrix adhesion, and myosin II filament disassembly, pointing to phosphorylation-driven signaling that modulates cytoskeletal dynamics and adhesion. Contexts include brain-derived neurotrophic factor signaling and prolactin response, suggesting a broader signaling-role in neuronal and hormonal pathways, with a few terms (DNA replication and magnesium homeostasis) that may reflect broader cellular context rather than core function. Overall, a coherent theme is kinase-mediated signaling affecting cytoskeletal organization and cell interactions.","confidence":"Medium","size":8,"edges":8,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1990416","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0010961","count":1},{"id":"GO:1990637","count":1},{"id":"GO:0016340","count":1}]},{"hash":"1912360812473870585","title":"Membrane Protein Targeting and Stress Regulation","description":"This cluster is dominated by GO terms for SRP-dependent and cotranslational/post-translational targeting to membranes, pointing to a shared role in directing proteins to membranes. Several terms also describe negative regulation of stress responses and apoptotic signaling (ER stress, hydrogen peroxide\u2013related pathways), suggesting involvement in proteostasis and cellular stress control. A few other terms appear unrelated (DNA replication, fungal cell wall biosynthesis), likely reflecting annotation noise, but the membrane-targeting theme is the strongest connection.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":1},{"id":"GO:0006880","count":1},{"id":"GO:0031204","count":1},{"id":"GO:0070389","count":1},{"id":"GO:1903382","count":1}]},{"hash":"1181231476907672573","title":"Membrane Targeting and ER Stress Regulation","description":"The top GO terms center on SRP-dependent cotranslational protein targeting to membrane/translocation and related membrane targeting processes, plus several terms about negative regulation of stress responses and apoptosis. This suggests the proteins in this cluster function together in directing nascent proteins to membranes and modulating cellular stress pathways (ER stress, heat response, and hydrogen peroxide\u2013mediated signaling). Some terms appear obsolete or peripheral (e.g., DNA replication, fungal cell wall biosynthesis), likely noise, but the membrane targeting/stress-regulation theme is the strongest signal.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0006880","count":5},{"id":"GO:0031204","count":5},{"id":"GO:0070389","count":5},{"id":"GO:1903382","count":5}]},{"hash":"2030312721640790186","title":"Proteolysis","description":"This cluster is tied to the proteolysis function, as GO:0006508 appears as the top term (though with a single annotation). The absence of edges and the sole term suggest a weak, limited signal, but the shared function of proteolytic processing is the most coherent theme.","confidence":"Low","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":1}]},{"hash":"1420655106690362702","title":"Nuclear transport and ribosomal protein import","description":"The top GO terms cluster around import into the nucleus and nuclear pore-related processes\u2014nuclear pore complex assembly, NLS-bearing protein import, ribosomal protein import into the nucleus\u2014indicating a coherent theme of nuclear transport machinery and ribosome assembly pathways. Supporting terms on protein regulation and desumoylation suggest regulatory control of nuclear processes, with a few ancillary transport-related terms (intraciliary transport) contributing modestly to the broader transport theme.","confidence":"High","size":8,"edges":15,"triangles":10,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0051292","count":4},{"id":"GO:0006610","count":4},{"id":"GO:0060188","count":4},{"id":"GO:0000060","count":4}]},{"hash":"222608339561851714","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031167","count":2},{"id":"GO:0030488","count":2},{"id":"GO:0071039","count":2},{"id":"GO:0070481","count":2},{"id":"GO:0000467","count":2}]},{"hash":"879260019088422510","title":"DNA replication and genome maintenance","description":"The dominant GO terms point to core genome-copying processes (DNA replication, primer synthesis, DNA unwinding/topology) plus genome maintenance and damage control (transcription-coupled repair, SOS response). The inclusion of viral genome replication aligns with replication-related functions. Together, these terms indicate a cluster of proteins involved in DNA replication and genome maintenance/repair.","confidence":"High","size":8,"edges":13,"triangles":9,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0019079","count":3},{"id":"GO:0006269","count":3},{"id":"GO:0006363","count":3},{"id":"GO:0006283","count":3}]},{"hash":"2055365800763834553","title":"Cytoplasmic Translation Initiation","description":"This cluster\u2019s top GO terms overwhelmingly point to initiation of translation in the cytoplasm and the assembly/regulation of translation preinitiation complexes (e.g., regulation of translational initiation, formation of translation preinitiation complex, cytoplasmic translation). Some terms also touch on viral initiation and reinitiation, which still fit the broader theme of initiation control in protein synthesis. A few unrelated terms (e.g., blastocyst formation) likely reflect incidental associations rather than core cluster function. Overall, the dominant signal is initiation of cytoplasmic translation, justifying this label.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0075522","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0002188","count":2}]},{"hash":"182371466636915278","title":"Ribosome Biogenesis and Translation","description":"The dominant GO terms are translation, ribosomal large subunit biogenesis, maturation of SSU-rRNA, and export of the large subunit from the nucleus, which together indicate the cluster centers on ribosome assembly and protein synthesis. A few metabolic terms are present but with low frequency and likely incidental. ","confidence":"High","size":8,"edges":7,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0042273","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0000055","count":1},{"id":"GO:0006097","count":1}]},{"hash":"2130223525096735558","title":"Bacterial cell division and envelope biosynthesis","description":"The top GO terms span both cell division/cell cycle (cell division, cell cycle, negative regulation of cell division) and envelope-associated processes (lipopolysaccharide biosynthesis, flagellum organization, SRP-dependent targeting to membrane). This combination points to proteins involved in bacterial growth regulation and envelope assembly/membrane targeting, with a few general metabolic terms that are less central to the cluster\u2019s core theme. Hence a label focusing on division and envelope biosynthesis.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0009236","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0044781","count":1},{"id":"GO:0018108","count":1},{"id":"GO:0009103","count":1}]},{"hash":"1924987283408827582","title":"Nucleobase Transport","description":"The GO terms show repeated transport of purine and pyrimidine bases (adenine, guanine, hypoxanthine, xanthine, uracil) across membranes, plus urate and related transmembrane transport, forming a coherent theme of nucleobase/nucleotide import/export. A few translation initiation terms appear, which may reflect multifunctional proteins or annotation overlap, but the dominant pattern points to nucleobase transport.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":2},{"id":"GO:0015747","count":1},{"id":"GO:0070904","count":1},{"id":"GO:0098710","count":1},{"id":"GO:0035344","count":1}]},{"hash":"502904032757273491","title":"Nutrient-Responsive Transcription Regulation","description":"This cluster is dominated by GO terms describing positive regulation of transcription from RNA polymerase II under various nutrient or metabolic conditions (different carbon sources, nitrogen catabolite activation, oleic acid), along with broader DNA-templated transcription and regulatory responses such as cellular respiration. This suggests proteins primarily function as transcriptional regulators responding to nutrient signals, including NCR pathways and related growth responses.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1901714","count":1},{"id":"GO:0061414","count":1},{"id":"GO:1901717","count":1},{"id":"GO:2001278","count":1},{"id":"GO:0061429","count":1}]},{"hash":"1849290288496904700","title":"Unknown","description":"The top GO terms span a wide and unrelated set of processes (homooligomerization, multicellular and flower development, circadian rhythm regulation, B cell signaling, chromosome passenger complex localization, and assorted ubiquitination processes), with no clear common function tying the proteins together. This appears to be a mixed cluster rather than a cohesive pathway or function.","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0007275","count":2},{"id":"GO:0042752","count":2},{"id":"GO:0009911","count":2},{"id":"GO:0050853","count":2}]},{"hash":"1386606304024278943","title":"RNA splicing and translation regulation","description":"The GO terms cluster around mRNA splicing (spliceosome, splice site recognition, splicing via spliceosome) and translation initiation regulation (eIF4F assembly, miRNA silencing, translational initiation control), plus mRNA export, indicating a cohesive role in post-transcriptional RNA processing and gene expression regulation.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035278","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0075522","count":1},{"id":"GO:0048026","count":1},{"id":"GO:1903586","count":1}]},{"hash":"450463708937248485","title":"Unknown","description":"The top GO terms cover a broad mix of stress responses, lipid-derived signaling, xenobiotic and hormone-related metabolism, metal ion response, and reproductive/developmental processes, with no clear shared biological function tying all eight proteins together. Because there isn\u2019t a unifying theme across the terms, a cohesive, intuitive function label cannot be assigned.","confidence":"","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0035902","count":2},{"id":"GO:0031408","count":1},{"id":"GO:0017143","count":1},{"id":"GO:0010268","count":1},{"id":"GO:0071280","count":1}]},{"hash":"1442839739259277645","title":"Unknown","description":"The terms cover retina vasculature development, oxylipin and calcitriol biosynthesis, insecticide metabolism, metal ion response, and reproductive/developmental processes with no shared, cohesive function across all terms. There isn\u2019t a clear unifying theme to assign a specific label beyond Unknown. ","confidence":"","size":8,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0061298","count":6},{"id":"GO:0031408","count":5},{"id":"GO:0017143","count":5},{"id":"GO:0010268","count":5},{"id":"GO:0071280","count":5}]},{"hash":"274885861674649821","title":"Unknown","description":"These proteins touch a wide array of GO terms spanning lipid-derived signaling (oxylipin biosynthesis), xenobiotic/metabolic processes (insecticide metabolism), plant hormone/homeostasis (brassinosteroid), metal ion response (copper), reproductive processes (maternal parturition), tissue growth (prostate gland), vitamin D synthesis (calcitriol), methylation, and even obsolete oxidative reactions. With only one-term assignments and no obvious shared pathway or functional theme, there is no cohesive function uniting the cluster. Therefore the cluster is best labeled Unknown.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031408","count":1},{"id":"GO:0017143","count":1},{"id":"GO:0010268","count":1},{"id":"GO:0071280","count":1},{"id":"GO:0060137","count":1}]},{"hash":"893769182120146288","title":"Septin Ring Assembly and Cytokinesis","description":"The top GO terms center on septin ring assembly, bud neck organization, mitotic cytokinesis, and exit from mitosis, pointing to a core role in cytokinesis and cell polarity scaffolding; additional terms about cell polarity and embryonic cell shape align with septin-mediated organization, while a few outliers (chloroplast targeting, Hedgehog pathway) are less central.","confidence":"High","size":8,"edges":10,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000921","count":1},{"id":"GO:0010458","count":1},{"id":"GO:0045036","count":1},{"id":"GO:0000281","count":1},{"id":"GO:0032186","count":1}]},{"hash":"840450402754034678","title":"Unknown","description":"This set of GO terms spans immune signaling, circadian regulation, plant development, mitosis, and various ubiquitination and RNA modification processes, with no single coherent functional theme. Therefore a cohesive, representative label cannot be assigned.","confidence":"","size":8,"edges":8,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0002467","count":4},{"id":"GO:0042752","count":3},{"id":"GO:0009911","count":3},{"id":"GO:0035853","count":3}]},{"hash":"1121268736022065354","title":"Drosophila Eye and Imaginal Disc Morphogenesis","description":"The dominant GO terms point to imaginal disc fusion, thorax closure, and the second mitotic wave in compound eye morphogenesis, plus R3/R4 cell fate commitment and cuticle pigmentation\u2014clear hallmarks of Drosophila developmental morphogenesis. Other terms like locomotor rhythm and muscle stretch hint at broader insect physiology, but the core signal is developmental patterning in imaginal discs and eye formation. Therefore a concise label focusing on eye/imaginal disc morphogenesis captures the cluster.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0036091","count":4},{"id":"GO:0046529","count":3},{"id":"GO:0016330","count":3},{"id":"GO:0035994","count":3},{"id":"GO:2000693","count":3}]},{"hash":"1655642071925403388","title":"Ubiquitin-Proteasome Degradation","description":"These proteins are enriched for ubiquitin-dependent protein catabolic processes, including SCF-dependent proteasomal degradation and polyubiquitination, pointing to a cluster focused on ubiquitin-mediated protein turnover. Additional terms indicate cellular stress responses to metals and cell cycle/DNA replication regulation, suggesting links between proteostasis and stress signaling, but the dominant theme is ubiquitin tagging and proteasomal degradation.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:1903378","count":4},{"id":"GO:0031571","count":4},{"id":"GO:0031146","count":4},{"id":"GO:0071276","count":4}]},{"hash":"2751268275691768","title":"Neuronal axon growth signaling","description":"This cluster centers on signaling pathways that promote neurite extension and pathfinding: axon regeneration and retinal ganglion cell axon guidance appear in the top terms, and receptor tyrosine kinase signaling (KIT, collagen-activated RTKs) with downstream STAT phosphorylation and focal adhesion regulation support growth and attachment dynamics. While some terms involve cytokine production, the dominant pattern is growth-factor\u2013driven axon growth and guidance.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":7},{"id":"GO:0010954","count":7},{"id":"GO:0038162","count":7},{"id":"GO:0032633","count":7},{"id":"GO:0045425","count":7}]},{"hash":"915935727811642689","title":"Innate Immune Signaling and NF-kappaB","description":"The top GO terms emphasize innate immune response and NF-kappaB transcription factor activity, with accompanying signals like interleukin-4 production and erythropoietin-mediated signaling, suggesting a functional theme around immune signaling. A few terms relate to cell-cycle processes and microtubule localization, which may reflect multifunctional proteins or annotation noise, but the dominant signal points to immune signaling. Medium","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0035372","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0048680","count":2},{"id":"GO:0007095","count":2}]},{"hash":"1094305605348458382","title":"Unknown","description":"The top terms are highly heterogeneous, including oxylipin biosynthesis, insecticide metabolism, plant brassinosteroid homeostasis, copper response, mammalian parturition, prostate growth, calcitriol biosynthesis, methylation, and other unrelated processes. There is no clear shared function or pathway that ties these proteins together, so a cohesive, specific label cannot be assigned.","confidence":"","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031408","count":1},{"id":"GO:0017143","count":1},{"id":"GO:0010268","count":1},{"id":"GO:0071280","count":1},{"id":"GO:0060137","count":1}]},{"hash":"1066925259941506233","title":"Regulated Signaling in Immune and Developmental Processes","description":"The top GO terms point to broad regulatory signaling and transcriptional control across immune-related contexts (erythropoietin signaling, IL-4 production, GM-CSF production) and developmental processes (cardiac neural crest development), plus cell-cycle regulation and NFAT signaling. This suggests a cluster centered on regulation of signaling and gene expression rather than a single specific pathway, justifying a general but precise label focused on regulated signaling in immune and developmental contexts.","confidence":"Medium","size":8,"edges":20,"triangles":18,"max_degree":6,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":8},{"id":"GO:0007095","count":8},{"id":"GO:0000320","count":8},{"id":"GO:0010954","count":8},{"id":"GO:0038162","count":8}]},{"hash":"444516516457388001","title":"Proteostasis and Protein Quality Control","description":"The top GO terms cluster around handling of misfolded proteins, including cellular response to misfolded protein, ubiquitin/proteasome\u2013ERAD pathways, proteasomal degradation, and inclusion body assembly, plus regulation of ubiquitin ligase activity (SCF) and protein turnover. While there are a few terms touching on transcription and vesicle transport, the dominant signal is maintaining protein homeostasis under stress, supporting a proteostasis-focused label.","confidence":"Medium","size":8,"edges":19,"triangles":16,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051260","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0071218","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0032979","count":4}]},{"hash":"1951230377749386258","title":"DNA Damage Response and Transcription Regulation","description":"The dominant signals are transcription-related GO terms (DNA-templated transcription; positive regulation of transcription by RNA Pol II) and DNA damage/repair signaling (regulation of DNA damage response via p53 mediator), plus cell-cycle control (negative regulation of G1/S transition). The presence of negative regulation of protein kinase activity and unfolded protein response suggests broader stress signaling and proteostasis involvement. Together, these terms indicate a cluster centered on stress-induced transcription regulation and DNA damage\u2013driven cell-cycle checkpoints.","confidence":"Medium","size":8,"edges":6,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006469","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0045944","count":4},{"id":"GO:2000134","count":4},{"id":"GO:0070389","count":4}]},{"hash":"1166006496214654775","title":"Unknown","description":"Top GO terms are scattered across development (forebrain, axis specification, sprouting angiogenesis), cell cycle and apoptosis (mitosis without cytokinesis, anoikis, nurse cell apoptotic), stress and xenobiotic responses, and even plant-specific glucosinolate metabolism, with no cohesive theme. With zero edges linking the proteins, there is no clear functional module to label, so Unknown is the best descriptor.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048146","count":1},{"id":"GO:0019760","count":1},{"id":"GO:0002040","count":1},{"id":"GO:0030900","count":1},{"id":"GO:0008069","count":1}]},{"hash":"199793537548082770","title":"Unknown","description":"The listed GO terms span immune signaling, chromatin localization, plant tropisms, and ubiquitination, with no clear shared function linking the proteins; no coherent theme emerges to define a specific cluster name.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0071169","count":2},{"id":"GO:0043380","count":1},{"id":"GO:0009958","count":1},{"id":"GO:0045497","count":1}]},{"hash":"555542622199443813","title":"RNA Pol II Transcription Regulation","description":"Most top GO terms describe regulation of transcription by RNA polymerase II (e.g., negative regulation of transcription by Pol II, regulation of transcription preinitiation complex assembly, carbon catabolite activation of Pol II transcription). A few terms are obsolete or less directly related (histone acetylation, nucleosome mobilization, photomorphogenesis, cellular respiration, apoptosis in bone marrow cells). Despite no interaction edges, the common theme is transcriptional control by RNA Pol II, justifying this label as representative of the cluster\u2019s function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0043966","count":1},{"id":"GO:0043457","count":1},{"id":"GO:0045898","count":1},{"id":"GO:0042766","count":1}]},{"hash":"610729071773316219","title":"Immune and developmental signaling regulators","description":"This cluster\u2019s terms center on regulation of signaling in immune/hematopoietic contexts (IL-4 production, GM-CSF production, erythropoietin signaling, negative regulation of NFAT signaling) and development (cardiac neural crest development). There are additional regulatory themes around transcription and cell cycle signaling, suggesting a broader regulatory role in signaling during immune/hematopoietic processes and development. Confidence: Medium","confidence":"","size":8,"edges":24,"triangles":36,"max_degree":7,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":8},{"id":"GO:0007095","count":8},{"id":"GO:0000320","count":8},{"id":"GO:0010954","count":8},{"id":"GO:0038162","count":8}]},{"hash":"1343504918943732891","title":"Immune Cytokine and Developmental Signaling","description":"The top GO terms point to immune and growth factor\u2013related signaling (IL-4 production, GM-CSF production, erythropoietin signaling) alongside development and regulatory processes (axon regeneration, cardiac neural crest\u2013related heart development, transcriptional regulation, and cell-cycle checkpoints). This spread suggests a cluster of proteins involved in broad signaling regulation across immune, neural, and developmental contexts rather than a single pathway, so a label emphasizing immune cytokine signaling together with developmental regulation seems appropriate.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":8},{"id":"GO:0007095","count":8},{"id":"GO:0000320","count":8},{"id":"GO:0010954","count":8},{"id":"GO:0038162","count":8}]},{"hash":"541532628260278083","title":"Wnt and Hippo Signaling in Neural Development","description":"This cluster centers on developmental signaling pathways and neural growth-related processes. The top GO terms emphasize positive regulation of canonical Wnt signaling and Hippo signaling, forebrain development, and axon regeneration, pointing to a theme of signaling-driven neural development. Additional terms related to apoptosis and cell-cycle control suggest coordinated regulation of cell fate and proliferation during development. While some terms are broader or less directly linked (e.g., keratinocyte differentiation), the dominant signal supports a neural development and growth theme.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0090263","count":8},{"id":"GO:0030900","count":8},{"id":"GO:0035329","count":8},{"id":"GO:0006915","count":8},{"id":"GO:0030216","count":8}]},{"hash":"1658555585483077441","title":"Regulation of signaling and transcription","description":"In this cluster, the top GO terms are dominated by regulatory processes across diverse contexts: positive regulation of various signaling pathways (erythropoietin, IL-4, GM-CSF), developmental signaling (cardiac neural crest in heart development), immune-related production, and regulation of transcription from RNA polymerase II. Although the proteins lack direct interaction edges in the network, the shared theme is modulation of signaling and gene expression rather than a single specific pathway. This supports a label focused on regulatory roles in signaling and transcription.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":8},{"id":"GO:0007095","count":8},{"id":"GO:0000320","count":8},{"id":"GO:0010954","count":8},{"id":"GO:0038162","count":8}]},{"hash":"1774213121921439322","title":"Innate Immune Signaling Regulation","description":"The cluster\u2019s terms are dominated by immune signaling modulation, including positive/negative regulation of innate pathways (RIG-I, MDA-5), cytokine production, and chemotaxis of dendritic and neutrophil cells, pointing to coordinated immune response regulation. A few terms touch general signaling (PI3K/AKT) and cell spreading, suggesting broader signaling control in immune contexts, while one term on ribosome assembly may be incidental. Overall, a plausible theme is regulation of innate immune signaling and immune cell recruitment.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051897","count":1},{"id":"GO:2000510","count":1},{"id":"GO:0014065","count":1},{"id":"GO:0090023","count":1},{"id":"GO:0042256","count":1}]},{"hash":"1010977593997086114","title":"RNA Pol II/III Transcription Initiation Regulation","description":"The cluster's top GO terms center on regulation of transcription initiation by RNA polymerase II and III, plus preinitiation complex assembly, with a SMAD signaling term linking to transcriptional control; together they point to a transcription-focused module rather than other processes.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060261","count":1},{"id":"GO:0045945","count":1},{"id":"GO:0060395","count":1},{"id":"GO:0007329","count":1},{"id":"GO:0075297","count":1}]},{"hash":"10141114802016175","title":"Organ Development and Cell Cycle Regulation","description":"The top GO terms cluster around organ development (brain, lung, kidney) with a related cell-cycle state transition (G1 to G0) and translation regulation, suggesting a theme of developmental programs coupled with growth control across tissues. Some terms are obsolete, but the core signal points to multilayer developmental processes tied to cell-cycle regulation.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0070689","count":1},{"id":"GO:0007420","count":1},{"id":"GO:0017148","count":1},{"id":"GO:0030324","count":1},{"id":"GO:1902074","count":1}]},{"hash":"917587224144408036","title":"Nutrient transport and growth responses","description":"The GO terms cluster around transport processes (ammonium and carbon dioxide transport), energy production (proton motive force-driven ATP synthesis), and growth/morphogenesis in response to nutrient conditions (invasive growth under glucose limitation, pseudohyphal growth). Even the signaling and detox terms can relate to adapting metabolism under stress. Together, they suggest a theme of resource acquisition and growth adaptation under nutrient stress. ","confidence":"Medium","size":8,"edges":9,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0046685","count":2},{"id":"GO:0052046","count":2},{"id":"GO:0035335","count":2},{"id":"GO:0015986","count":1},{"id":"GO:0072488","count":1}]},{"hash":"1526614868454390131","title":"Ion transport and synaptic regulation","description":"The top GO terms converge on ion transport across membranes (sodium, potassium, manganese, mitochondrial calcium) and neural signaling processes such as long-term synaptic depression and cell communication, suggesting a focus on ion homeostasis and synaptic modulation. Peripheral terms like cell adhesion and vitamin K response exist but do not override the dominant theme. This yields a coherent label with moderate confidence due to some functional heterogeneity.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0071307","count":1},{"id":"GO:1904209","count":1},{"id":"GO:0007155","count":1},{"id":"GO:0008283","count":1},{"id":"GO:0097369","count":1}]},{"hash":"1482050848569702582","title":"rRNA Processing and Translation Regulation","description":"The top terms cluster around maturation and processing of rRNA (notably SSU-rRNA) and translation-related processes, including translational elongation and regulation of translation, with some transcription elongation/DNA-damage response associations. This suggests the proteins function together in ribosome biogenesis and control of protein synthesis, rather than a single signaling pathway, justifying a label focused on rRNA processing and translation regulation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":1},{"id":"GO:0000469","count":1},{"id":"GO:0006414","count":1},{"id":"GO:0090262","count":1},{"id":"GO:2000232","count":1}]},{"hash":"1845956476608835959","title":"Drosophila sensory organ and CNS development","description":"Several top GO terms point to development of sensory organs (antennae, compound eye) and central nervous system, with associated segmentation and muscle development, suggesting this cluster reflects broad insect developmental programs focused on sensory organ and neural formation. A few terms (pinocytosis, mitochondrial fragmentation) are more general and do not override the main developmental theme.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007379","count":1},{"id":"GO:0007469","count":1},{"id":"GO:1902064","count":1},{"id":"GO:0021556","count":1},{"id":"GO:0048749","count":1}]},{"hash":"930197767921228400","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":8,"triangles":0,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006986","count":3},{"id":"GO:0045454","count":3},{"id":"GO:0006458","count":3},{"id":"GO:0090084","count":3},{"id":"GO:1901621","count":3}]},{"hash":"337125999518312091","title":"Neural development and Schwann cell myelination","description":"This cluster is dominated by GO terms related to nervous system development and glial differentiation, notably myelination (GO:0042552) and Schwann cell differentiation (GO:0014037), along with neuroblast development (GO:0014019). While there are a few broader developmental terms (wing disc pattern formation, epidermis development regulation) that suggest additional roles, the strongest signal centers on neural development and peripheral glial myelination. Confidence: Medium","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":1},{"id":"GO:0035222","count":1},{"id":"GO:0014037","count":1},{"id":"GO:0014019","count":1},{"id":"GO:0016480","count":1}]},{"hash":"1972850738693615847","title":"Cofactor Biosynthesis and Energy Metabolism","description":"The terms point to biosynthesis of cofactors such as ubiquinone, phylloquinone, cobalamin, and vitamin E, along with related metabolic processes like polyamine biosynthesis and aerobic respiration. A few aging-related annotations appear, but the shared theme is cofactor production and energy-related metabolism.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001300","count":1},{"id":"GO:0090398","count":1},{"id":"GO:0009060","count":1},{"id":"GO:0035572","count":1},{"id":"GO:0010189","count":1}]},{"hash":"907624845154240460","title":"Vesicle trafficking and exocytosis","description":"This cluster\u2019s top GO terms center on vesicle docking and tethering, and transport from the Golgi to the plasma membrane, plus protein targeting to membranes, pointing to a shared role in vesicle trafficking and exocytosis. Some terms (paraxial mesoderm formation, meiosis cytokinesis, pollen acceptance, seed mucilage biosynthesis) appear unrelated contextually, suggesting the dominant signal is vesicle transport rather than a single cohesive developmental process. Confidence: Medium","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006904","count":1},{"id":"GO:0006612","count":1},{"id":"GO:0048341","count":1},{"id":"GO:0006893","count":1},{"id":"GO:0050803","count":1}]},{"hash":"1583155687123801108","title":"Lignan Biosynthesis and Catabolism","description":"The dominant GO terms describe lignan biosynthesis and catabolic processes (secoisolariciresinol, pinoresinol, lariciresinol) with an additional related anthocyanin biosynthetic term, indicating a plant secondary metabolism module centered on lignan synthesis and turnover. Other metabolism terms appear incidental.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001081","count":1},{"id":"GO:1902138","count":1},{"id":"GO:1902125","count":1},{"id":"GO:1902135","count":1},{"id":"GO:0009718","count":1}]},{"hash":"1201882927941560346","title":"CNS axon guidance and neural morphogenesis","description":"The GO terms center on neural development and connectivity: axon fasciculation and guidance (retinal ganglion, CNS projection neurons, corpus callosum), Rho-mediated cytoskeletal dynamics, dendritic spine morphogenesis, and cell-matrix adhesion, plus apoptotic cell clearance by glia. These collectively point to wiring and morphogenesis of CNS neurons rather than broad metabolic functions, with angiogenesis as a related developmental process in the CNS environment. Confidence: High","confidence":"","size":7,"edges":18,"triangles":21,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0097156","count":2},{"id":"GO:0022038","count":2},{"id":"GO:1901214","count":2},{"id":"GO:0001525","count":2}]},{"hash":"586826180478162265","title":"Synaptic actin remodeling and vesicle trafficking","description":"The cluster includes GO terms for actin dynamics (actin filament fragmentation, actin cortical patch assembly), synapse assembly and plasticity (synapse assembly, positive regulation of synaptic plasticity), and membrane trafficking (Golgi to plasma membrane transport, receptor-mediated endocytosis), suggesting a cohesive theme of actin-driven remodeling linked to vesicle trafficking at synapses.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":2},{"id":"GO:0071800","count":1},{"id":"GO:0031915","count":1},{"id":"GO:0043001","count":1},{"id":"GO:0051511","count":1}]},{"hash":"115615112420981369","title":"DNA Damage Response and Repair","description":"This cluster centers on DNA metabolism and stress-related processes, with terms like nucleotide-excision repair, SOS response, and regulation of transcription tied to DNA-templated processes, suggesting a theme of maintaining genome integrity under stress. While some terms appear unrelated (e.g., tropism, memory T cell regulation), the dominant signal is DNA damage response and repair.","confidence":"Medium","size":7,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030420","count":1},{"id":"GO:0019538","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0006289","count":1},{"id":"GO:0006351","count":1}]},{"hash":"2140781100136932069","title":"Golgi-ER and synaptic vesicle trafficking","description":"The top GO terms point to intracellular membrane trafficking centered on the Golgi and vesicle movement, including ER-to-Golgi transport, Golgi-to-vacuole transport, endocytosis, retrograde/anterograde trafficking, and synaptic vesicle budding/transport, suggesting a cohesive role in vesicle trafficking and Golgi-associated pathways.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051645","count":1},{"id":"GO:0009615","count":1},{"id":"GO:0016185","count":1},{"id":"GO:1901998","count":1},{"id":"GO:0006888","count":1}]},{"hash":"148187262156714102","title":"RNA splicing and translation regulation","description":"The terms cluster around RNA processing (spliceosome components, splice site recognition, mRNA export) and post-transcriptional regulation of gene expression (miRNA silencing, translational initiation, eIF4F assembly), suggesting a cohesive role in RNA maturation and control of translation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035278","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0075522","count":1},{"id":"GO:0048026","count":1},{"id":"GO:1903586","count":1}]},{"hash":"807814483305912087","title":"Neural and vascular development","description":"This cluster centers on developmental processes in neural and vascular contexts, with terms like interneuron migration, sprouting angiogenesis, trabecula morphogenesis, and endothelial barrier establishment suggesting coordinated growth/remodeling of neural and vascular tissues. Other terms (protein transmembrane transport, reticulophagy, copper homeostasis) reflect supporting cellular maintenance that accompanies development, supporting the overall theme rather than a single specific pathway. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061383","count":1},{"id":"GO:0021830","count":1},{"id":"GO:0010514","count":1},{"id":"GO:0061028","count":1},{"id":"GO:0071806","count":1}]},{"hash":"1013673168492426128","title":"ERAD and Proteostasis Regulators","description":"The top GO terms point to ubiquitin-dependent processes (protein autoubiquitination; ERAD) and ER-associated functions (tail-anchored membrane protein insertion into the ER, protein localization to the nuclear pore), complemented by regulators of autophagy, ER stress-induced apoptotic signaling, and aggresome assembly. This suggests a cohesive theme of protein quality control, proteostasis, and ER membrane handling, with ancillary links to calcium signaling and nuclear transport. Overall, the cluster seems to center on ubiquitin-mediated degradation and ER quality control rather than a single isolated function.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":7},{"id":"GO:0030433","count":7},{"id":"GO:0070911","count":7},{"id":"GO:0090204","count":6},{"id":"GO:1901340","count":6}]},{"hash":"1273738797516898480","title":"Th2 Immune Differentiation and Antigen Presentation","description":"Based on GO terms, the strongest signals are for interleukin-4 response, T-helper 2 cell differentiation, and MHC class II biosynthesis, which together point to a Th2-skewed immune response and antigen presentation. Other terms about transcriptional regulation and various differentiations appear but are less central. This label best captures the dominant immune-focused theme of the cluster.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":4},{"id":"GO:0045348","count":3},{"id":"GO:0071353","count":3},{"id":"GO:0045064","count":3},{"id":"GO:0030318","count":2}]},{"hash":"921437835493696276","title":"Cytokine Signaling and Immune Regulation","description":"The top GO terms are dominated by cytokine-related processes (interleukin-4 production, granulocyte macrophage colony-stimulating factor production, erythropoietin-mediated signaling), indicating a core theme of cytokine signaling and immune response regulation. While there are additional terms touching on signaling cascades and mitotic regulation, the immune/cytokine signals provide a coherent, representative thread for this cluster. Confidence: Medium","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0001403","count":7},{"id":"GO:0046329","count":7},{"id":"GO:0048680","count":6},{"id":"GO:0007095","count":6},{"id":"GO:0000320","count":6}]},{"hash":"1243207109939646555","title":"Ribosome biogenesis and translation","description":"Top terms center on ribosome assembly, biogenesis, rRNA and tRNA modification, and translation, including mitochondrial translation, snoRNA splicing, and LSU rRNA maturation. This cohesive set points to a functional cluster dedicated to producing and regulating ribosomes and protein synthesis.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042256","count":1},{"id":"GO:0002127","count":1},{"id":"GO:0070475","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0006355","count":1}]},{"hash":"2256829869624349576","title":"Transmembrane Transporters for Nutrients and Xenobiotics","description":"The GO terms show transmembrane transport across a wide range of substrates (vitamins, sugars, phosphate, nitrate, sialic acid, xenobiotics), indicating a shared role as membrane transport proteins handling diverse nutrients and xenobiotics.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":6},{"id":"GO:0042891","count":6},{"id":"GO:0006855","count":6},{"id":"GO:0035435","count":3},{"id":"GO:0044381","count":3}]},{"hash":"550741767501425126","title":"Unknown","description":"GO terms among the seven proteins are diverse and only loosely connected (transport; responses to freezing and copper ion; peroxisome autophagy; tRNA modification; cell division/septum assembly), and some terms are obsolete, giving no clear shared function to name this cluster.","confidence":"","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006810","count":1},{"id":"GO:0050826","count":1},{"id":"GO:0030242","count":1},{"id":"GO:0006627","count":1},{"id":"GO:0000746","count":1}]},{"hash":"1349013207753142008","title":"Spindle assembly and microtubule dynamics","description":"These proteins are linked to microtubule-based processes central to spindle formation, chromosome alignment, and directed microtubule movement (plus/minus end dynamics, polarity maintenance, and nuclear migration). A plant-specific chloroplast movement term appears, but overall the dominant theme is spindle/microtubule organization and dynamics across mitosis/meiosis.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0051255","count":1},{"id":"GO:1990942","count":1},{"id":"GO:0009904","count":1},{"id":"GO:0070462","count":1},{"id":"GO:0051296","count":1}]},{"hash":"297694968037496543","title":"Mitochondrial import and chaperone activity","description":"Top GO terms suggest a coherent focus on mitochondrial protein handling, including chaperone-mediated assembly/folding and import into the mitochondrial intermembrane space, indicating a mitochondrial protein quality control theme. Some other terms (cell division, DNA replication, B cell functions) appear as less coherent or incidental annotations. Overall, the strongest signal is mitochondrial import plus chaperone activity.","confidence":"Medium","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0051131","count":4},{"id":"GO:0045041","count":4},{"id":"GO:0006260","count":3},{"id":"GO:0071866","count":3}]},{"hash":"1589831678670724997","title":"Ribosome Biogenesis and Translational Regulation","description":"This cluster centers on translation and ribosome biology, with strong signals for translation, ribosome biogenesis, and fidelity, plus RNA maturation; some virus/antibiotic responses may reflect translation-linked stress.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0042254","count":3},{"id":"GO:0006417","count":2},{"id":"GO:1990145","count":2},{"id":"GO:0045903","count":2}]},{"hash":"847213008411711160","title":"Unknown","description":"The set of terms includes sporulation, heterocyst development, and bacterial flagellum-based motility typical of bacteria, but also plant ethylene signaling and animal immune responses, plus tetrapyrrole linkage and broad stimulus detection. There is no single, coherent biological function that ties all seven proteins together, suggesting annotation noise or a heterogeneous cluster rather than a clear shared pathway.","confidence":"","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0017006","count":1},{"id":"GO:0030435","count":1},{"id":"GO:0045793","count":1},{"id":"GO:0043158","count":1},{"id":"GO:0051606","count":1}]},{"hash":"521368523458279736","title":"Unknown","description":"The GO terms are highly diverse, spanning translation, rRNA processing, signaling pathways (erythropoietin, IL-4, GM-CSF), and cell-cycle regulations, with little evidence of a shared function binding the proteins. This scattered functional set makes it unlikely there is a single cohesive theme for the cluster.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0000448","count":1},{"id":"GO:0048680","count":1},{"id":"GO:0007095","count":1},{"id":"GO:0000320","count":1}]},{"hash":"674648242038739465","title":"Developmental differentiation and tissue morphogenesis","description":"These terms cluster around developmental processes across tissues and species, including head and neural differentiation, nephron/tubule and duct development, plant ovule morphogenesis, and accompanying cytoskeletal and cell\u2013cell junction activities that shape tissues.","confidence":"Medium","size":7,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:2000744","count":2},{"id":"GO:0021527","count":2},{"id":"GO:0097067","count":2},{"id":"GO:0030032","count":2},{"id":"GO:2000768","count":2}]},{"hash":"1032199626400931126","title":"Unknown","description":"There are no GO terms provided to identify a shared function, and with 7 proteins, 6 edges, and no clear pattern (no triangles), a common theme cannot be determined.","confidence":"","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[]},{"hash":"2164047162379586675","title":"Drosophila Egg Chamber Polarity and Chorion Chitin","description":"The terms point to follicular epithelium polarity and adhesion within the Drosophila egg chamber, plus chitin biosynthesis and cell wall organization consistent with eggshell (chorion) formation. Cytoskeletal dynamics (actomyosin contractile ring) and division-related terms further support morphogenesis during oogenesis. Despite one or two general/obsolete terms, the dominant theme is insect egg chamber development and chorion/chitin synthesis.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042248","count":2},{"id":"GO:0001744","count":2},{"id":"GO:0000918","count":2},{"id":"GO:0007299","count":2},{"id":"GO:0006031","count":2}]},{"hash":"1901527574843836260","title":"Unknown","description":"The terms span both plant-specific metabolic/hormonal processes (oxylipin and brassinosteroid pathways) and animal development and detoxification (insecticide metabolism, copper response, parturition, prostate growth, calcitriol synthesis, methylation) with no clear single function tying all proteins together, so there\u2019s no coherent label to represent the cluster beyond Unknown.","confidence":"","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0031408","count":2},{"id":"GO:0017143","count":2},{"id":"GO:0010268","count":2},{"id":"GO:0071280","count":2},{"id":"GO:0060137","count":2}]},{"hash":"1603523135330844727","title":"Unknown","description":"The GO terms are scattered across diverse processes (circadian rhythm regulation, plant development, B cell signaling, spindle localization in mitosis, ubiquitination regulation, tRNA modification, protein oligomerization, etc.), with no clear unifying function. This suggests no coherent shared role among the proteins, so a meaningful cluster label cannot be determined.","confidence":"","size":7,"edges":8,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042752","count":1},{"id":"GO:0009911","count":1},{"id":"GO:0050853","count":1},{"id":"GO:0035853","count":1},{"id":"GO:0031397","count":1}]},{"hash":"367374585534743737","title":"Growth factor and cytokine signaling","description":"The top terms cluster around regulation of signaling pathways driven by growth factors (e.g., erythropoietin signaling) and cytokines (IL-4 and GM-CSF production), with related NFAT/calcium signaling and broad developmental signals. This suggests a common theme of signaling regulation rather than a single, tight function, though the mix is somewhat broad due to diverse roles of the proteins. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":7},{"id":"GO:0007095","count":7},{"id":"GO:0000320","count":7},{"id":"GO:0010954","count":7},{"id":"GO:0038162","count":7}]},{"hash":"1164108765647455937","title":"Aminoacyl-tRNA Synthetases","description":"The cluster is enriched for tRNA aminoacylation (LeuRS, MetRS, IleRS, ValRS) and translation-related terms, indicating these proteins function in charging tRNAs and supporting protein synthesis; developmental GO terms are present but much less represented, so the core theme is translation machinery.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":2},{"id":"GO:0008585","count":2},{"id":"GO:0006429","count":2},{"id":"GO:0006431","count":2},{"id":"GO:0006428","count":2}]},{"hash":"1122789069981977854","title":"Developmental and immune signaling regulation","description":"This cluster includes GO terms spanning developmental signaling (e.g., cardiac neural crest development, axon regeneration) and immune/cytokine regulation (erythropoietin signaling, IL-4 and GM-CSF production) as well as NFAT signaling, suggesting a theme of broader signaling regulation across development and immune contexts rather than a single pathway.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":7},{"id":"GO:0007095","count":7},{"id":"GO:0000320","count":7},{"id":"GO:0010954","count":7},{"id":"GO:0038162","count":7}]},{"hash":"191910783201610065","title":"Unknown","description":"The set includes terms about axon regeneration (neural), cell cycle checkpoints and mitotic entry, multiple cytokine production pathways (IL-4, GM-CSF), erythropoietin signaling, and NFAT regulation; the functions are diverse with no clear unifying theme, so there is no robust single-label biological function for the cluster.","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":6},{"id":"GO:0007095","count":6},{"id":"GO:0000320","count":6},{"id":"GO:0010954","count":6},{"id":"GO:0038162","count":6}]},{"hash":"514319299882709745","title":"Unknown","description":"The top GO terms are a grab bag of diverse regulatory processes: positive regulation across signaling pathways (axon regeneration, erythropoietin signaling, GM-CSF/IL-4 production), cell cycle and DNA damage checkpoint control, and development-related terms, with no single unifying function linking all proteins. Therefore, I label it Unknown with no confident representative theme.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":4},{"id":"GO:0007095","count":4},{"id":"GO:0000320","count":4},{"id":"GO:0010954","count":4},{"id":"GO:0038162","count":4}]},{"hash":"1027091453161185318","title":"ER protein folding and unfolded protein response","description":"The cluster centers on chaperone-assisted refolding, ER-specific protein folding, and responses to unfolded proteins, with ERAD as a related quality-control pathway, indicating an ER protein folding/stress response theme. Some terms (photosynthesis, transcription) are less directly connected but do not override the strong ER folding signals.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070389","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0015979","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0034975","count":3}]},{"hash":"858499493952071351","title":"Unknown","description":"The top GO terms are highly diverse, spanning immune regulation, reproductive and sensory development, protein transport and degradation, unfolded protein response, EGFR ligand maturation, and various muscle- and heart-related processes. There is no single coherent function or pathway tying these proteins together, so a specific functional label cannot be inferred. ","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032815","count":1},{"id":"GO:0048515","count":1},{"id":"GO:0042676","count":1},{"id":"GO:0035311","count":1},{"id":"GO:1904211","count":1}]},{"hash":"123028310512292455","title":"Quinone Biosynthesis and Central Metabolism","description":"The top GO terms point to biosynthesis of quinone cofactors (menaquinone and phylloquinone) alongside central metabolic processes like glycolysis, TCA cycle, fatty acid beta-oxidation, and amino acid catabolism, suggesting a cohesive cluster of proteins involved in energy metabolism and cofactor production. Some antibiotic biosynthesis term appears, but the dominant theme remains metabolism and quinone biosynthesis.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":3},{"id":"GO:0010124","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0042372","count":3},{"id":"GO:0006574","count":3}]},{"hash":"1539458390469446279","title":"Developmental and immune signaling","description":"This cluster centers on regulation of signaling pathways across development (neural crest/axonal development, cardiac development) and immune/hematopoietic contexts (erythropoietin signaling, IL-4 and GM-CSF production), with additional regulation of transcription and cell cycle checkpoints, suggesting a broad theme of developmental and immune signaling regulation rather than a single pathway.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":6},{"id":"GO:0007095","count":6},{"id":"GO:0000320","count":6},{"id":"GO:0010954","count":6},{"id":"GO:0038162","count":6}]},{"hash":"196509801751536679","title":"Heart and blood vessel development","description":"The cluster\u2019s top GO terms center on cardiovascular biology: heart development, cardiac muscle contraction, and angiogenesis, which together point to cardiovascular development and function. Some terms appear as outliers (otic vesicle formation, ABA signaling, excitatory postsynaptic potential) likely due to broad or cross-species annotations, but the dominant theme supports a cardiovascular development label.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0043065","count":2},{"id":"GO:0030916","count":2},{"id":"GO:0000147","count":2},{"id":"GO:0001525","count":2}]},{"hash":"1313700397166212597","title":"Ribosome Biogenesis and Translation Initiation","description":"The cluster is dominated by GO terms related to translation and ribosome assembly (translation, maturation of LSU-rRNA, ribosome initiation complex formation, ribosome assembly, and transcriptional regulation of ribosomal proteins), indicating a coherent theme around making and initiating translation machinery. The germ cell proliferation term seems unrelated noise. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0000470","count":1},{"id":"GO:0006417","count":1},{"id":"GO:0045947","count":1},{"id":"GO:0001732","count":1}]},{"hash":"1497509896834652792","title":"Glycan biosynthesis and sugar metabolism","description":"The top GO terms cluster around carbohydrate-related processes, including lipopolysaccharide and O antigen biosynthesis, UDP-N-acetylglucosamine biosynthesis, galactose catabolism, glucose-1-phosphate metabolism, and glycogen biosynthesis, along with cell wall organization. This points to a shared function in glycan assembly and sugar metabolism. Some terms (inosine/guanosine catabolism) appear less connected, and gravity detection may be an annotation artifact, but overall there is a coherent carbohydrate/glycan theme.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009590","count":1},{"id":"GO:0006148","count":1},{"id":"GO:0046115","count":1},{"id":"GO:0009103","count":1},{"id":"GO:0005978","count":1}]},{"hash":"1475016877726117931","title":"RNA Polymerase Complex Assembly and Transcription Regulation","description":"The top terms center on the assembly of RNA polymerases I\u2013III and on transcription elongation regulation by RNA polymerase II, pointing to involvement in assembling the transcription machinery and modulating transcription. While there are a couple of secondary terms (protein folding, tubulin assembly), the dominant theme is RNA polymerase complex assembly and transcription control.","confidence":"High","size":7,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1990115","count":2},{"id":"GO:0032968","count":2},{"id":"GO:0006457","count":2},{"id":"GO:1990114","count":2},{"id":"GO:0007021","count":2}]},{"hash":"134838056103083742","title":"Humoral Immunity & B Cell Differentiation","description":"The top GO terms point to humoral immune response and B cell differentiation (follicular dendritic cell differentiation, marginal zone B cell differentiation, germinal center formation, humoral immune response mediated by circulating immunoglobulin). A few terms (mitochondrial respiratory chain complex IV assembly, axis specification) appear as outliers, but the dominant signal is B-cell\u2013driven humoral immunity.","confidence":"Medium","size":7,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0002268","count":1},{"id":"GO:0002315","count":1},{"id":"GO:0002467","count":1},{"id":"GO:0033617","count":1},{"id":"GO:0045082","count":1}]},{"hash":"1257257540589865810","title":"Unknown","description":"The terms span translation, responses to cycloheximide and antibiotics, metabolic regulation, muscle development, and chromatin localization, with no clear shared function linking the proteins. Therefore, a concise, representative label cannot be determined.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046898","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0046677","count":1},{"id":"GO:2001172","count":1},{"id":"GO:0090180","count":1}]},{"hash":"2231529307454763142","title":"Unknown","description":"The top GO terms are highly diverse and cover immune signaling, plant tropisms, development, and ubiquitination with little to no overlap, and there are no edges connecting the proteins, so there is no coherent shared function to name a specific cluster theme. ","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":1},{"id":"GO:0009958","count":1},{"id":"GO:0045497","count":1},{"id":"GO:0009638","count":1},{"id":"GO:0050853","count":1}]},{"hash":"1978154580323303536","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by GO terms related to ribosome production and processing (ribosome biogenesis, large subunit biogenesis/export, rRNA processing) and translation control (positive regulation of cytoplasmic translation, selenocysteine incorporation). While a few mitosis-related and differentiation terms appear, they are less representative. Overall, the common theme ties to ribosome assembly and protein synthesis.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0000447","count":1},{"id":"GO:0007080","count":1},{"id":"GO:0042273","count":1},{"id":"GO:0002244","count":1}]},{"hash":"386981603846530997","title":"Unknown","description":"There isn\u2019t a clear shared function among the two top GO terms\u2014the first concerns invasive growth in response to glucose limitation, and the second concerns regulation of protein localization to chromosomes\u2014making a coherent, specific label unsupported by the data. None","confidence":"","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:2000219","count":1},{"id":"GO:0070202","count":1}]},{"hash":"870535925442342927","title":"LDL receptor endocytosis regulation","description":"The top terms cluster around regulation of LDL receptor\u2013related processes (both positive and negative regulation of LDL particle receptor catabolic activity and related receptor-mediated endocytosis in cholesterol transport), suggesting a core theme of LDL receptor trafficking/clearance. A few other terms (zygotic axis development, sporulation, peptide processing) seem peripheral or unrelated and may reflect annotation noise or multifunctionality.","confidence":"Medium","size":7,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032805","count":3},{"id":"GO:0007354","count":3},{"id":"GO:0007323","count":3},{"id":"GO:0032804","count":3},{"id":"GO:1905598","count":3}]},{"hash":"829585786742769731","title":"Immune-responsive transcription and metabolic regulation","description":"The cluster\u2019s GO terms point to immune signaling (response to lipopolysaccharide, positive regulation of nitric-oxide synthase activity, viral process) together with transcriptional control (DNA-templated transcription) and metabolism-related regulation (PPP shunt, glycolysis, lactate). Although some terms are less cohesive (e.g., dopamine biosynthesis), the overall pattern suggests proteins involved in coordinating transcriptional responses during immune signaling with metabolic reprogramming. This supports a label focused on immune-driven transcriptional and metabolic regulation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0051000","count":2},{"id":"GO:0042416","count":2}]},{"hash":"492489005530551008","title":"Core cellular growth and biosynthesis","description":"This cluster centers on fundamental cellular growth and biosynthesis: ribosome biogenesis, tRNA modification, cell cycle/division, and basic metabolism/energy production, with chloroplast targeting indicating general protein trafficking rather than a specialized pathway.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0039707","count":2},{"id":"GO:0042254","count":2},{"id":"GO:1901001","count":2},{"id":"GO:0006400","count":2},{"id":"GO:0000747","count":2}]},{"hash":"1249533577110906576","title":"Unknown","description":"The GO terms span immune cytokine production (IL-4, GM-CSF), erythropoietin signaling, NFAT pathway regulation, developmental processes, and cell-cycle related events; there is no single clear theme to tie these proteins together, so a unified functional label is not supported.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":1},{"id":"GO:0007095","count":1},{"id":"GO:0000320","count":1},{"id":"GO:0010954","count":1},{"id":"GO:0038162","count":1}]},{"hash":"1990683621541517790","title":"Unknown","description":"The GO terms cover circadian regulation, plant development, immune signaling, mitotic localization, ubiquitination regulation, tRNA modification, receptor activity, protein oligomerization, and renal transport\u2014across diverse biological contexts. There is no clear common function or cohesive pathway linking these six proteins, so a concise, representative label cannot be confidently assigned.","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042752","count":2},{"id":"GO:0009911","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0035853","count":2},{"id":"GO:0031397","count":2}]},{"hash":"807431905516750996","title":"Chromatin remodeling and actin patch dynamics","description":"The top GO terms point to chromatin-related processes (histone acetylation, nucleosome mobilization, heterochromatin formation, regulation of gene expression) and to actin cortical patch assembly/localization, suggesting a shared theme in coordinating chromatin state with cortical actin structures. Some terms appear obsolete or unrelated, but the core signals consistently involve chromatin dynamics coupled with cytoskeletal organization.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0010628","count":3},{"id":"GO:0001300","count":3},{"id":"GO:0001895","count":3},{"id":"GO:0043981","count":3},{"id":"GO:0000001","count":3}]},{"hash":"2197565095044203992","title":"Unknown","description":"The top GO terms span immune signaling (memory T cell differentiation, B cell receptor signaling, regulation of type I interferon production) and plant development/tropisms (leaf morphogenesis, gravitropism, phototropism, female analia development), plus membrane repair and intracellular transport regulation. This mix across kingdoms and processes provides no single cohesive function for the cluster, so a neutral label with no confidence is most appropriate.","confidence":"","size":6,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":2},{"id":"GO:0060776","count":2},{"id":"GO:0009958","count":2},{"id":"GO:0001778","count":2},{"id":"GO:0045497","count":2}]},{"hash":"1199632625202328951","title":"Unknown","description":"The six proteins have a wildly diverse set of GO terms (nitroglycerin and TNT metabolism, ribosome rescue and ubiquitin-dependent degradation, mucosal immunity, and regulation of multiple signaling pathways), with no shared biological process or molecular function evident. The network is unconnected (edges/triangles all zero), so there is no cohesive function linking them. Therefore the cluster is best labeled Unknown with no confidence.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018937","count":1},{"id":"GO:0072344","count":1},{"id":"GO:0046256","count":1},{"id":"GO:1902167","count":1},{"id":"GO:1990116","count":1}]},{"hash":"2264048765770923648","title":"Autophagy Regulation via Post-Translational Modifications","description":"Dominant autophagy-related terms (macroautophagy, Cvt pathway) paired with PTM processes (lipidation, neddylation, ufmylation) suggest a cluster focused on autophagy regulation by ubiquitin-like modifications; a few unrelated terms appear but do not override the main theme.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0009228","count":1},{"id":"GO:0006501","count":1},{"id":"GO:0032258","count":1},{"id":"GO:0051726","count":1},{"id":"GO:0016236","count":1}]},{"hash":"324975953617296295","title":"EGFR Signaling and Cytoskeletal Remodeling","description":"The Top Terms cluster around epidermal growth factor receptor signaling with downstream Ras and small GTPase pathways, regulating actin cytoskeleton dynamics (filament polymerization and reorganization) and adhesion-related processes such as cell spreading and podosome assembly. Endocytosis and endosome localization are also prominent, suggesting a link between RTK signaling and receptor trafficking. Overall, these proteins likely participate in EGFR-driven signaling that coordinates cytoskeletal remodeling and endocytic processes.","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1900026","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0036010","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0046579","count":2}]},{"hash":"569478810365099121","title":"Unknown","description":"The Top Terms span membrane repair, neural synapse assembly and plasticity, apoptosis regulation, kidney and retinal development, immune signaling and B cell proliferation, and even structural components like the terminal web. With only single-term enrichments across very diverse processes and a small network, there isn't a coherent shared function to name the cluster; it appears to reflect scattered roles rather than a single biological theme.","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001778","count":1},{"id":"GO:0007416","count":1},{"id":"GO:0043065","count":1},{"id":"GO:0072286","count":1},{"id":"GO:0070498","count":1}]},{"hash":"1195476708336865998","title":"Cell division and spindle assembly","description":"The cluster is enriched for GO terms related to mitotic machinery: spindle assembly, centrosome cycle, and cytokinesis; these indicate proteins involved in cell division. Some outlier terms (sporulation, heterocyst development, and protein folding) appear, but the strongest signal centers on the cell division/spindle theme.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006457","count":2},{"id":"GO:0000911","count":1},{"id":"GO:0051225","count":1},{"id":"GO:0007098","count":1},{"id":"GO:0017006","count":1}]},{"hash":"1027028085301840135","title":"Pentose Phosphate Pathway Metabolism","description":"This cluster is best described by a central theme around the pentose phosphate pathway and related pentose metabolism, as shown by GO:0019322 (pentose biosynthetic process) and GO:0006098 / GO:0009051 (pentose-phosphate shunt and its oxidative branch). The presence of other terms (aromatic amino acid biosynthesis, protoporphyrinogen IX biosynthesis, L-alanine catabolic process) suggests related metabolic pathways linked to central carbon metabolism, with sporulation being a potential, but likely incidental, annotation. Overall, the strongest signal is pentose phosphate pathway\u2013related metabolism, with peripheral metabolic processes accompanying it. ","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0019322","count":1},{"id":"GO:0006098","count":1},{"id":"GO:0030435","count":1},{"id":"GO:0009051","count":1},{"id":"GO:0046177","count":1}]},{"hash":"1618491739859199190","title":"Neuronal proteostasis and stress response","description":"GO terms center on translation, protein quality control (unfolded protein response, aggresome assembly, ubiquitination with K48 and K11 linkages), and neuron-specific maintenance (neuron maturation, neuron cellular homeostasis, oxidative stress regulation). Together these suggest a neuronal proteostasis network that preserves protein balance and cell viability under stress, including energy and redox considerations. Thus, a concise label is neuronal proteostasis and stress response.","confidence":"Medium","size":6,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006986","count":1},{"id":"GO:0070936","count":1},{"id":"GO:0042551","count":1},{"id":"GO:0070842","count":1}]},{"hash":"1452240556326259885","title":"Pol II Transcription Elongation Regulation","description":"The GO terms are dominated by RNA polymerase II\u2013related processes, especially transcription elongation by Pol II and the regulation of Pol II transcription preinitiation complex assembly, with additional signals of transcriptional fidelity maintenance and related chromatin regulation. Together, these suggest a cluster of proteins involved in modulating Pol II\u2013driven transcription elongation and its initiation context, rather than a single, distinct chromatin or RNA-processing pathway.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2001253","count":1},{"id":"GO:0032968","count":1},{"id":"GO:0090239","count":1},{"id":"GO:0070827","count":1},{"id":"GO:0010793","count":1}]},{"hash":"229380412740979216","title":"DNA replication and nuclear RNA processing","description":"The top GO terms are dominated by DNA replication (including primer synthesis) and viral genome replication, pointing to a replication-focused function. Additional terms indicate nuclear RNA processing activities (RNA Pol I transcription termination, nuclear mRNA surveillance, and rRNA maturation), suggesting a broader link to nucleic acid metabolism in the nucleus. Some terms about neuronal stimuli seem unrelated and likely noise. Overall, the cluster appears tied to DNA replication with accompanying RNA processing activities.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0019079","count":4},{"id":"GO:0006260","count":4},{"id":"GO:2000616","count":3},{"id":"GO:0006269","count":3},{"id":"GO:0017038","count":3}]},{"hash":"810830919483695594","title":"mRNA decay and RNA turnover","description":"Dominant representation of mRNA catabolic processes and turnover (deadenylation-dependent decapping, deadenylation-independent decay, adenosine and purine ribonucleotide catabolism, nuclear-transcribed mRNA decay), with some stress-related signals (unfolded protein response, glucocorticoid signaling) and minor associations to morphine/lead ion responses. The cluster is best characterized by RNA decay pathways as the central theme.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0090503","count":3},{"id":"GO:0006986","count":2},{"id":"GO:0016576","count":2},{"id":"GO:2000324","count":2},{"id":"GO:0043278","count":2}]},{"hash":"477718569919696859","title":"Vesicle trafficking and secretion","description":"This cluster is dominated by GO terms related to vesicle handling and secretion, including autophagosome membrane docking, SNARE complex assembly, ER-to-Golgi and Golgi-to-plasma membrane transport, and exocytic insertion of receptors, as well as neutrophil/eosinophil degranulation and mucus secretion. These collectively point to a shared function in secretory pathways and vesicle-mediated cargo delivery, with a few terms about gut motility and ion-channel regulation that are less central to the core theme. Confidence: Medium","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016240","count":1},{"id":"GO:0035493","count":1},{"id":"GO:0043001","count":1},{"id":"GO:1902259","count":1},{"id":"GO:0043134","count":1}]},{"hash":"1559338491264893222","title":"Unknown","description":"The terms cover immune signaling, mitosis, ubiquitination, RNA modification, protein oligomerization, kidney physiology, and viral latency\u2014there is no single shared function linking them, so a meaningful label cannot be assigned.","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":6},{"id":"GO:0035853","count":6},{"id":"GO:0031397","count":6},{"id":"GO:2000312","count":6},{"id":"GO:0051260","count":6}]},{"hash":"1231109816112441125","title":"Seed maturation and stress-responsive transcription","description":"The cluster\u2019s top GO terms point to transcriptional regulation (DNA-templated transcription) and seed maturation, complemented by several abiotic stress responses (hypoxia, heat), plus signals like epinephrine and nutrient-related responses. This pattern suggests a group of proteins involved in transcriptional control during seed development and in coordinating responses to environmental stress, with ancillary links to metabolism. ","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0010431","count":1},{"id":"GO:0001666","count":1},{"id":"GO:0033198","count":1},{"id":"GO:0009408","count":1}]},{"hash":"1946187336040504722","title":"Unknown","description":"This cluster shows a highly diverse mix of GO terms from immune signaling (B cell receptor signaling), ubiquitination processes, oxidative stress response, and developmental/tropism terms (gravitropism, phototropism), plus renal transport, with no obvious shared function. The proteins have no reported interactions within the cluster (edges 0, triangles 0), and the terms recur only sparsely (counts of 2), suggesting no coherent biological theme. Therefore, Unknown with None.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":2},{"id":"GO:0009958","count":2},{"id":"GO:0045497","count":2},{"id":"GO:0009638","count":2},{"id":"GO:0050853","count":2}]},{"hash":"1605550961240413146","title":"Negative Regulation of Neutrophil Activation","description":"The cluster is dominated by a single GO term, negative regulation of neutrophil activation, with 6 proteins annotated to this function. This points to a cohesive theme of dampening neutrophil responses, suggesting the proteins collectively participate in immune regulation rather than broad metabolic or structural roles. Despite no detected protein\u2013protein edges, the annotation signal supports a concise, representative label focused on immune modulation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":6}]},{"hash":"364396589461306592","title":"Immune signaling and cell cycle regulation","description":"The top GO terms point to immune signaling (negative regulation of neutrophil activation, interleukin-4 production, erythropoietin signaling) and cell fate decisions (positive regulation of apoptosis, mitotic G2 DNA damage checkpoint, re-entry into the cell cycle). A few broader terms (estrogen response, axon regeneration) suggest general signaling roles rather than a single pathway. Together these imply a cluster of proteins involved in signaling that modulates immune responses and cell cycle/apoptosis decisions.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":5},{"id":"GO:0043627","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0048680","count":1},{"id":"GO:0007095","count":1}]},{"hash":"2194613524739919153","title":"Innate Immune and Cellular Stress Response","description":"The dominant GO terms point to innate immune activity, including innate immune response and negative regulation of neutrophil activation, suggesting immune modulation. Supporting terms indicate cellular stress and protein-folding responses (response to unfolded protein, cadmium ion response, mitotic regulation), which often accompany immune signaling. A few outliers (photosynthesis, steroid hormone receptor complex assembly) may reflect annotation noise or cross-species signals, but the overall theme appears to connect immune signaling with cellular stress responses.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":4},{"id":"GO:0045087","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0000278","count":2},{"id":"GO:1903646","count":1}]},{"hash":"1810329671069659856","title":"Unknown","description":"The top GO terms span very diverse, seemingly unrelated processes (lipid and hormone biosynthesis in plants, metal stress response, reproduction in animals, and various miscellaneous metabolic/modification processes), with no clear common function tying the cluster together. This makes it impossible to assign a coherent, specific label beyond Unknown.","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0031408","count":2},{"id":"GO:0017143","count":2},{"id":"GO:0010268","count":2},{"id":"GO:0071280","count":2},{"id":"GO:0060137","count":2}]},{"hash":"763808504873288536","title":"Unknown","description":"The GO terms span translation initiation (formation of translation initiation complex and regulation), RNA tethering, IRES-dependent translation, proteasome assembly, meiosis, heterochromatin regulation, and protein deneddylation, with no single unifying function across all proteins. Because the cluster shows diverse, weakly connected processes, a cohesive, representative label cannot be determined.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001732","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0048140","count":1},{"id":"GO:0000973","count":1},{"id":"GO:0075522","count":1}]},{"hash":"1919220766084775286","title":"Unknown","description":"The top GO terms span diverse processes (axon regeneration, mitotic checkpoints, cell cycle re-entry, protein processing regulation, erythropoietin signaling, IL-4 and GM-CSF production, Gal4-regulated transcription, cardiac neural crest development, and calcineurin-NFAT regulation) with no single unifying function. This lack of a cohesive theme suggests the proteins do not form a functionally cohesive cluster. ","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":4},{"id":"GO:0007095","count":4},{"id":"GO:0000320","count":4},{"id":"GO:0010954","count":4},{"id":"GO:0038162","count":4}]},{"hash":"903914378091003938","title":"Unknown","description":"The GO terms span immune signaling (B cell receptor pathway, memory T cell differentiation) and plant responses (gravitropism, phototropism) as well as cell division and ubiquitination processes, with no single shared function across the cluster. The lack of edges and the heterogeneous terms prevent a coherent, specific label beyond Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":3},{"id":"GO:0043380","count":2},{"id":"GO:0009958","count":2},{"id":"GO:0045497","count":2},{"id":"GO:0009638","count":2}]},{"hash":"129901797383445405","title":"Cell Wall Polysaccharide Biosynthesis","description":"The top GO terms cluster around synthesis/modification of cell-wall components and related carbohydrate metabolism (glycolipids, glycosylation, peptidoglycan, lipoteichoic acid, cell wall organization), with plant-specific phenylpropanoid products (lignin, cyanidin/anthocyanin biosynthesis) also linked to wall-associated processes. The overarching theme appears to be cell-wall polysaccharide biosynthesis across organisms, rather than a single specific pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0009247","count":5},{"id":"GO:0070395","count":4},{"id":"GO:0030259","count":4},{"id":"GO:0009718","count":4},{"id":"GO:0009808","count":4}]},{"hash":"2062644613659985908","title":"Unknown","description":"The GO terms are highly diverse, spanning immune processes, neural/behavioral terms, plant defense, and retinoic acid response, with no clear, single functional theme linking the proteins. Therefore no coherent cluster label beyond Unknown can be justified.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071625","count":1},{"id":"GO:0001771","count":1},{"id":"GO:0002418","count":1},{"id":"GO:0071300","count":1},{"id":"GO:0051260","count":1}]},{"hash":"1106136329944680952","title":"Developmental cell cycle regulation","description":"The top terms cluster around cell division (mitotic and meiotic) and developmental processes (endoderm development, EMT, stem cell maintenance), with RNA surveillance/decay terms pointing to RNA quality control during growth and differentiation. The common thread is coordination of cell cycle progression with developmental transitions, so this label captures the main theme succinctly.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0070481","count":1},{"id":"GO:0019827","count":1},{"id":"GO:0051078","count":1}]},{"hash":"761600389561976008","title":"Cell Cycle and Actin Dynamics","description":"The cluster centers on cell cycle control (G0 to G1 transition; regulation of cell cycle) and actin cytoskeleton remodeling (actin cytoskeleton organization, lamellipodium assembly), with anti-apoptotic regulation, suggesting a shared theme of proliferative signaling coupled to cytoskeletal dynamics. Other terms such as translation or UV response are present but less defining.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043066","count":2},{"id":"GO:0006412","count":2},{"id":"GO:2001032","count":1},{"id":"GO:0031915","count":1},{"id":"GO:0045023","count":1}]},{"hash":"364152664983758442","title":"NFAT-driven signaling in development and immunity","description":"This cluster centers on GO terms tied to the calcineurin-NFAT pathway and its downstream effects, including negative regulation of NFAT signaling (GO:0051534), erythropoietin signaling (GO:0038162), IL-4 production (GO:0032633), and GM-CSF production (GO:0045425). The inclusion of neural development-related terms (axon regeneration GO:0048680 and cardiac neural crest development GO:0061308) suggests NFAT\u2019s broad role in development as well. While there are also generic terms about mitotic regulation and transcription, the NFAT/immune-hematopoietic development theme provides a coherent common thread across the cluster.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":6},{"id":"GO:0007095","count":6},{"id":"GO:0000320","count":6},{"id":"GO:0010954","count":6},{"id":"GO:0038162","count":6}]},{"hash":"2040668351345097367","title":"Broad Developmental and Immune Signaling","description":"The top GO terms point to regulatory roles across diverse biological contexts: axon regeneration, erythropoietin signaling, IL-4 and GM-CSF production, heart development, and general regulation of transcription and protein processing, plus cell cycle regulation. This suggests a cluster of proteins involved in broad signaling and regulatory functions spanning development and immune contexts, rather than a single cohesive pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":6},{"id":"GO:0007095","count":6},{"id":"GO:0000320","count":6},{"id":"GO:0010954","count":6},{"id":"GO:0038162","count":6}]},{"hash":"882337782046746838","title":"Zinc Ion Transport and Homeostasis","description":"The top terms cluster around zinc ion transmembrane transport, intracellular zinc ion homeostasis, and response to zinc ion, indicating a cohesive function in zinc handling and regulation, with only a few obsolete or unrelated metal terms.","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070574","count":1},{"id":"GO:0006882","count":1},{"id":"GO:0071577","count":1},{"id":"GO:0032119","count":1},{"id":"GO:0071584","count":1}]},{"hash":"680878877731573998","title":"Unknown","description":"The Top Terms are a broad mix of metabolic, stress, inflammatory, and hormonal signaling processes (nutrient and xenobiotic responses, IL-8 production, neurotransmitter regulation, endothelin-related blood pressure regulation, Hedgehog signaling, FSH response, and carnitine metabolism). There isn\u2019t a single, cohesive function or pathway that clearly ties these six proteins together, suggesting the cluster does not represent a focused biological theme. Confidence: None","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007584","count":4},{"id":"GO:0042493","count":4},{"id":"GO:0072606","count":3},{"id":"GO:0051612","count":3},{"id":"GO:0003100","count":3}]},{"hash":"1364150896230817398","title":"Unknown","description":"The terms span immune signaling (IL-4 and GM-CSF production), erythropoietin signaling, neural crest/development, axon regeneration, and cell-cycle regulation, with no unifying function evident.","confidence":"","size":6,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":1},{"id":"GO:0007095","count":1},{"id":"GO:0000320","count":1},{"id":"GO:0010954","count":1},{"id":"GO:0038162","count":1}]},{"hash":"1203392459817582903","title":"Unknown","description":"The top GO terms are extremely diverse, including protein homooligomerization, circadian rhythm regulation, flower development, B cell signaling, spindle localization, ubiquitination, tRNA modification, and renal ion transport. With no edges connecting the proteins and no single cohesive function across terms, there\u2019s no clear shared theme to assign a specific, meaningful label. Therefore, this cluster is best described as Unknown, with no confidence.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":2},{"id":"GO:0042752","count":1},{"id":"GO:0009911","count":1},{"id":"GO:0050853","count":1},{"id":"GO:0035853","count":1}]},{"hash":"1867742344213491865","title":"Unknown","description":"The Top Terms include respiratory electron transport chain and translation, but each is represented by only one protein, and there are no edges to link them. This yields no coherent theme (e.g., mitochondria-specific translation vs. respiration) to assign a specific label, so \u201cUnknown\u201d is appropriate.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022904","count":1},{"id":"GO:0006412","count":1}]},{"hash":"977171414174161983","title":"Chloroplast ribosome biogenesis and division","description":"The cluster centers on translation-related processes (ribosome biogenesis and tRNA modification) and chloroplast targeting, suggesting proteins involved in chloroplast protein synthesis/import. The presence of cell septum assembly, cell division, and cell cycle terms aligns with chloroplast division, which is mechanistically linked to bacterial-like division processes. Together, these terms point to a function in chloroplast ribosome assembly and organelle division, with some metabolic regulation signals. Unknown terms are likely peripheral noise. ","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0090529","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006400","count":2},{"id":"GO:1903833","count":2},{"id":"GO:0042254","count":2}]},{"hash":"1819923664987641312","title":"Spliceosome assembly proteins","description":"The top GO terms indicate spliceosomal snRNP assembly and the generation of the catalytic spliceosome for the first transesterification step, pinpointing a role in pre-mRNA splicing. Despite no observed network edges, the proteins share a coherent splicing-related function, justifying a label focused on spliceosome components.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000387","count":1},{"id":"GO:0000349","count":1}]},{"hash":"1003760072890897141","title":"Vesicle trafficking and exosome secretion","description":"The terms converge on vesicle-mediated transport, lysosome/ Golgi targeting, and regulation of exosome assembly and secretion, indicating a secretory/trafficking program. Some signaling and ATP export terms appear ancillary, but the central theme is vesicle trafficking and extracellular vesicle secretion.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901998","count":1},{"id":"GO:0031954","count":1},{"id":"GO:0006622","count":1},{"id":"GO:1903551","count":1},{"id":"GO:1903543","count":1}]},{"hash":"1801235579145556907","title":"Actin Cortex Dynamics and Spindle Orientation","description":"The top GO terms cluster around actin cortical patch localization and regulation, septin ring disassembly, and mitotic spindle orientation signaling, pointing to cytoskeletal organization at the cell cortex and its role in cell division. A couple of terms related to neuron projection development and neurotrophin signaling may reflect broader cytoskeletal signaling cross-talk, but the core theme remains cortical actin dynamics and division cues. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051754","count":2},{"id":"GO:0044397","count":1},{"id":"GO:0044379","count":1},{"id":"GO:0060583","count":1},{"id":"GO:0010976","count":1}]},{"hash":"278525991003095074","title":"Fungal cell wall polysaccharide biosynthesis","description":"This cluster is dominated by GO terms for fungal-specific cell wall component synthesis (galactomannan, galactoglucomannan, xyloglucan) and mannoprotein biosynthesis, plus fungal-type cell wall biogenesis and related processes such as cell budding and septum assembly. The convergence on polysaccharide assembly and cell wall maturation strongly supports a label reflecting fungal cell wall biogenesis.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010392","count":1},{"id":"GO:0006487","count":1},{"id":"GO:0009272","count":1},{"id":"GO:0010192","count":1},{"id":"GO:0000032","count":1}]},{"hash":"1192239055321764227","title":"Unknown","description":"The top GO terms cover immune signaling (T cell and B cell pathways), plant tropisms (gravitropism, phototropism), cell division (spindle localization), ubiquitination, and oxidative stress responses, with no single unifying function across the cluster. This lack of a coherent theme leads to an Unknown label.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":4},{"id":"GO:0009958","count":4},{"id":"GO:0045497","count":4},{"id":"GO:0009638","count":4},{"id":"GO:0050853","count":4}]},{"hash":"770447560501678630","title":"Telomeric and rDNA Heterochromatin Regulation","description":"The cluster is dominated by terms about negative regulation of chromatin silencing and heterochromatin formation at telomeres and rDNA, suggesting a chromatin-regulation theme rather than a single pathway. A few entries appear obsolete or unrelated (e.g., substantia nigra development, biofilm adhesion), likely noise. Given the limited protein set but coherent chromatin-silencing signal, the label reflects the prevailing function, though evidence is modest.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031939","count":1},{"id":"GO:0021762","count":1},{"id":"GO:0061186","count":1},{"id":"GO:1900471","count":1},{"id":"GO:0061188","count":1}]},{"hash":"1232411391299385984","title":"Exosome biogenesis and vesicle trafficking","description":"The terms show strong enrichment for vesicle-mediated transport, protein targeting to lysosome, and exosome assembly/secretion, which together define a secretory/vesicular pathway. The other terms (Golgi retention, ATP export, Toll and FGFR signaling) appear as regulatory associations rather than core functions, so the cluster most likely centers on exosome production and vesicle trafficking.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901998","count":1},{"id":"GO:0031954","count":1},{"id":"GO:0006622","count":1},{"id":"GO:1903551","count":1},{"id":"GO:1903543","count":1}]},{"hash":"2208042831515082316","title":"Developmental Gene Regulation","description":"The top GO terms cluster around developmental processes such as forebrain development, neural tube closure, skeletal system and multicellular organism development, together with DNA-templated transcription and regulation of gene expression. This points to a set of genes involved in driving development and its transcriptional control. Although some terms touch on stress or immune responses, the developmental theme is dominant, making this a representative label with moderate confidence.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0001501","count":2}]},{"hash":"1262832141203066294","title":"Developmental Differentiation","description":"The three GO terms point to developmental programs: microgametogenesis, somatic embryogenesis, and R7 cell differentiation. Together they reflect a unifying theme of cell differentiation during development across organisms, suggesting these proteins are involved in developmental fate specification rather than a single organ system.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055046","count":1},{"id":"GO:0010262","count":1},{"id":"GO:0045466","count":1}]},{"hash":"1376329533146374621","title":"Meiotic DNA Repair and Germ Cell Development","description":"The Top Terms cluster points mainly to meiosis, germ cell development, and genome maintenance, with several terms for double-strand break repair, meiotic gene conversion, replication fork arrest, and cell-cycle regulation, which together define meiotic recombination and DNA repair in germ cells. While a couple terms touch on isotype switching and oxidative phosphorylation, the dominant theme is meiotic DNA repair and germ cell development.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007050","count":1},{"id":"GO:0043570","count":1},{"id":"GO:0006119","count":1},{"id":"GO:0045190","count":1},{"id":"GO:0010777","count":1}]},{"hash":"1871161845152508425","title":"Cytokine and growth-factor signaling with cell migration","description":"The protein set shows enrichment for cytokine and growth-factor related signaling (IL-4 production, IL-18 signaling, VEGF and IGF receptor pathways) and for actin cytoskeleton regulation and cell migration, suggesting a theme of signaling-driven cytoskeletal remodeling and motility. Some terms are obsolete, but the overall pattern points to cytokine/growth-factor signaling converging on cell movement.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043046","count":2},{"id":"GO:0030259","count":2},{"id":"GO:0071380","count":2},{"id":"GO:0032633","count":2},{"id":"GO:0035655","count":2}]},{"hash":"1004824881656602196","title":"Unknown","description":"There are six proteins with no interactions, no GO terms listed, and no shared functional signal in this dataset, so no coherent function or theme emerges to name the cluster.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"293478842490317605","title":"Unknown","description":"The GO terms span immune signaling (memory T cell differentiation regulation, B cell receptor signaling), ubiquitination processes (K33-linked ubiquitination, regulation of ubiquitination), and unrelated plant and kidney development terms (gravitropism, phototropism, distal tubule morphogenesis, renal sodium ion absorption), with no clear unifying function tying the six proteins together. The scattered functional themes and lack of shared pathway evidence suggest there is no coherent cluster signal, so Unknown is appropriate.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":6},{"id":"GO:0009958","count":6},{"id":"GO:0045497","count":6},{"id":"GO:0009638","count":6},{"id":"GO:0050853","count":6}]},{"hash":"939901500336144756","title":"Chromatin remodeling and transcription regulation","description":"This cluster centers on chromatin dynamics and transcriptional machinery, with GO terms for chromatin organization, nucleosome disassembly, histone exchange, H2B ubiquitination, and RNA polymerase II preinitiation complex assembly plus transcription elongation regulation. The heart development terms (atrioventricular canal development, cardiac jelly development) hint at a developmental context, but the dominant signals are chromatin-based control of gene expression. Together, they point to a coordinated role in modulating transcription through chromatin state during development, including cardiac-related processes. Confidence in this theme is High.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0036302","count":1},{"id":"GO:1905072","count":1},{"id":"GO:0051123","count":1},{"id":"GO:0006337","count":1},{"id":"GO:0006336","count":1}]},{"hash":"793228682182221558","title":"Unknown","description":"There are no GO terms or functional signals given for this cluster (no edges, no shared terms). Without any terms or connections, there is no clear common function to label, so the cluster is best described as Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1136979265984933269","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007283","count":2},{"id":"GO:2000884","count":2},{"id":"GO:0016042","count":2},{"id":"GO:0016239","count":2},{"id":"GO:0045493","count":2}]},{"hash":"1460159792813905573","title":"ER Stress and Protein Quality Control","description":"This cluster centers on endoplasmic reticulum\u2013related handling of proteins and quality control: ERAD and unfolded protein response, negative regulation of autophagosome maturation, and aggresome assembly, plus tail-anchored proteins inserted into the ER membrane. The inclusion of ER-stress\u2013related apoptotic signaling and MyD88-dependent TLR signaling hints at crosstalk between ER stress and immune pathways. A term about localization to the nuclear pore appears incidental rather than core to the module. Overall, the proteins seem to form a cohesive unit focused on ER-associated protein folding, trafficking, and quality-control mechanisms.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0090204","count":5},{"id":"GO:1901340","count":5},{"id":"GO:1901097","count":5},{"id":"GO:0000753","count":5},{"id":"GO:0071816","count":5}]},{"hash":"665648114299900933","title":"Ubiquitin-Dependent Degradation and Autophagy","description":"The cluster is dominated by GO terms for polyubiquitination and ubiquitin-dependent protein catabolic processes, with macroautophagy also present, suggesting a central theme of protein quality control via ubiquitin-proteasome and autophagic degradation; other terms indicate peripheral signaling or polarity roles but do not define a different core function.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":2},{"id":"GO:0042787","count":2},{"id":"GO:2001181","count":1},{"id":"GO:0021744","count":1},{"id":"GO:0035023","count":1}]},{"hash":"627764449726634213","title":"Actin Cortex Remodeling and Cell Migration","description":"The cluster's top GO terms center on actin cortical patch localization and assembly (GO:0051666, GO:0000147) and mesenchyme migration (GO:0090131), pointing to actin cytoskeleton remodeling driving cell movement. Other terms touch on muscle and tissue contexts (skeletal muscle fiber adaptation, retina homeostasis) and organelle inheritance, which may reflect broader cytoskeletal and mitochondrial processes or annotation noise. Overall, the core shared function appears to be actin-mediated cytoskeletal remodeling linked to cell migration.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043503","count":2},{"id":"GO:0010628","count":1},{"id":"GO:0001300","count":1},{"id":"GO:0001895","count":1},{"id":"GO:0043981","count":1}]},{"hash":"1930329154114671546","title":"Retinoic acid signaling in neural development","description":"The top GO terms cluster around retinoic acid signaling and neural development (cellular response to retinoic acid, forebrain development, nucleus accumbens development), suggesting these proteins participate in retinoic acid\u2013driven brain development and patterning. Additional terms such as GABA shunt and symmetry determination reflect broader developmental and metabolic contexts.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048384","count":5},{"id":"GO:0015976","count":5},{"id":"GO:0001936","count":5},{"id":"GO:0021768","count":5},{"id":"GO:0048738","count":5}]},{"hash":"1082414201018589338","title":"Neuroimmune Redox Signaling","description":"The terms cluster around signaling pathways (PI3K/AKT), redox regulation (NADPH oxidase activity, oxidant detoxification), and inflammatory mediators (acute inflammatory response, IL-8 production), with a neuronal aspect noted by dopaminergic synaptic transmission. Some terms (deglycation, fertilization) are less connected, but the dominant themes point to integrated neural signaling, immune/redox regulation, and inflammatory responses. Confidence: Medium.","confidence":"","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051897","count":3},{"id":"GO:0061727","count":3},{"id":"GO:0033864","count":3},{"id":"GO:0001963","count":3},{"id":"GO:0036527","count":3}]},{"hash":"1597752427699407763","title":"Ribosome biogenesis and translation","description":"This cluster centers on preribosome assembly, rRNA maturation, and translation (e.g., 90S preribosome assembly, maturation of SSU rRNA, ITS1 cleavage, and translation), indicating a cohesive role in ribosome biogenesis and protein synthesis; a few RNA-processing terms are present but secondary to ribosome assembly. ","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":2},{"id":"GO:0030574","count":1},{"id":"GO:0034724","count":1},{"id":"GO:0034396","count":1},{"id":"GO:0035551","count":1}]},{"hash":"2187646784862153380","title":"RNA processing and translational regulation","description":"This cluster centers on post-transcriptional control: spliceosome-mediated mRNA splicing and spliceosomal conformational changes, plus regulation of translational initiation including IRES-dependent initiation. These shared GO terms point to RNA processing and control of protein synthesis as the core theme, with other terms being less directly related. ","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":1},{"id":"GO:0048140","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0075522","count":1},{"id":"GO:0010950","count":1}]},{"hash":"1185015806515519968","title":"Autophagy and Protein Modification","description":"Most of the shared terms point to autophagy (macroautophagy, cytoplasm to vacuole targeting by the Cvt pathway) and related protein modification pathways (neddylation, ufmylation, and C-terminal protein lipidation). While some terms are more divergent (thiamine biosynthesis, amygdala development), the dominant theme is degradation/autophagy coupled with post-translational modification, justifying this label.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0009228","count":2},{"id":"GO:0006501","count":2},{"id":"GO:0032258","count":2},{"id":"GO:0051726","count":2},{"id":"GO:0016236","count":2}]},{"hash":"273766124565366624","title":"Unknown","description":"The GO terms are spread across very diverse processes (axon regeneration, mitotic checkpoints and cell-cycle re-entry, various signaling pathways, immune cytokine production, transcriptional regulation, and heart development). This lack of a cohesive, single-function theme and the absence of interactions among proteins make it impossible to assign a specific, representative cluster name.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":3},{"id":"GO:0007095","count":3},{"id":"GO:0000320","count":3},{"id":"GO:0010954","count":3},{"id":"GO:0038162","count":3}]},{"hash":"1753370862871238802","title":"RNA splicing and mRNA processing","description":"The top GO terms are dominated by RNA processing and splicing (RNA splicing, spliceosomal tri-snRNP complex assembly, mRNA processing), suggesting this cluster centers on RNA splicing machinery; a few terms touch on cell cycle regulation and neural development but do not outweigh the core RNA-processing signal.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008380","count":1},{"id":"GO:0000244","count":1},{"id":"GO:0006397","count":1},{"id":"GO:0007050","count":1},{"id":"GO:1900383","count":1}]},{"hash":"681415435841338166","title":"Regulatory signaling and transcription in development and immunity","description":"The terms cluster around regulation of signaling pathways (erythropoietin, interleukin-4, GM-CSF, NFAT) and transcriptional control, plus developmental processes (cardiac neural crest development) and cell-cycle checkpoints. This suggests a set of regulatory proteins that influence diverse signaling and transcriptional processes across development and immune contexts, rather than a single pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":4},{"id":"GO:0007095","count":4},{"id":"GO:0000320","count":4},{"id":"GO:0010954","count":4},{"id":"GO:0038162","count":4}]},{"hash":"1655433437209614784","title":"RNA Pseudouridylation and DNA Base-Excision Repair","description":"The top GO terms cluster around RNA modification (tRNA and rRNA pseudouridylation) and base-excision DNA repair, suggesting proteins focused on RNA processing and genome maintenance. Developmental annotations appear ancillary, so the core theme is RNA modification and DNA repair.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000455","count":1},{"id":"GO:0031119","count":1},{"id":"GO:0007379","count":1},{"id":"GO:0007469","count":1},{"id":"GO:1902064","count":1}]},{"hash":"1519215510808678635","title":"Amino acid biosynthesis and related metabolism","description":"The GO terms are dominated by amino acid biosynthesis processes (tryptophan, histidine, citrulline) and related metabolic steps (4-aminobenzoate, PRPP metabolism). While a few terms describe stress responses, the core theme across the cluster appears to be production or processing of amino acids and related precursors, suggesting a functional grouping around amino acid biosynthesis.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":1},{"id":"GO:1903718","count":1},{"id":"GO:0000162","count":1},{"id":"GO:0043200","count":1},{"id":"GO:0046391","count":1}]},{"hash":"621388003997051615","title":"DNA Replication and SOS Response","description":"This cluster is dominated by GO terms for DNA replication, primer synthesis, and DNA recombination, along with the SOS response, which together point to a cohesive theme of genome maintenance and replication/repair processes. While viral genome replication and some miscellaneous terms appear, the strongest signal is DNA replication and the associated repair/recombination responses, suggesting these proteins function in genome maintenance pathways. ","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0019079","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0006269","count":3},{"id":"GO:0009432","count":3},{"id":"GO:0006310","count":3}]},{"hash":"811794063533337061","title":"Unknown","description":"The Top GO terms span diverse organisms (animal, plant) and disparate processes (apoptosis, hematopoiesis, synaptic plasticity, morphogenesis, flowering) plus ubiquitination regulation, with no clear single theme tying the proteins together. This lack of a coherent functional signature makes it inappropriate to assign a specific label.","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0044346","count":3},{"id":"GO:0030097","count":3},{"id":"GO:0031915","count":3},{"id":"GO:0072576","count":3},{"id":"GO:0031286","count":3}]},{"hash":"1650426177151198568","title":"mRNA processing and translation regulation","description":"GO terms cluster around mRNA splicing, nuclear export, and initiation of translation (including miRNA silencing), indicating a cohesive post-transcriptional gene regulation theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035278","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0075522","count":1},{"id":"GO:0048026","count":1},{"id":"GO:1903586","count":1}]},{"hash":"1727082347775811483","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009244","count":2},{"id":"GO:0031247","count":2},{"id":"GO:0097171","count":2},{"id":"GO:0006825","count":2},{"id":"GO:0006564","count":2}]},{"hash":"1042721177267954377","title":"Unknown","description":"The top terms cover lipid-derived signaling (oxylipin biosynthesis), plant/hormone pathways (brassinosteroid homeostasis), vitamin D\u2013related biosynthesis (calcitriol), metal response, reproductive processes, and methylation, showing little shared function among the proteins. There is no clear unifying GO topic, so a meaningful, specific label cannot be assigned.","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0031408","count":1},{"id":"GO:0017143","count":1},{"id":"GO:0010268","count":1},{"id":"GO:0071280","count":1},{"id":"GO:0060137","count":1}]},{"hash":"912892652863974566","title":"Multilineage Differentiation Regulation","description":"The top GO terms cluster around regulation (often negative regulation) of differentiation across many lineages\u2014astrocyte, oligodendrocyte, skeletal muscle, melanocyte, endocrine pancreas, adrenal chromaffin cells, and more\u2014suggesting the proteins regulate differentiation programs across diverse cell types rather than a single lineage. This supports labeling the cluster as multilineage differentiation regulation.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048712","count":2},{"id":"GO:2001038","count":2},{"id":"GO:0031018","count":2},{"id":"GO:0035914","count":2},{"id":"GO:0030318","count":1}]},{"hash":"2071353508177868389","title":"Plant circadian and brassinosteroid signaling","description":"The top GO terms are strongly plant-specific, including regulation of circadian rhythm, positive regulation of flower development, and brassinosteroid-mediated signaling, suggesting a cluster of proteins involved in plant development and daily timing cues. Some immune-related terms appear but are likely annotation noise or cross-species overlap, so the core signal points to plant signaling and development pathways.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042752","count":3},{"id":"GO:0009911","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0002467","count":3},{"id":"GO:0009742","count":3}]},{"hash":"118867164753734623","title":"Organ Development and Regeneration","description":"This cluster centers on processes involved in tissue and organ development and regeneration, with terms like placental, exocrine pancreas, and salivary gland development, and liver regeneration. There are additional immune and lipid-regulation signals (MHC II biosynthesis, interleukin-4 response, triglyceride homeostasis) that may reflect tissue-specific regulation rather than a single cohesive pathway. Overall, the dominant theme is organ development/regeneration, with ancillary regulatory signals.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071353","count":3},{"id":"GO:0010691","count":2},{"id":"GO:0001080","count":2},{"id":"GO:0097421","count":2},{"id":"GO:0045348","count":2}]},{"hash":"900769051158598380","title":"Embryonic organogenesis with apoptosis regulation","description":"The proteins show GO terms tied to organ development (otic vesicle formation, atrial septum morphogenesis, lacrimal gland development, embryonic digestive tract morphogenesis) and to apoptosis and transcription regulation, suggesting a cluster focused on coordinating organ formation with cell survival and transcriptional control during development.","confidence":"Medium","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071866","count":4},{"id":"GO:0048557","count":4},{"id":"GO:0060784","count":4},{"id":"GO:0030916","count":4},{"id":"GO:0001195","count":4}]},{"hash":"1605995777078703637","title":"Regulators of signaling and development","description":"Top GO terms suggest roles in various regulatory processes, including erythropoietin signaling, IL-4 and GM-CSF production, transcriptional regulation, cardiac neural crest development, and cell-cycle checkpoints. The common theme is regulatory influence across signaling, transcription, and development rather than a single pathway, so this cluster is best described as regulators of signaling and development.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":5},{"id":"GO:0007095","count":5},{"id":"GO:0000320","count":5},{"id":"GO:0010954","count":5},{"id":"GO:0038162","count":5}]},{"hash":"564041433089136398","title":"Motor neuron development & RNA processing","description":"This cluster shows GO terms centered on neural/motor development (hypoglossal nerve morphogenesis, motor behavior, motor neuron apoptotic process) paired with RNA processing/editing activities (rRNA/tRNA processing, adenosine-to-inosine editing, siRNA processing). The combination suggests a theme of motor neuron biology linked to RNA metabolism. Some viral-related terms appear but are not cohesive with the primary motor/RNA theme, likely reflecting broader host-virus annotation or incidental associations. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021618","count":1},{"id":"GO:0045071","count":1},{"id":"GO:0008285","count":1},{"id":"GO:0061744","count":1},{"id":"GO:0097049","count":1}]},{"hash":"1158980912586229098","title":"Chromatin remodeling and nucleosome assembly","description":"This cluster is dominated by chromatin-related terms: nucleosome assembly, chromatin remodeling, and rDNA heterochromatin formation, indicating a shared theme of chromatin organization and regulation at the nucleosome level. While a few terms touch on plant-specific responses or other processes, the core signal is chromatin dynamics and transcriptional regulation, supporting this label.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000183","count":3},{"id":"GO:0043966","count":2},{"id":"GO:0006334","count":2},{"id":"GO:0071919","count":2},{"id":"GO:0009751","count":2}]},{"hash":"171648257752394701","title":"Unknown","description":"The top GO terms are diverse, including axon regeneration, mitotic signaling, cytokine production, erythropoietin signaling, and development, with no clear shared function linking the proteins. Because there is no cohesive theme or pathway uniting these terms, the cluster cannot be confidently labeled with a specific function.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":5},{"id":"GO:0007095","count":5},{"id":"GO:0000320","count":5},{"id":"GO:0010954","count":5},{"id":"GO:0038162","count":5}]},{"hash":"763305246025388609","title":"Unknown","description":"No GO terms are provided for this cluster, so no shared functional signal can be inferred; the proteins show some connectivity (4 edges among 5 nodes) but lack enrichment to support a specific label.","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[]},{"hash":"653752696403019772","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":8,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":3},{"id":"GO:0034975","count":3},{"id":"GO:0006986","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0070389","count":3}]},{"hash":"1893425080101910029","title":"Mitotic sister chromatid cohesion","description":"Top terms are dominated by mitotic sister chromatid cohesion, pointing to a function in maintaining cohesion between sister chromatids during mitosis. Some obsolete RNA polymerase import terms appear but do not alter the main theme. Therefore, a label reflecting mitotic chromatid cohesion is most representative.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034087","count":1},{"id":"GO:1990022","count":1},{"id":"GO:0007064","count":1},{"id":"GO:0044376","count":1}]},{"hash":"1097196404022126302","title":"Unknown","description":"The top GO terms are highly diverse (circadian rhythm regulation, flower development, B cell signaling, chromosome passenger complex localization, ubiquitination, wybutosine biosynthesis, protein homooligomerization, ribosomal/translation-related processes, and renal ion transport), and there are no edges connecting the proteins. This lack of a coherent shared function makes a meaningful, specific label untenable.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042752","count":1},{"id":"GO:0009911","count":1},{"id":"GO:0050853","count":1},{"id":"GO:0035853","count":1},{"id":"GO:0031397","count":1}]},{"hash":"1147405476541715917","title":"Unknown","description":"No GO terms are provided to define a shared function; with five proteins and no common terms, there is no clear theme to name the cluster, so it remains Unknown.","confidence":"","size":5,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[]},{"hash":"1146129251324676402","title":"Epigenetic Chromatin Remodeling and Heterochromatin","description":"These proteins cluster around chromatin state regulation: heterochromatin formation/maintenance, histone modification, and nucleosome dynamics, with several terms focused on epigenetic control. Though many GO terms are obsolete, the recurring theme is chromatin remodeling and epigenetic regulation rather than signaling events.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000616","count":1},{"id":"GO:0051225","count":1},{"id":"GO:0045857","count":1},{"id":"GO:0021553","count":1},{"id":"GO:0031507","count":1}]},{"hash":"855827802765629729","title":"Chromatin organization and transcription regulation","description":"The dominant GO terms center on nucleosome assembly, heterochromatin formation, and chromatin remodeling, withSnRNA transcription also indicating transcriptional control. These point to nuclear DNA packaging and regulation of gene expression as the core theme. Additional terms like G-quadruplex DNA, telomere-related regulation, and a couple of hormone- or virus-associated terms likely reflect contextual chromatin or stress responses, but do not outweigh the primary chromatin/DNA regulation signal.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":3},{"id":"GO:0000183","count":3},{"id":"GO:0071919","count":2},{"id":"GO:0009751","count":2},{"id":"GO:0016032","count":2}]},{"hash":"606865458455828987","title":"Nutrient-Responsive Transcription Regulation","description":"This cluster centers on positive regulation of transcription from the RNA polymerase II promoter in response to various nutrients and carbon sources (e.g., nonfermentable carbon source, oleic acid) and nitrogen catabolite activation, with additional links to metabolism and cellular respiration. The common theme is nutrient-driven transcriptional control, suggesting these proteins act as regulators connecting metabolic signals to transcriptional activity.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1901714","count":1},{"id":"GO:0061414","count":1},{"id":"GO:1901717","count":1},{"id":"GO:2001278","count":1},{"id":"GO:0061429","count":1}]},{"hash":"403579327584161534","title":"Neural development and axon guidance signaling","description":"Based on GO terms dominated by axon-related processes (positive regulation of axon regeneration, fasciculation of motor neuron axon, establishment of planar polarity) and associated signaling pathways (integrin signaling, erythropoietin signaling). Immune-related terms appear but are less central, suggesting the core theme is neural development and axon guidance with broader signaling context.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":1},{"id":"GO:0046641","count":1},{"id":"GO:0008285","count":1},{"id":"GO:0097156","count":1},{"id":"GO:0070671","count":1}]},{"hash":"1817169261224294804","title":"Unknown","description":"No GO terms or connections are provided, and there is no clear shared function among the five proteins, so a definite cluster function can\u2019t be inferred from the data.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2064591625923251675","title":"Regulation of microtubule-kinetochore dynamics","description":"The top GO terms point to mitosis-related spindle activities: positive regulation of attachment of spindle microtubules to the kinetochore, mitotic sister chromatid bi-orientation, and positive regulation of microtubule polymerization. Together they suggest a cluster of proteins involved in spindle dynamics and chromosome alignment during cell division.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051987","count":1},{"id":"GO:1990758","count":1},{"id":"GO:0031116","count":1}]},{"hash":"1762930663262880688","title":"Unknown","description":"The Top Terms span immune signaling (B cell receptor pathway, memory T cell differentiation), plant responses (phototropism, gravitropism), development (female analia development), and ubiquitination processes, with no single shared function. The cluster has no edges or triangles, indicating no detectable functional connectivity, so there is no coherent theme to name it after; hence Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":1},{"id":"GO:0009958","count":1},{"id":"GO:0045497","count":1},{"id":"GO:0009638","count":1},{"id":"GO:0050853","count":1}]},{"hash":"1513260582126967787","title":"Unknown","description":"There is no shared GO annotation or detectable interaction signal in this cluster: Top Terms are empty, Edges and Triangles are zero, and only three proteins were re-added by ReCIPE with a degree of 0.75, offering no cohesive functional theme to name the cluster.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1244538892856447339","title":"Synaptic vesicle exocytosis and postsynaptic receptor localization","description":"The GO terms converge on SNARE complex assembly, vesicle-mediated transport, and exocytic insertion of neurotransmitter receptors into the postsynaptic membrane, plus regulation of synaptic vesicle priming and receptor localization to the synapse. This points to a cohesive role in neurotransmitter release and receptor targeting at the synapse, with a few autophagy-related terms being less central. ","confidence":"High","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0033194","count":1},{"id":"GO:0035493","count":1},{"id":"GO:0016192","count":1},{"id":"GO:1902685","count":1},{"id":"GO:0032258","count":1}]},{"hash":"607435836904407529","title":"Unknown","description":"The GO terms are highly diverse (immune signaling like B cell receptor pathway and T cell differentiation, plant tropisms like phototropism and gravitropism, and renal development/transport), with no clear shared function tying the proteins together. The scattered singletons and lack of a cohesive theme suggest no single biological role for this cluster. ","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":1},{"id":"GO:0009958","count":1},{"id":"GO:0045497","count":1},{"id":"GO:0009638","count":1},{"id":"GO:0050853","count":1}]},{"hash":"1509296911538729591","title":"Unknown","description":"The four proteins show highly diverse GO terms spanning immune signaling (B cell receptor signaling, memory T cell differentiation), plant tropisms (gravitropism, phototropism), development (distal tubule morphogenesis, female analia development), and ubiquitination processes, indicating no single cohesive function linking the members. With such heterogeneity and no clear enrichment, a specific, representative label cannot be assigned with confidence.","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":1},{"id":"GO:0009958","count":1},{"id":"GO:0045497","count":1},{"id":"GO:0009638","count":1},{"id":"GO:0050853","count":1}]},{"hash":"2023231600534838086","title":"Unknown","description":"The represented functions are scattered across membrane repair, synaptic assembly and GABAergic signaling, apoptosis regulation, lipid metabolism, and immune responses, with no clear unifying theme. Without a cohesive biological process tying these GO terms together, this cluster cannot be assigned a specific, representative label.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001778","count":1},{"id":"GO:0007416","count":1},{"id":"GO:0043065","count":1},{"id":"GO:0071236","count":1},{"id":"GO:0010954","count":1}]},{"hash":"248036148471609463","title":"Unknown","description":"The GO terms are highly diverse (DNA repair, protein degradation, peroxisome import, several biosynthetic pathways, and cardiac electrophysiology) with no clear shared function across the proteins, so there is no coherent common theme to label.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0006284","count":1},{"id":"GO:0097510","count":1},{"id":"GO:0033317","count":1},{"id":"GO:0045821","count":1}]},{"hash":"1151681365367306603","title":"Unknown","description":"The top GO terms are highly heterogeneous, spanning unfolded protein response, glycogen and adenosine metabolism, histone modification (obsolete term), inflammatory regulation, various reproductive processes (meiotic cell cycle, meiotic DSB formation, ascospore formation, cell budding), and even neuronal signaling (excitatory postsynaptic potential). With only four proteins and no coherent functional module linking these terms, there isn\u2019t a clear, single theme to name the cluster beyond Unknown.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006986","count":4},{"id":"GO:0005977","count":4},{"id":"GO:0016576","count":4},{"id":"GO:0050728","count":4},{"id":"GO:0051321","count":4}]},{"hash":"516489624978407876","title":"Innate Immune Signaling and Microtubule Localization","description":"These proteins show enrichment for innate immune response and cytokine-related signaling (interleukin-4 production, erythropoietin-mediated signaling) and also for microtubule localization, suggesting a link between immune signaling and cytoskeletal transport/regulation. Some cell-cycle terms appear, but the strongest coherent pattern centers on immune pathways and cytoskeletal associations.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035372","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0048680","count":2},{"id":"GO:0007095","count":2}]},{"hash":"1047419067441334978","title":"Morphogenesis and Vesicle Signaling","description":"The terms cluster around calcium-dependent exocytosis and vesicle fusion, combined with Rho signaling and several development-related processes (heart, skeletal system, nervous system) as well as morphogenesis-like growth in yeast. This suggests a shared theme of signaling and structural remodeling underlying development and secretion, despite some cross-species terms like ABA signaling. ","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045956","count":4},{"id":"GO:0007266","count":4},{"id":"GO:0007124","count":4},{"id":"GO:0001302","count":4},{"id":"GO:0007507","count":4}]},{"hash":"506868011014012306","title":"Unknown","description":"No apparent functional theme can be inferred: there are no top GO terms, no edges or triangles to indicate relationships, and only four proteins with no shared annotations. Without a common function signal, the safe label is Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1107667259064549573","title":"Beta-D-glucan Cell Wall Synthesis","description":"The GO terms point to cell wall biogenesis and, specifically, the biosynthesis of (1->6)-beta-D-glucan, a key component of the cell wall. This combination suggests the cluster groups proteins involved in constructing the cell wall through beta-D-glucan synthesis, despite limited additional annotations.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042546","count":1},{"id":"GO:0006078","count":1}]},{"hash":"2096571747677852833","title":"Unknown","description":"The GO terms are scattered across development, neuronal migration, endothelial function, autophagy-related processes, metal homeostasis, and basic transcription, with no single cohesive function linking the proteins. This makes a meaningful, specific cluster label hard to justify.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061383","count":1},{"id":"GO:0006360","count":1},{"id":"GO:0021830","count":1},{"id":"GO:0010514","count":1},{"id":"GO:0061028","count":1}]},{"hash":"1556661733652842044","title":"Bacterial cell envelope biosynthesis and assembly","description":"The top GO terms cluster around biosynthesis and assembly of cell envelope components (lipid A/LPS, lipid carriers for wall components, spore wall, and septum), along with related structures like biofilm formation and general antibiotic response. While some terms appear tangential (e.g., allantoin or xylan metabolism), the strongest signal is envelope biogenesis, suggesting these proteins participate in cell wall/envelope synthesis or its regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019428","count":1},{"id":"GO:0036108","count":1},{"id":"GO:0042710","count":1},{"id":"GO:0034232","count":1},{"id":"GO:0009103","count":1}]},{"hash":"1241621594156209474","title":"Amino acid metabolism","description":"The top GO terms include several L-amino acid catabolic and biosynthetic processes (L-threonine, L-tryptophan, L-alanine, L-histidine) and related metabolic activities, plus a few distinct cofactor biosynthesis pathways (cobalamin, protoporphyrinogen IX) and fatty acid homeostasis. The mixture suggests the cluster represents general metabolic enzymes rather than a tightly defined single pathway.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019518","count":1},{"id":"GO:0019441","count":1},{"id":"GO:0042853","count":1},{"id":"GO:0006782","count":1},{"id":"GO:0019878","count":1}]},{"hash":"1514872940299343279","title":"Neural differentiation and axon guidance","description":"This cluster is dominated by GO terms related to neural development and axon pathfinding, such as oligodendrocyte differentiation, axon fasciculation, planar polarity establishment, and axon regeneration, suggesting a core theme in neural differentiation and guidance. There are a few immune signaling terms present (e.g., T cell proliferation, IL-12 response) that appear ancillary rather than central to the cluster\u2019s main function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048709","count":2},{"id":"GO:0048680","count":1},{"id":"GO:0046641","count":1},{"id":"GO:0008285","count":1},{"id":"GO:0097156","count":1}]},{"hash":"654407047926174214","title":"Unknown","description":"The top GO terms span neural regeneration, cell cycle control, hematopoietic and immune signaling, transcriptional regulation, and development, with no clear, cohesive function shared by all four proteins. The diversity of processes makes it impossible to assign a specific, representative label with confidence.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":4},{"id":"GO:0007095","count":4},{"id":"GO:0000320","count":4},{"id":"GO:0010954","count":4},{"id":"GO:0038162","count":4}]},{"hash":"1255078155515655295","title":"Actin Cytoskeleton Regulation and Signaling","description":"Based on the top GO terms, the cluster is enriched for actin cytoskeleton dynamics and signaling regulation: barbed-end actin filament capping, positive regulation of GTPase activity, and positive regulation of peptidyl-tyrosine phosphorylation, with an additional signal transduction cue from TGF-\u03b2. While other terms (cell cycle, rRNA maturation, ubiquitin-dependent degradation, fertilization, immune defense) are broader, the core theme linking the primary terms is modulation of actin dynamics and related signaling.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050731","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0051016","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0000278","count":2}]},{"hash":"56548687339805623","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000447","count":1},{"id":"GO:0034476","count":1},{"id":"GO:0071039","count":1},{"id":"GO:0071033","count":1},{"id":"GO:0000973","count":1}]},{"hash":"803768569579708009","title":"Metabolic Diversity and Redox Balance","description":"This cluster contains proteins linked to a variety of metabolic and catabolic pathways (thiamine, lipoate, leucine, thymidine, alkane, propylene) along with redox-related processes (glutathione metabolism, redox homeostasis). The spread across distinct pathways plus redox maintenance suggests a general role in central metabolism and redox balance rather than a single specific function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009228","count":2},{"id":"GO:0009106","count":2},{"id":"GO:0006214","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0006749","count":2}]},{"hash":"1185695274005322247","title":"Unknown","description":"The top GO terms are spread across proteasomal degradation, axon regeneration, cell cycle signaling, cytokine production, transcriptional regulation, and developmental processes, with no evident single function linking all four proteins. The lack of a shared pathway or mechanism and zero edges suggest no coherent cluster theme can be established. None","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032436","count":3},{"id":"GO:0048680","count":2},{"id":"GO:0007095","count":2},{"id":"GO:0000320","count":2},{"id":"GO:0010954","count":2}]},{"hash":"221941683490941384","title":"Regulators of Signaling and Gene Regulation","description":"The enriched terms are dominated by regulatory roles across diverse biological contexts\u2014neural regeneration, cell cycle signaling, various cytokine productions, transcriptional regulation, and development. This suggests the proteins act as generalized regulators rather than a single pathway, justifying a label centered on regulatory functions.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":4},{"id":"GO:0007095","count":4},{"id":"GO:0000320","count":4},{"id":"GO:0010954","count":4},{"id":"GO:0038162","count":4}]},{"hash":"885611291904582975","title":"SRP-Dependent Membrane Targeting and ER Stress Regulation","description":"The top GO terms cluster around SRP-dependent and post-translational membrane targeting, plus several ER stress\u2013related apoptotic regulation terms, suggesting a shared function in membrane-associated protein targeting and cellular stress responses; other terms are present but less cohesive.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":1},{"id":"GO:0006880","count":1},{"id":"GO:0031204","count":1},{"id":"GO:0070389","count":1},{"id":"GO:1903382","count":1}]},{"hash":"1331449323967746501","title":"Unknown","description":"The cluster provides no GO terms or functional hints to tie the four proteins together; with no shared annotations or clear thematic signal, there is no basis to define a descriptive label other than Unknown.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[]},{"hash":"175593024874181691","title":"Autophagy and energy metabolism regulators","description":"The terms cluster around control of autophagy (negative regulation of macroautophagy) and energy-related processes (regulation of glycogen biosynthetic/catabolic processes), plus vesicle trafficking (vacuole fusion) and signaling (CDK activity, calcium signaling). This pattern suggests a set of proteins that regulate autophagy and energy metabolism, rather than executing a single enzymatic reaction.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0005981","count":1},{"id":"GO:0042144","count":1},{"id":"GO:0005979","count":1},{"id":"GO:0000079","count":1},{"id":"GO:0016242","count":1}]},{"hash":"794882014719657216","title":"Protein localization and modification regulation","description":"The four proteins share GO terms related to controlling protein fate, trafficking, and post-translational modification, including nuclear export/import, ubiquitination, and lipidation, indicating a theme of regulating protein localization and processing rather than a single distinct function. Note that several terms are obsolete, and overall term coverage is sparse, but the remaining signals point to regulatory roles in protein trafficking and modification.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1903215","count":1},{"id":"GO:0090367","count":1},{"id":"GO:0097192","count":1},{"id":"GO:0010763","count":1},{"id":"GO:0031397","count":1}]},{"hash":"2209160464779900694","title":"Ribosome biogenesis and LSU maturation","description":"The GO terms cluster around ribosome biogenesis, especially maturation and assembly/export of the large ribosomal subunit (LSU), and processing of LSU/5.8S rRNA. While a few terms touch mitochondrial or cell-cycle processes, the dominant theme is ribosome assembly and rRNA maturation, suggesting this cluster represents ribosome biogenesis.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070940","count":1},{"id":"GO:0010867","count":1},{"id":"GO:2000134","count":1},{"id":"GO:1903740","count":1},{"id":"GO:0046902","count":1}]},{"hash":"2044987510301294907","title":"Growth and Immune Development Signaling","description":"The top GO terms show a blend of growth and development processes (osteoblast differentiation, hepatocyte proliferation, placental development, IGF stimulus response) alongside immune-related activities (NK cell cytotoxicity, plasma cell differentiation, interferon production) and stress-induced signaling. This suggests a broad theme of coordinating growth/development with immune signaling rather than a single, cohesive pathway.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010691","count":4},{"id":"GO:0001080","count":4},{"id":"GO:0001892","count":4},{"id":"GO:0045078","count":4},{"id":"GO:1990418","count":4}]},{"hash":"652124719274747984","title":"Histone methylation and chromatin modification","description":"The dominant GO terms point to methylation events affecting chromatin-associated proteins and nucleic acids, including rRNA methylation, rDNA heterochromatin formation, and lysine/terminal methylation of peptides, plus histone-associated regulation like H3-K56 deacetylation. This clearly indicates a cluster centered on epigenetic regulation and chromatin state maintenance via methylation marks. A few other terms seem peripheral and reflect broader biology, but they do not overturn the main chromatin-focused theme.","confidence":"High","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031167","count":2},{"id":"GO:0000183","count":2},{"id":"GO:0018027","count":2},{"id":"GO:0018013","count":1},{"id":"GO:0018023","count":1}]},{"hash":"2180478541534919590","title":"Organogenesis with chromatin remodeling and protein turnover","description":"These proteins are linked to organ development and morphogenesis (otic vesicle formation, lacrimal gland development, atrial septum morphogenesis, embryonic digestive tract morphogenesis) and are also associated with chromatin remodeling and ubiquitin-dependent protein degradation, plus apoptosis/tissue homeostasis regulation. The shared theme is developmental morphogenesis coordinated by chromatin-level control and protein turnover.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0071866","count":1},{"id":"GO:0048557","count":1},{"id":"GO:0060784","count":1}]},{"hash":"207537386755765916","title":"Cytokine signaling and development cues","description":"The top GO terms show a strong emphasis on regulation and production of cytokines (e.g., GM-CSF, IL-4, erythropoietin signaling) and broader signaling pathways, with additional associations to developmental processes (cardiac neural crest development, axon regeneration) and cell cycle regulation. This points to a cluster of proteins that act as signaling regulators coordinating immune signal output and developmental cues, rather than a single enzymatic function. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":4},{"id":"GO:0007095","count":4},{"id":"GO:0000320","count":4},{"id":"GO:0010954","count":4},{"id":"GO:0038162","count":4}]},{"hash":"809963864867876754","title":"Cadmium-induced mitotic DNA damage checkpoints","description":"Top GO terms show cellular response to cadmium ion and mitotic DNA damage checkpoint signaling, indicating these proteins are linked to stress response and control of mitosis in the face of DNA damage. Some other terms appear at lower counts (axon regeneration, erythropoietin signaling, IL-4 production), which may reflect annotation noise rather than core cluster function. Overall, the cluster seems to center on cadmium stress response and cell-cycle checkpoint regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":4},{"id":"GO:0031571","count":4},{"id":"GO:0051436","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0048680","count":2}]},{"hash":"2042838829966110590","title":"ER-associated N-glycosylation and mannose metabolism","description":"The top GO terms point to protein processing in the ER and glycosylation: N-linked glycosylation, targeting to the ER, and mannose-related biosynthetic processes (GDP-mannose biosynthesis). Although a few developmental terms appear (e.g., oogenesis, chondrocyte morphogenesis), they are represented by a single entry and do not define the cluster\u2019s core function. The strongest signal is ER-associated glycosylation and sugar precursor biosynthesis, justifying this label.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048477","count":1},{"id":"GO:0007143","count":1},{"id":"GO:0010923","count":1},{"id":"GO:0090171","count":1},{"id":"GO:0019853","count":1}]},{"hash":"2134845774327662075","title":"Unknown","description":"The terms span development (bone marrow, inner cell mass, bone mineralization), ribosome biogenesis, cell division, immune chemotaxis, metabolism, adipogenesis, and dopaminergic synaptic transmission, with no single GO function uniting them. This suggests the proteins do not reflect a tight, common function, so the label Unknown is appropriate.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048539","count":1},{"id":"GO:0042256","count":1},{"id":"GO:0001833","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0030595","count":1}]},{"hash":"129419140798073935","title":"Unknown","description":"The top GO terms are diverse, spanning aging/senescence, RNA methylation, chlorophyll biosynthesis, respiration, and various methylation events, with no single cohesive function uniting all terms. This lack of a clear common pathway among the proteins makes a specific, intuitive label unlikely.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001300","count":1},{"id":"GO:0031167","count":1},{"id":"GO:0090398","count":1},{"id":"GO:0006972","count":1},{"id":"GO:0036068","count":1}]},{"hash":"237290223840972109","title":"Steroid hormone and retinoid metabolism","description":"This cluster centers on GO terms for biosynthesis and metabolism of steroid hormones (estrogen, androgen, glucocorticoid) and retinoids (retinoic acid, retinol), with related lipid processes such as fatty acid elongation and phylloquinone catabolism, suggesting a cohesive theme of steroid/retinoid lipid metabolism. The combination of multiple hormone biosynthetic terms supports labeling the cluster as steroid and retinoid metabolism rather than unrelated functions. Confidence in this label is High.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0031427","count":4},{"id":"GO:0006704","count":4},{"id":"GO:0046677","count":4},{"id":"GO:0008207","count":4},{"id":"GO:0002138","count":4}]},{"hash":"288619417590851877","title":"Mitochondrial energy metabolism and redox homeostasis","description":"The cluster\u2019s GO terms cluster around core mitochondrial processes: the tricarboxylic acid (TCA) cycle, 2-oxoglutarate and pyruvate-related metabolism, and redox balance, along with regulation of membrane potential and a mitochondria-specific tRNA modification. Together these point to mitochondrial energy production and maintenance of redox state as the central theme of the proteins in this cluster.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0045454","count":1},{"id":"GO:0070899","count":1},{"id":"GO:0042853","count":1}]},{"hash":"1047952493743310873","title":"Unknown","description":"The GO terms are highly diverse, spanning neural axon regeneration, cell cycle checkpoints, cytokine production, erythropoietin signaling, development, and transcriptional regulation, with no single unifying function or pathway evident. The absence of edges further suggests the proteins do not cluster around a specific cohesive process, supporting an Unknown label.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":4},{"id":"GO:0007095","count":4},{"id":"GO:0000320","count":4},{"id":"GO:0010954","count":4},{"id":"GO:0038162","count":4}]},{"hash":"1503154774192428355","title":"Diverse Regulatory Signaling and Cell Cycle","description":"This cluster shows proteins associated with multiple regulatory processes across signaling pathways (cytokine production, erythropoietin signaling), transcriptional regulation, development, and cell-cycle checkpoints, rather than a single coherent function. The lack of interactions and the wide spread of GO terms suggest a broad, non-specific regulatory role rather than a tightly defined pathway.","confidence":"Low","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":3},{"id":"GO:0007095","count":3},{"id":"GO:0000320","count":3},{"id":"GO:0010954","count":3},{"id":"GO:0038162","count":3}]},{"hash":"601077816264459183","title":"Unknown","description":"The GO terms are extremely diverse (axon regeneration, mitotic checkpoints, erythropoietin signaling, cytokine production, development, and transcription regulation), showing no single functional theme. With zero edges among the four proteins, the cluster appears biologically heterogeneous, making a specific, coherent label unlikely.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":1},{"id":"GO:0007095","count":1},{"id":"GO:0000320","count":1},{"id":"GO:0010954","count":1},{"id":"GO:0038162","count":1}]},{"hash":"1900817476854723717","title":"Unknown","description":"The top GO terms span axon regeneration, mitotic cell cycle control, transcriptional regulation, and various cytokine signaling pathways, with no single cohesive function uniting all four proteins. Because of this diversity, there isn't a clear, specific label that accurately represents the cluster's function.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":4},{"id":"GO:0007095","count":4},{"id":"GO:0000320","count":4},{"id":"GO:0010954","count":4},{"id":"GO:0038162","count":4}]},{"hash":"1176877181304412289","title":"Unknown","description":"The Top Terms span diverse regulatory processes\u2014from axon regeneration and erythropoietin signaling to mitotic checkpoints, cytokine production, and development\u2014without a clear, shared biological function linking the proteins. This suggests there is no coherent single-theme function for this cluster based on the GO annotations provided.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":1},{"id":"GO:0007095","count":1},{"id":"GO:0000320","count":1},{"id":"GO:0010954","count":1},{"id":"GO:0038162","count":1}]},{"hash":"1485233114027429243","title":"Unknown","description":"The GO terms span metal/stress responses (cadmium ion, cocaine), innate immune signaling (innate immune response, interleukin-4 production, erythropoietin-mediated signaling), and various cell cycle processes (mitotic cycle, DNA damage checkpoints), with no single clear function tying the proteins together. There are no edges to support a cohesive cluster identity, so a specific functional label is not supported.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":2},{"id":"GO:0042220","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0048680","count":1}]},{"hash":"912644523410267038","title":"Mitochondrial ATP synthase assembly","description":"The four proteins are annotated with GO:0033615 (mitochondrial proton-transporting ATP synthase complex assembly), indicating involvement in assembling the mitochondrial ATP synthase complex.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0033615","count":1}]},{"hash":"1126488775688999377","title":"Unknown","description":"The listed GO terms are highly disparate: positive regulation of glycolytic fermentation to ethanol, thiamine biosynthesis, adult somatic muscle development, and an obsolete localization to mating-type region heterochromatin. With no coherent functional theme or interactions among the proteins, there isn\u2019t a clear shared biology to bind the cluster.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001172","count":1},{"id":"GO:0090180","count":1},{"id":"GO:0007527","count":1},{"id":"GO:1903212","count":1}]},{"hash":"125593665934575777","title":"Epigenetic Regulation & Chromatin Silencing","description":"The listed GO terms converge on chromatin-based control of gene expression: histone modifications (ubiquitination, methylation), DNA methylation, heterochromatin formation, and gene silencing (including siRNA-directed methylation), plus cohesion and cell cycle regulation. This indicates a cluster of proteins involved in establishing or maintaining epigenetic states rather than catalytic metabolism or signaling pathways.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010390","count":1},{"id":"GO:0034968","count":1},{"id":"GO:0010424","count":1},{"id":"GO:0051865","count":1},{"id":"GO:0010216","count":1}]},{"hash":"2028873856992640513","title":"Sphingolipid and phospholipid metabolism","description":"The top GO terms cluster around lipid metabolism: sphingosine metabolic process, sphinganine-1-phosphate metabolic process, phospholipid dephosphorylation, phospholipid catabolic process, and phosphatidylglycerol biosynthetic process, indicating a cohesive role in lipid synthesis and signaling. Some Wnt-related terms appear but seem ancillary/noise; the dominant theme is lipid metabolism, justifying this label.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0044330","count":1},{"id":"GO:0044328","count":1},{"id":"GO:0006670","count":1},{"id":"GO:0015760","count":1},{"id":"GO:0046839","count":1}]},{"hash":"1751024787589925051","title":"Histone acetylation and transcription regulation","description":"The GO terms cluster around histone acetylation (H3 and H4 lysine sites) and regulation of transcription by RNA polymerase II, suggesting these proteins function in chromatin modification that modulates transcription.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043966","count":1},{"id":"GO:0043981","count":1},{"id":"GO:0043983","count":1},{"id":"GO:0043982","count":1},{"id":"GO:0006357","count":1}]},{"hash":"1708714866519163330","title":"Amino acid catabolism and glutathione-mediated detox","description":"GO terms indicate catabolic processes for tyrosine and phenylalanine, methylglyoxal detox via glutathione, and glutathione metabolism, along with xenobiotic detox and redox-related processes; a few terms on transcription regulation and mitophagy appear but do not define the core theme, suggesting a detox/metabolic cluster rather than a signaling module.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0019243","count":1},{"id":"GO:0006572","count":1},{"id":"GO:0006559","count":1},{"id":"GO:0006749","count":1}]},{"hash":"1457203699598652914","title":"Unknown","description":"There are no shared GO terms provided for this cluster, and with only four proteins and three edges, no clear functional theme emerges. Therefore, a safe label is Unknown.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[]},{"hash":"878140563919538394","title":"Unknown","description":"These proteins are annotated with a highly diverse set of GO terms spanning immune differentiation, neural development, cell cycle regulation, cytoskeleton remodeling, and autophagy, with no clear shared function or pathway across all members. The absence of any edges and the presence of mostly singleton terms suggests the annotations may be incidental rather than reflecting a cohesive biological module. Therefore no unambiguous descriptive label can be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000973","count":1},{"id":"GO:0021744","count":1},{"id":"GO:1900169","count":1},{"id":"GO:2001181","count":1},{"id":"GO:0060268","count":1}]},{"hash":"1726390266813622296","title":"Neurovascular morphogenesis","description":"This cluster is enriched for neural development terms (interneuron migration to cortex; negative regulation of neuron apoptotic process) and vascular development terms (sprouting angiogenesis; establishment of endothelial barrier), pointing to coordinated formation of neural tissue and its vasculature. While some terms like intracellular copper ion homeostasis and reticulophagy are broader, the dominant theme is development and remodeling at neural-vascular interfaces, hence neurovascular morphogenesis.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0061383","count":3},{"id":"GO:0021830","count":3},{"id":"GO:0010514","count":3},{"id":"GO:0061028","count":3},{"id":"GO:0071806","count":3}]},{"hash":"2005692614359046454","title":"Unknown","description":"I cannot infer a common function from this cluster; there are no edges and no GO terms to link the proteins, so a reliable label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"895393619575833403","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning immune signaling, plant development, gravitropism, membrane repair, and cardiac processes, with each term appearing only once. There is no unifying pathway or function evident among the terms, and there are no edges connecting proteins to form a coherent cluster, so a meaningful specific label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":1},{"id":"GO:0060776","count":1},{"id":"GO:0009958","count":1},{"id":"GO:0001778","count":1},{"id":"GO:0045497","count":1}]},{"hash":"515864424338627285","title":"Fungal meiosis and sporulation","description":"The top GO terms strongly point to meiotic processes (meiotic cell cycle, meiotic DNA double-strand break formation involved in reciprocal meiotic recombination) and sporulation (ascospore formation). \"Cell budding\" also fits fungal reproductive development. Other terms like unfolded protein response or glycogen metabolism appear less connected, suggesting some noise, but the core signal supports fungal meiosis and sporulation as the cluster theme.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006986","count":3},{"id":"GO:0005977","count":3},{"id":"GO:0016576","count":3},{"id":"GO:0050728","count":3},{"id":"GO:0051321","count":3}]},{"hash":"1910215436395495611","title":"Meiosis and sporulation processes","description":"Taken together, the top GO terms include meiotic cell cycle, meiotic DNA double-strand break formation involved in reciprocal meiotic recombination, and ascospore formation, which point toward sexual development and sporulation, particularly in fungi. Other terms present (unfolded protein response, glycogen metabolic process, dephosphorylation, etc.) are more general or incidental, but the meiosis/sporulation-related terms dominate the short list, justifying a label centered on these processes.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006986","count":1},{"id":"GO:0005977","count":1},{"id":"GO:0016576","count":1},{"id":"GO:0050728","count":1},{"id":"GO:0051321","count":1}]},{"hash":"40023305860338720","title":"Unknown","description":"The top GO terms include neural development (axon regeneration, axon fasciculation, planar polarity) and diverse immune signaling (interleukin pathways, erythropoietin signaling, integrin signaling) with no clear, singular shared function linking all three proteins. There are also no edges to strengthen a specific role. Therefore this cluster is Unknown with confidence None.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":1},{"id":"GO:0046641","count":1},{"id":"GO:0008285","count":1},{"id":"GO:0097156","count":1},{"id":"GO:0070671","count":1}]},{"hash":"284310636617063249","title":"ER stress response and protein quality control","description":"This cluster centers on ER-associated processes: tail-anchored membrane protein insertion into the ER, ERAD/unfolded protein handling, autophagosome maturation regulation, and aggresome assembly, plus negative regulation of ER stress\u2013induced apoptotic signaling. While one term touches innate immune signaling (MyD88/TLR), the dominant theme is ER-centered protein quality control and stress responses, with autophagy and degradation pathways tying the functions together.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090204","count":2},{"id":"GO:1901340","count":2},{"id":"GO:1901097","count":2},{"id":"GO:0000753","count":2},{"id":"GO:0071816","count":2}]},{"hash":"1710315785712849396","title":"Ribosome Biogenesis and Translation","description":"This cluster is characterized by GO terms tied to ribosome biogenesis, ribosomal large subunit assembly, cytoplasmic translation, and SRP-dependent cotranslational targeting to membranes, indicating a shared role in ribosome assembly and protein synthesis with cotranslational targeting. A few terms (interleukin-4 response; activation of protein kinase activity) appear unrelated and likely incidental. Overall, the core signals point to ribosome function and translation.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071353","count":1},{"id":"GO:0032147","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0002181","count":1}]},{"hash":"1246833305497348010","title":"Unknown","description":"GO terms across immune signaling, ubiquitination, and unrelated plant/kidney processes show no cohesive shared function, so a single definitive label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043380","count":2},{"id":"GO:0009958","count":2},{"id":"GO:0045497","count":2},{"id":"GO:0009638","count":2},{"id":"GO:0050853","count":2}]},{"hash":"540651116924259466","title":"Unknown","description":"There are no GO terms or connections described for this cluster, so there is no evident shared function to label. With no functional signals, the most appropriate label is Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1607740247893184420","title":"RNA Splicing and Translation Regulation","description":"This cluster is dominated by GO terms related to RNA processing and control of translation, including mRNA splicing via the spliceosome, splice-site recognition, regulation of translational initiation, miRNA-mediated silencing, and IRES-dependent translation, indicating a coherent role in RNA maturation and translational regulation. A couple of peripheral terms are present but do not override the main RNA-focused theme.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010951","count":1},{"id":"GO:0001558","count":1},{"id":"GO:0050819","count":1},{"id":"GO:0035278","count":1},{"id":"GO:0006446","count":1}]},{"hash":"1038574020956073216","title":"Ribosome assembly and translation","description":"These proteins and GO terms cluster around core protein synthesis processes: translation (GO:0006412), regulation of translation (GO:0006417), translational termination (GO:0006415), ribosomal large subunit assembly (GO:0000027), LSU rRNA maturation (GO:0000470), and mitochondrial translation (GO:0032543). This indicates a shared function in ribosome biogenesis and translation machinery, spanning both cytosolic and mitochondrial contexts.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0000470","count":1},{"id":"GO:0006417","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0032543","count":1}]},{"hash":"125146244215028544","title":"Unknown","description":"No GO terms or shared functional signals are provided for this cluster (Top Terms empty and no edges/triangles), so a confident functional label cannot be assigned; thus the cluster is Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1386093407635784268","title":"RNA processing and translation initiation control","description":"This cluster centers on RNA metabolism: mRNA splicing, spliceosome activity, and export, alongside regulation of translation initiation (including eIF4F complex assembly) and miRNA-mediated silencing, indicating a shared role in RNA processing and translational control.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035278","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0048026","count":2},{"id":"GO:1903586","count":2}]},{"hash":"1347615955673648837","title":"Unknown","description":"There are no GO terms, edges, or other functional signals tying these proteins together in the cluster, making it impossible to infer a common function. With no shared functional annotation or interaction evidence, the label remains Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"613192410229825581","title":"Insect neural and sensory organ development","description":"The top GO terms cluster around development of nervous system and sensory structures in insects, including antennal and compound eye development and CNS/metencephalon formation, indicating a common theme of insect neurodevelopment and sensory organ formation. Some terms are obsolete or peripheral (e.g., certain metabolic or mating-type terms), but the dominant signal is neural/sensory development.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007379","count":1},{"id":"GO:0007469","count":1},{"id":"GO:1902064","count":1},{"id":"GO:0021556","count":1},{"id":"GO:0048749","count":1}]},{"hash":"1745219053817368385","title":"Transmembrane Metabolite Transport","description":"The proteins are associated with diverse transmembrane transport activities, including import of amino acids, long-chain fatty acids into peroxisomes, glycerophosphodiesters, taurine, and glutathione, as well as ceramide translocation and cytosol-to-ER transport. While a few immune-related terms are present, the strongest common theme is movement of metabolites across membranes and into organelles, justifying a transport-focused cluster label.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0061072","count":1},{"id":"GO:0099040","count":1},{"id":"GO:0071996","count":1},{"id":"GO:0002489","count":1},{"id":"GO:0046967","count":1}]},{"hash":"714916732501688619","title":"Unknown","description":"There is no functional signal among the cluster: zero edges/triangles and no top GO terms to converge on a shared function, so a meaningful label cannot be inferred.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1045369021113823143","title":"Nuclear ribosome biogenesis and replication licensing","description":"The GO terms show ribosome biogenesis and ribosomal subunit assembly, plus pre-replicative complex assembly involved in nuclear DNA replication, suggesting proteins involved in nuclear macromolecular assembly processes for ribosome production and replication licensing. The polar nucleus fusion term appears as an outlier, likely noise, but the dominant theme is nuclear assembly-related functions. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010197","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0006267","count":1}]},{"hash":"355503251543185077","title":"Unknown","description":"The top GO terms are radically diverse, covering DNA replication, rRNA processing, protein import, RNA surveillance, and even neuronal signaling and learning, plus a bacterial DNA restriction-modification term; with only 3 proteins and no clear shared function, there isn\u2019t a cohesive theme to name the cluster confidently (several terms are obsolete as well).","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000616","count":1},{"id":"GO:0006269","count":1},{"id":"GO:0017038","count":1},{"id":"GO:0000466","count":1},{"id":"GO:1990416","count":1}]},{"hash":"1537238264461175466","title":"Unknown","description":"The terms include diverse processes such as transcription regulation during mitosis, chromosome condensation, synaptonemal complex assembly, organelle and vesicle transport, meiosis-related development, and even immune cell degranulation, with no single cohesive function linking them all. A stable, representative label cannot be confidently assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007070","count":1},{"id":"GO:0034244","count":1},{"id":"GO:0032438","count":1},{"id":"GO:0070058","count":1},{"id":"GO:0007130","count":1}]},{"hash":"1094064444976217729","title":"Nuclear replication and transport","description":"The top GO terms point to nuclear processes: pre-replicative complex assembly involved in nuclear cell cycle DNA replication (replication initiation) and ribosomal subunit export from the nucleus (nuclear transport). The presence of a cellular response to estrogen stimulus suggests nuclear signaling or transcriptional regulation. Together these indicate a cluster centered on nuclear functions related to DNA replication initiation and nucleocytoplasmic transport, though the small set and some miscellaneous terms limit stronger specificity.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044376","count":1},{"id":"GO:0000054","count":1},{"id":"GO:0030174","count":1},{"id":"GO:0071391","count":1},{"id":"GO:0006267","count":1}]},{"hash":"591389626669453951","title":"Unknown","description":"The GO terms span embryonic skeletal development, DNA replication and mitotic control, and several signaling or cytokine-related processes, with no single dominant function tying them together. This spread across developmental, cell-cycle, and immune signaling themes suggests no cohesive cluster-level theme can be confidently assigned. Therefore, Unknown with no confidence.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048701","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0048680","count":2},{"id":"GO:0007095","count":2},{"id":"GO:0000320","count":2}]},{"hash":"1365109650380582310","title":"ER protein trafficking and localization","description":"Top GO terms highlight localization to the endoplasmic reticulum, ER-to-cytosol retrograde transport, and endosome localization, pointing to a common function in intracellular protein trafficking and quality control (ERAD). While some terms touch neural and immune processes, the strongest unifying signal is ER-related trafficking.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097051","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0030970","count":1},{"id":"GO:0010936","count":1},{"id":"GO:0036010","count":1}]},{"hash":"435194494668259882","title":"Unknown","description":"The top GO terms span diverse processes from plant oxylipin and brassinosteroid biosynthesis to animal reproductive and metabolic pathways, copper response, and methylation, with no clear shared function or pathway tying the proteins together. With such heterogeneity and only a few proteins represented, there isn\u2019t a coherent label that accurately captures the cluster\u2019s function.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031408","count":1},{"id":"GO:0017143","count":1},{"id":"GO:0010268","count":1},{"id":"GO:0071280","count":1},{"id":"GO:0060137","count":1}]},{"hash":"1530487179562919856","title":"Unknown","description":"The top GO terms span immune regulation, neural/axonal processes, cell cycle checkpoints, signaling pathways, and developmental processes, with no clear, single function linking the proteins. This diversity suggests no coherent cluster function can be confidently assigned beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":3},{"id":"GO:0048680","count":1},{"id":"GO:0007095","count":1},{"id":"GO:0000320","count":1},{"id":"GO:0010954","count":1}]},{"hash":"1748372008474489101","title":"Neural development and neurogenesis","description":"This cluster is characterized by dominant nervous system development terms (forebrain development, neural tube closure, dendrite morphogenesis, nervous system development) indicating a neural development theme. The accompanying terms for DNA-templated transcription, DNA replication, and mitotic cell cycle suggest proliferating neural progenitors, aligning with neurogenesis and early neural differentiation processes.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0030900","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0007399","count":3}]},{"hash":"1135444811060590241","title":"Mitotic DNA replication and telomere maintenance","description":"GO terms cluster around mitotic DNA replication, telomere maintenance, and replication fork progression, with additional DNA repair and RNA primer removal during replication; together they indicate a genome-stability role during cell division and telomere regulation.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1902983","count":2},{"id":"GO:0032211","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0051974","count":2},{"id":"GO:0043504","count":2}]},{"hash":"204896669949550313","title":"Metal-induced DNA damage response and ubiquitination","description":"The top GO terms center on cellular response to cadmium ion and mitotic G1 DNA damage checkpoint signaling, along with regulation of protein ubiquitination and SCF-dependent proteasomal degradation. This suggests a shared theme where metal stress activates DNA damage responses and relies on ubiquitin-mediated protein turnover to control replication initiation and cell-cycle checkpoints, with a few additional terms (circadian regulation, neuronal signaling) that are less central to this core pattern.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":2},{"id":"GO:0031571","count":2},{"id":"GO:1902916","count":1},{"id":"GO:0030174","count":1},{"id":"GO:0042752","count":1}]},{"hash":"2171589305791881555","title":"Unknown","description":"The GO terms are highly diverse, spanning immune regulation, neural/plasticity processes, development, protein processing, and lipid metabolism, with no clear shared function or pathway tying all three proteins together. Therefore a cohesive, specific label cannot be assigned.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":1},{"id":"GO:1900383","count":1},{"id":"GO:1901491","count":1},{"id":"GO:1903895","count":1},{"id":"GO:0060988","count":1}]},{"hash":"129324632736199006","title":"Unknown","description":"The GO terms are highly diverse, spanning unfolded protein response, chaperone-related folding, ubiquitination, and protein isomerization, with additional plant-specific processes (photosynthesis, chlorophyll regulation) and unrelated terms (prostate development, morphine response). There is no clear shared function or pathway across these terms, and the cluster has no network connections, so a cohesive label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903646","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0015979","count":2},{"id":"GO:0006463","count":2},{"id":"GO:0070979","count":2}]},{"hash":"1167919017178171764","title":"Unknown","description":"The GO terms are very heterogeneous: axon regeneration, mitotic cell cycle and DNA damage checkpoint signaling, erythropoietin and cytokine signaling, transcription regulation, and developmental processes. There is no single cohesive function tying these proteins together, so a concise representative label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":2},{"id":"GO:0007095","count":2},{"id":"GO:0000320","count":2},{"id":"GO:0010954","count":2},{"id":"GO:0038162","count":2}]},{"hash":"1233092729759248362","title":"Unknown","description":"The top GO terms span neural regeneration, cell cycle regulation, hematopoietic/immune signaling, and development, with no single coherent function tying all three proteins together. Therefore a specific label is not well-supported; Unknown is appropriate.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":3},{"id":"GO:0007095","count":3},{"id":"GO:0000320","count":3},{"id":"GO:0010954","count":3},{"id":"GO:0038162","count":3}]},{"hash":"1676584019562926359","title":"Unknown","description":"There are no GO terms listed and no interactions among the proteins (edges/triangles = 0), so no common functional theme can be inferred from the data provided.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1432850028877218553","title":"Mitochondrial Lipid Metabolism and Apoptosis Regulation","description":"These terms cluster around lipid metabolism (fatty acid biosynthesis/elongation, cholesterol transport) and mitochondrial regulation of cell death (MOMP and apoptotic signaling). Although a few terms (liver development, sporulation) are less directly related, the recurring emphasis on mitochondrial membrane permeability and lipid pathways suggests a cohesive function in coordinating lipid metabolism with apoptosis.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":1},{"id":"GO:1901029","count":1},{"id":"GO:0051792","count":1},{"id":"GO:0030435","count":1},{"id":"GO:0009725","count":1}]},{"hash":"796496165147107926","title":"Regulated signaling in development and hematopoiesis","description":"The cluster's GO terms cluster around positive/negative regulation of signaling, transcription, and immune/hematopoietic processes, spanning axon regeneration, erythropoietin signaling, IL-4 and GM-CSF production, and neural crest/heart development, suggesting a theme of regulatory signaling governing development and proliferation rather than a single function.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":3},{"id":"GO:0007095","count":3},{"id":"GO:0000320","count":3},{"id":"GO:0010954","count":3},{"id":"GO:0038162","count":3}]},{"hash":"279848969144340608","title":"Lipid biosynthesis and ER organization","description":"Based on the top GO terms, the proteins in this cluster are linked to lipid metabolism, including galactolipid and triglyceride biosynthesis, fatty acid catabolism, and lipid droplet organization. Additional terms point to endoplasmic reticulum organization, suggesting a shared context of lipid processing and organelle remodeling. The presence of nucleus-related terms (nuclear organization, lamin depolymerization) may reflect broader cell structure dynamics but do not override the lipid-centric theme.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019375","count":1},{"id":"GO:0034389","count":1},{"id":"GO:0007078","count":1},{"id":"GO:0019432","count":1},{"id":"GO:0007029","count":1}]},{"hash":"2230996047745935820","title":"Unknown","description":"The GO terms here span very different biological themes\u2014axon regeneration, immune signaling, cardiac development, and general cell-cycle and transcriptional regulation\u2014without a clear shared function. With only three proteins and a couple of connections, there isn\u2019t a cohesive theme to define a specific, representative label, so it\u2019s appropriate to mark this as Unknown.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048680","count":1},{"id":"GO:0007095","count":1},{"id":"GO:0000320","count":1},{"id":"GO:0010954","count":1},{"id":"GO:0038162","count":1}]},{"hash":"457890217303307371","title":"Unknown","description":"Top terms mix cytokine signaling (erythropoietin pathway, IL-4 and GM-CSF production), development (cardiac neural crest), and cell-cycle/damage response terms with no single unifying function. Therefore, a concise, representative label cannot be determined.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":3},{"id":"GO:0007095","count":3},{"id":"GO:0000320","count":3},{"id":"GO:0010954","count":3},{"id":"GO:0038162","count":3}]},{"hash":"1343214592499833352","title":"Unknown","description":"The top GO terms span neural regeneration regulation, immune signaling and cytokine production, erythropoietin signaling, cardiac development, and cell cycle control, with no single dominant function tying the proteins together; thus no cohesive, specific label can be confidently assigned to this cluster.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":3},{"id":"GO:0007095","count":3},{"id":"GO:0000320","count":3},{"id":"GO:0010954","count":3},{"id":"GO:0038162","count":3}]},{"hash":"1190395613981379307","title":"Telomere Heterochromatin Formation and DNA Replication Repair","description":"The top GO terms cluster around heterochromatin formation, subtelomeric/telomeric chromatin, and DNA replication/repair processes (replication initiation regulation, replication fork protection, break-induced replication). This points to a shared role in maintaining chromatin state at telomeres while coordinating DNA replication and repair; extraneous terms like response to cocaine/toxic substances appear peripheral. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0030174","count":1},{"id":"GO:0031939","count":1},{"id":"GO:0006348","count":1}]},{"hash":"1269714111004275607","title":"Broad regulation of signaling and development","description":"The GO terms point to regulation across diverse contexts\u2014axon regeneration, mitotic signaling, cytokine production, erythropoietin signaling, cardiac neural crest development, and more\u2014rather than a single coherent pathway. This suggests the proteins act in general regulatory roles across multiple signaling and developmental processes, not a specific function. Confidence in this broad label is Medium.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048680","count":3},{"id":"GO:0007095","count":3},{"id":"GO:0000320","count":3},{"id":"GO:0010954","count":3},{"id":"GO:0038162","count":3}]},{"hash":"1717926573761727710","title":"Central carbon metabolism (TCA and glyoxylate cycle)","description":"The terms cluster around core metabolic pathways: glyoxylate cycle, TCA cycle, isocitrate and 2-oxoglutarate metabolism, plus related processes like leucine biosynthesis and glutathione metabolism. A few outlier terms (steroid hormone response, female gonad development) may be annotation noise, but they don\u2019t define the main theme. Confidence in this label is moderate due to these conflicting terms.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006097","count":1},{"id":"GO:0006102","count":1},{"id":"GO:0006099","count":1},{"id":"GO:0006537","count":1},{"id":"GO:0006103","count":1}]},{"hash":"866524032210315947","title":"Chromatin Regulation & DNA Replication","description":"The terms cluster around chromatin organization (heterochromatin formation, subtelomeric silencing) and control of DNA replication and repair (regulation of DNA-templated replication initiation, replication fork protection, break-induced replication), suggesting a chromatin/DNA maintenance module. A few outliers (photosynthesis, cilium movement) likely reflect annotation noise or multi-functional proteins, but do not dominate the cluster. ","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030174","count":1},{"id":"GO:0031939","count":1},{"id":"GO:0015979","count":1},{"id":"GO:0030163","count":1},{"id":"GO:0006348","count":1}]},{"hash":"202674588670552872","title":"Vacuolar targeting and endocytosis","description":"The top GO terms cluster around vacuolar processes: targeting proteins to the vacuole, vacuole organization, and vacuolar acidification, plus receptor-mediated endocytosis. Together with associated transport (proton, ion) activities, this points to a module involved in delivering and processing cargo in the vacuole, i.e., vacuolar trafficking and function.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042777","count":1},{"id":"GO:0006626","count":1},{"id":"GO:0007035","count":1},{"id":"GO:0015991","count":1},{"id":"GO:0006814","count":1}]},{"hash":"2046270850522218714","title":"Unknown","description":"There are no shared GO terms or interactions among the proteins (0 edges, 0 triangles), so there is no coherent functional theme to label. Without enrichment or connectivity, the cluster cannot be confidently characterized.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1457360757254111356","title":"Anaerobic respiration and nitrogen metabolism","description":"The top GO terms cluster around metabolism related to energy production under low oxygen, including formate metabolism, anaerobic and cellular respiration, nitrate assimilation, nitrogen fixation, ROS metabolism, and tetrahydrofolate metabolism, with a noted emphasis on mitochondrial membrane potential regulation. A couple of terms about endothelial differentiation/VEGF signaling appear less connected to metabolism, which may reflect annotation noise or cross-species annotations. Overall, the dominant theme is anaerobic energy and nitrogen metabolism, supporting this label.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015942","count":1},{"id":"GO:0045333","count":1},{"id":"GO:0045602","count":1},{"id":"GO:0009061","count":1},{"id":"GO:1900747","count":1}]},{"hash":"758418347144231101","title":"Unknown","description":"The listed GO terms are highly diverse, spanning circadian regulation, plant flower development, B cell signaling, spindle apparatus localization, ubiquitination, glutamate receptor activity, tRNA modification, protein oligomerization, and renal ion transport. There is no clear, dominant biological theme connecting these proteins, and the cluster has minimal connectivity (one edge, no triangles), suggesting it may be an incidental grouping rather than a cohesive functional module.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042752","count":2},{"id":"GO:0009911","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0035853","count":2},{"id":"GO:0031397","count":2}]},{"hash":"800202573557917078","title":"Diverse Membrane Transporters","description":"The GO terms are all about transmembrane transport across membranes for a wide range of substrates (vitamins, xenobiotics, sugars, ions, organic anions, sialic acid, nitrate, and neurotransmitter loading). This points to a cluster of transporter proteins with broad substrate specificity rather than a single substrate, justifying a general label of membrane transporters with diverse substrates.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":3},{"id":"GO:0006855","count":3},{"id":"GO:0035435","count":2},{"id":"GO:0044381","count":2},{"id":"GO:0015751","count":2}]},{"hash":"685299388090875102","title":"Unknown","description":"The top terms form a highly heterogeneous mix, including RNA processing (RNA guanine-N7 methylation, rRNA maturation), RNA localization, protein degradation, development (retina and dendrite), fertilization, and even immune defense. There isn't a cohesive, single biological function or pathway tying these terms together, so a concise, representative label cannot be assigned beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036265","count":2},{"id":"GO:0045451","count":1},{"id":"GO:0000466","count":1},{"id":"GO:2000060","count":1},{"id":"GO:0007338","count":1}]},{"hash":"496556726321251804","title":"Unknown","description":"The top terms span unfolded protein response, photosynthesis, ubiquitination, morphine response, leptin signaling, and mitotic regulation, showing no single cohesive biological theme linking the proteins. This diversity suggests the cluster does not reflect one well-defined function.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903646","count":1},{"id":"GO:0006986","count":1},{"id":"GO:0015979","count":1},{"id":"GO:0006463","count":1},{"id":"GO:0003085","count":1}]},{"hash":"327588099350834572","title":"Unknown","description":"The top GO terms span circadian rhythm regulation, plant development, immune signaling, mitotic spindle localization, ubiquitination regulation, tRNA modification, and renal ion transport, with no clear single function linking the proteins. The presence of an obsolete term and diverse processes suggests no coherent cluster theme.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042752","count":1},{"id":"GO:0009911","count":1},{"id":"GO:0050853","count":1},{"id":"GO:0035853","count":1},{"id":"GO:0031397","count":1}]},{"hash":"1687399118960461361","title":"RNA processing and translation regulation","description":"This cluster centers on post-transcriptional control of gene expression, spanning mRNA splicing and export (spliceosome, splice site recognition, mRNA export) as well as translation initiation and miRNA-mediated silencing (translation initiation factors, regulation of translational initiation, IRES-dependent translation, miRNA silencing). The common theme is RNA metabolism and control of how transcripts are processed and translated, rather than a single linear pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035278","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0075522","count":1},{"id":"GO:0048026","count":1},{"id":"GO:1903586","count":1}]},{"hash":"1853032975752146713","title":"Unknown","description":"The terms span lipid metabolism, immune signaling, development, and apoptosis/ER stress, with no clear single function tying the proteins together, so a cohesive, specific label cannot be assigned.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060988","count":1},{"id":"GO:0010954","count":1},{"id":"GO:0032633","count":1},{"id":"GO:0043524","count":1},{"id":"GO:0048368","count":1}]},{"hash":"2165316811250011672","title":"Oxidative and metal ion stress response","description":"The top GO terms are dominated by cellular responses to oxidative stress and metal exposure (copper ion, singlet oxygen, diamide, arsenite) and to misfolded proteins, pointing to a cohesive theme of stress management and proteostasis. A few terms about embryonic development appear but are not as representative of the cluster\u2019s core function, so the primary label reflects the shared stress-response role. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071280","count":1},{"id":"GO:0000304","count":1},{"id":"GO:0001892","count":1},{"id":"GO:0060136","count":1},{"id":"GO:0034620","count":1}]}]