[{"hash":"1878023244932148506","title":"Unknown","description":"GO terms not provided for this cluster, so no shared functional theme can be inferred. Despite many edges and a high triangle count suggesting a potential protein complex or interaction module, there is no GO-based signal to justify a more specific label. ","confidence":"","size":29,"edges":401,"triangles":3521,"max_degree":28,"top_function":null,"top_go_terms":[]},{"hash":"2253516797350103221","title":"Ubiquitination and Genome Maintenance","description":"Several top GO terms cluster around ubiquitin-related regulation (negative regulation of neuron apoptotic process, ubiquitin-dependent ERAD, and protein autoubiquitination) alongside core genome maintenance processes (DNA replication, chromosome segregation, nucleotide-excision repair). Additional terms touching antiviral signaling (cellular response to interleukin-4 and type II interferon) and viral processes suggest a broader role for ubiquitin signaling in stress and antiviral responses that can intersect genome maintenance. Overall, this seems to represent a module where ubiquitin-mediated proteostasis influences DNA replication/repair and cell-cycle dynamics, with some immune signaling overlap. Confidence: Medium","confidence":"","size":29,"edges":122,"triangles":190,"max_degree":16,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0043524","count":6},{"id":"GO:0030433","count":5},{"id":"GO:0007059","count":5},{"id":"GO:0051865","count":4},{"id":"GO:0016032","count":4}]},{"hash":"1843926086825069279","title":"Dopaminergic signaling and cocaine response","description":"These proteins appear to cluster around neural signaling and drug-response functions, highlighted by terms like synaptic transmission, dopaminergic, and behavioral response to cocaine. ERBB signaling may reflect broader neural signaling contexts, while a few terms (face development, fibroblast migration, nuclear transport) could be less central or reflect broader annotation. Overall, the set likely represents proteins involved in dopamine-related neural communication and cocaine-response pathways.","confidence":"Medium","size":29,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046827","count":3},{"id":"GO:0060324","count":2},{"id":"GO:1904637","count":2},{"id":"GO:0007094","count":2},{"id":"GO:0033160","count":2}]},{"hash":"1012359116123025594","title":"RNA Translation Regulation and Protein Quality Control","description":"The cluster\u2019s strongest signals are in RNA metabolism and translation control: nonfunctional rRNA decay, formation of the translation preinitiation complex, regulation of translational initiation, and IRES-dependent translation. Added protein quality control is reflected by proteasomal ubiquitin-dependent degradation, protein deneddylation, and misfolded protein catabolic processes. A couple of terms (DNA repair, regulation of the cell cycle) hint at broader cellular maintenance but do not redefine the core theme of RNA/translation regulation linked to proteostasis.","confidence":"High","size":29,"edges":37,"triangles":16,"max_degree":10,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0070651","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0006446","count":2},{"id":"GO:0000338","count":2},{"id":"GO:0075522","count":2}]},{"hash":"972830082186007956","title":"Muscle and Heart Development Regulation","description":"The top GO terms cluster around skeletal muscle development and differentiation (negative regulation of skeletal muscle tissue development, skeletal muscle cell differentiation) and heart development, with supporting signals from glucocorticoid signaling, kinase activity regulation, deubiquitination, and protein localization. This pattern suggests a regulatory module governing muscle and cardiac development and their associated signaling pathways rather than a single enzymatic activity. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048642","count":2},{"id":"GO:1900037","count":2},{"id":"GO:0071901","count":2},{"id":"GO:0042921","count":2},{"id":"GO:1902035","count":1}]},{"hash":"1514421756406665663","title":"Unknown","description":"The terms are highly heterogeneous, including wybutosine biosynthesis, mitochondrial intermembrane space import, skeletal muscle differentiation and sarcomere organization, circadian rhythm regulation, ubiquitin-dependent proteolysis, and other unrelated processes. There isn't a single cohesive function that ties all 29 proteins together, so the label Unknown with no strong confidence is most appropriate.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031591","count":2},{"id":"GO:0045041","count":2},{"id":"GO:0035914","count":1},{"id":"GO:0045214","count":1},{"id":"GO:0019762","count":1}]},{"hash":"288117048920243686","title":"Developmental signaling and transcription regulation","description":"The top terms center on developmental signaling (ephrin receptor signaling pathway, regulation of axonogenesis) and transcriptional control (DNA-templated transcription and its negative regulation), with supporting themes of DNA replication, mitotic cell cycle, and apoptosis, indicating a set of proteins coordinating signaling cues with transcriptional and cell-cycle regulation during development.","confidence":"Medium","size":28,"edges":24,"triangles":10,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0048013","count":2},{"id":"GO:0045071","count":2}]},{"hash":"1916612190220176817","title":"Broad Developmental and Immune Signaling","description":"The top GO terms show a mix of skeletal muscle and nervous system development, neurotransmitter secretion, B cell receptor signaling, defense responses to bacteria, angiogenesis, and transcription regulation, plus vesicle trafficking and kinase regulation. This points to broad developmental and signaling roles spanning multiple tissues (muscle, nervous system) and immune signaling, rather than a single, cohesive pathway. Confidence: Medium","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":3},{"id":"GO:0045944","count":3},{"id":"GO:0042144","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0007269","count":3}]},{"hash":"2272584847286072395","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":63,"triangles":32,"max_degree":10,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0042255","count":3},{"id":"GO:0042254","count":3},{"id":"GO:1902626","count":3},{"id":"GO:0000480","count":3}]},{"hash":"1667186029120736622","title":"RNA processing and splicing machinery","description":"Based on the top GO terms, the cluster centers on RNA maturation and post-transcriptional regulation: maturation of SSU-rRNA, snRNP/spliceosome assembly, tRNA processing, histone mRNA metabolism, and RNA polymerase II termination, with involvement in P-body\u2013associated mRNA turnover. While a couple terms touch on chromatin or plant-specific signals, the strongest signal is RNA processing and splicing where these proteins likely participate. ","confidence":"Medium","size":27,"edges":153,"triangles":486,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030490","count":8},{"id":"GO:0000387","count":7},{"id":"GO:0000245","count":7},{"id":"GO:0070317","count":7},{"id":"GO:0033962","count":7}]},{"hash":"2073825816044312516","title":"Unknown","description":"The top terms include stress/toxin response, face development and neural tube patterning, signaling pathway regulation, biofilm formation, cytokine production, transcription elongation, cell polarity, nitric oxide response, and centrosome duplication, with no single cohesive biological theme connecting them all.","confidence":"","size":27,"edges":29,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":3},{"id":"GO:0060324","count":2},{"id":"GO:1901621","count":2},{"id":"GO:0090606","count":2},{"id":"GO:2001184","count":2}]},{"hash":"1182619132230839166","title":"Copper ion transport and homeostasis","description":"This cluster is dominated by GO terms related to copper handling, including regulation of copper ion transmembrane transport, copper ion import, and intracellular copper ion homeostasis, pointing to a cohesive role in copper transport and metal ion balance. A few terms like xenobiotic transmembrane transport and iron-sulfur cluster assembly touch on related metal biology, while translation and flower development appear unrelated noise. Overall, the common theme is copper transport/homeostasis across membranes.","confidence":"Medium","size":27,"edges":15,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:1902311","count":1},{"id":"GO:0015680","count":1},{"id":"GO:0072719","count":1},{"id":"GO:0006878","count":1},{"id":"GO:0098705","count":1}]},{"hash":"1704451119021639180","title":"Unknown","description":"The top terms are a mix of unrelated processes (NOS regulation, farnesylation, cytokine response, deacetylase activity, neurotransmitter receptor metabolism, channel clustering, tubulin deacetylation, pheromone maturation) and there are no edges connecting the proteins, so there is no clear, shared function to label the cluster with a cohesive name.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051770","count":1},{"id":"GO:0018343","count":1},{"id":"GO:0034097","count":1},{"id":"GO:0090045","count":1},{"id":"GO:0045213","count":1}]},{"hash":"746927222323032582","title":"Unknown","description":"There is no \u201cTop Terms\u201d GO data to anchor a functional theme for these 26 proteins, so no coherent label can be assigned beyond Unknown; the dense connectivity suggests interactions but does not reveal a shared biological process.","confidence":"","size":26,"edges":325,"triangles":2600,"max_degree":25,"top_function":null,"top_go_terms":[]},{"hash":"687502192901466709","title":"Golgi-ER trafficking and Wnt secretion in development","description":"The cluster\u2019s top GO terms center on ER-to-Golgi transport, COPI coating and Golgi ribbon formation, as well as regulation of Wnt protein secretion, with developmental terms like maternal placenta development and axis specification. This points to a cohesive module of Golgi-ER vesicle trafficking that modulates Wnt secretion during embryogenesis and related development, explaining the observed functional themes.","confidence":"High","size":26,"edges":29,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001893","count":4},{"id":"GO:0090161","count":3},{"id":"GO:0006888","count":3},{"id":"GO:1902003","count":3},{"id":"GO:0032525","count":3}]},{"hash":"537984559808860494","title":"Diverse Metabolite Biosynthesis","description":"This cluster shows GO terms spanning multiple biosynthetic processes (poly-hydroxybutyrate, sphingolipids, antibiotics, estrogen, testosterone, phylloquinone, tetrahydrobiopterin, melanin) plus related catabolic/response terms, indicating a common theme of metabolite production rather than a single dedicated pathway. The proteins likely participate in broad or secondary metabolite biosynthesis across diverse compounds.","confidence":"Medium","size":26,"edges":9,"triangles":4,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042619","count":4},{"id":"GO:0030148","count":4},{"id":"GO:0017000","count":4},{"id":"GO:0006703","count":4},{"id":"GO:0061370","count":4}]},{"hash":"1921193984874785099","title":"Unknown","description":"The top GO terms cover a broad mix of processes from redox balance and photoprotection to ribosome maturation, mitochondrial fusion, and even developmental aspects in blood and circulatory systems, plus a yeast-specific cell cycle term. This lack of a unifying biological theme suggests the proteins do not share a single coherent function or pathway, so a concise, representative label cannot be confidently assigned.","confidence":"","size":26,"edges":15,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0045494","count":1},{"id":"GO:0072358","count":1},{"id":"GO:0010196","count":1}]},{"hash":"2111730200618520261","title":"Antiviral Innate Immunity and Transcription Regulation","description":"The top terms point to antiviral defense (defense response to virus; innate immune response; positive regulation of interferon-beta production), suggesting these proteins participate in an innate antiviral program. The presence of transcription-related terms (regulation of DNA-templated transcription; regulation and activity of RNA polymerase III) alongside translation (translational elongation) hints at coordinated control of gene expression during antiviral responses. Some terms appear peripheral or obsolete, but the core theme centers on antiviral signaling with transcriptional/translation regulation.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0006359","count":1},{"id":"GO:0032728","count":1}]},{"hash":"965254386972289258","title":"Translation Initiation and Ubiquitin-Proteasome Turnover in Proliferation","description":"The Top GO terms cluster around translation initiation (formation of the preinitiation complex, translation reinitiation) and ubiquitin-proteasome\u2013mediated proteolysis (protein ubiquitination, SCF-dependent degradation, ERAD). Additional terms touch on cell proliferation, hypoxic response, spindle assembly checkpoint signaling, and development, suggesting a theme of coordinated protein synthesis and degradation during proliferative or developmental contexts with stress signaling integration.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008283","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001825","count":3},{"id":"GO:0030433","count":2}]},{"hash":"1192239712038875880","title":"RNA capping and ribosome maturation","description":"This cluster is dominated by RNA-related processing and ribosome biogenesis terms: RNA guanine-N7 methylation, 7-methylguanosine mRNA capping, ITS1 cleavage for rRNA separation, and ribosomal small subunit export from the nucleus. These point to roles in mRNA/rRNA maturation and ribosome assembly/export. Some other terms (stress responses, biosynthetic processes, COPII budding) may reflect broader cellular contexts or annotation noise, but the core theme centers on RNA processing and ribosome maturation.","confidence":"Medium","size":25,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0036265","count":5},{"id":"GO:0006972","count":4},{"id":"GO:0035690","count":4},{"id":"GO:0000056","count":4},{"id":"GO:0017000","count":4}]},{"hash":"498282383543060485","title":"Unknown","description":"The GO terms are highly diverse (apoptotic signaling, chromatin assembly, tRNA processing, toxin response, redox, LPS signaling, dendrite morphogenesis, CDK regulation, hippocampus development), and the cluster shows almost no connectivity (1 edge, 0 triangles), indicating no single cohesive function. This suggests the proteins do not form a single interpretable pathway, so an Unknown label is appropriate.","confidence":"","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2001241","count":2},{"id":"GO:0006335","count":2},{"id":"GO:0008033","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0055114","count":2}]},{"hash":"272286550733970671","title":"Hormone-Responsive Transcriptional Regulation","description":"The cluster shows a pattern where hormonal and metabolic signals (cellular response to cAMP, response to corticosterone, insulin secretion in response to glucose) feed into transcriptional control (DNA-templated transcription, regulation of DNA binding) and nuclear transport (NLS-bearing protein import into nucleus), with additional signaling layers such as NF-kappaB and physiological links like heart rate regulation. This combination suggests a cohesive theme of hormone-driven transcriptional regulation, despite some broader signaling terms present. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042144","count":3},{"id":"GO:0071320","count":3},{"id":"GO:0035774","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0043388","count":2}]},{"hash":"1057035185114146165","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009432","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0042273","count":2}]},{"hash":"1063258110006978768","title":"Intracellular Transport and Amino Acid Homeostasis","description":"This cluster is dominated by terms related to intracellular/protein transport (ER lumen retention, general protein transport) and various amino acid and sugar/nutrient transport processes (D-glucose, basic amino acids, L-cystine) as well as amino acid homeostasis. While there are immune-related terms present, the strongest signal points to trafficking and metabolic balance within the cell, especially within the secretory pathway and transporter networks.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010204","count":1},{"id":"GO:0070231","count":1},{"id":"GO:0006621","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0002369","count":1}]},{"hash":"355109143216684205","title":"Diverse Transmembrane Transporters","description":"The cluster is dominated by multiple transmembrane transport GO terms across a wide range of substrates (ions, vitamins, sugars, xenobiotics) and includes a vesicular neurotransmitter loading term, indicating a cohesive theme of membrane transporters handling diverse substances.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":4},{"id":"GO:0035461","count":4},{"id":"GO:0006004","count":4},{"id":"GO:0015707","count":4},{"id":"GO:0042891","count":4}]},{"hash":"280941769016675124","title":"Cardiac muscle development and remodeling","description":"This cluster is enriched for heart-related terms (heart development; cardiac muscle hypertrophy in response to stress) as well as vascular growth (angiogenesis) and tissue remodeling signals (epithelial to mesenchymal transition), plus muscle activity response and metabolic cues, suggesting a cohesive module governing cardiac/muscle tissue development and remodeling. Some terms like Schwann cell development or DNA replication appear less central but do not override the dominant cardiac/muscle remodeling theme.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0014044","count":3},{"id":"GO:0060316","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0090314","count":2},{"id":"GO:0014850","count":2}]},{"hash":"93083178885170787","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001682","count":2},{"id":"GO:0034965","count":2},{"id":"GO:0016078","count":1},{"id":"GO:1905267","count":1},{"id":"GO:0000294","count":1}]},{"hash":"260036858440320294","title":"Plant amino acid and cofactor biosynthesis with transport","description":"The cluster includes GO terms for biosynthesis of biotin, lipoate, protoporphyrinogen IX, and L-arginine, along with transport terms such as calcium ion export and amino acid export, and plant-specific processes like DNA-templated transcription, translation, and regulation of leaf formation. This mix points to a plant metabolic core centered on amino acid and cofactor biosynthesis with membrane transport, rather than a tight, single-function complex.","confidence":"Medium","size":25,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009102","count":5},{"id":"GO:0009107","count":3},{"id":"GO:1990034","count":3},{"id":"GO:0032973","count":3},{"id":"GO:0006782","count":3}]},{"hash":"620078796865666246","title":"Unknown","description":"This cluster has no GO terms provided, so I cannot infer a shared function; the network is densely connected (276 edges, 2024 triangles), which could indicate a protein complex or related processes, but without annotations a reliable label cannot be assigned.","confidence":"","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":null,"top_go_terms":[]},{"hash":"897532068789702370","title":"Unknown","description":"The top GO terms are sparse and do not point to a single coherent function: regulation of DNA-templated transcription and phage shock each have only one associated protein, so they don\u2019t converge on a common pathway. Despite many edges/triangles suggesting a tight interaction module, there isn\u2019t a clear GO-based theme to define a specific label. ","confidence":"","size":24,"edges":243,"triangles":1418,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":1},{"id":"GO:0009271","count":1}]},{"hash":"214294549486124994","title":"Genome maintenance and transcription regulation","description":"The enriched GO terms cluster around DNA-templated transcription, DNA replication, and DNA repair, with supporting terms for transcription elongation, mRNA export, and cell-cycle processes, indicating a cohesive theme of nuclear genome maintenance and transcription control; the presence of stress-related terms (misfolded protein response, autophagy) likely reflects linked cellular stress responses but does not outweigh the central genome-focused functions.","confidence":"High","size":24,"edges":51,"triangles":36,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0006260","count":5},{"id":"GO:0006281","count":5},{"id":"GO:0071218","count":4},{"id":"GO:0032968","count":4}]},{"hash":"2208307332228114353","title":"DNA replication and protein quality control","description":"This cluster's top GO terms include DNA replication and several protein homeostasis processes (chaperone-assisted refolding, ERAD-related pathways, post-translational targeting to membranes) along with redox homeostasis and stress/aging terms. The mix suggests a module where DNA replication is linked with proteostasis and membrane-associated quality control under cellular stress. While several entries are marked obsolete, the dominant theme appears to be genome maintenance coupled with protein quality control and stress response.","confidence":"Medium","size":24,"edges":50,"triangles":33,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0090084","count":5},{"id":"GO:0070389","count":5},{"id":"GO:1900035","count":5},{"id":"GO:0031204","count":5}]},{"hash":"1313456981295189044","title":"Membrane fusion and cytoskeletal regulation","description":"This cluster centers on processes involving membrane dynamics and the cytoskeleton, including vacuole fusion, prospore membrane formation, actin crosslinking, regulation of GTPase activity, cytokinesis, karyogamy, and vesicle endocytosis, with some signaling components (NF-kappaB) that can influence these pathways. The mix suggests a theme of membrane trafficking and cytoskeletal remodeling, despite a few outliers like retinal development terms.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043123","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0042144","count":4},{"id":"GO:0032120","count":3},{"id":"GO:0051764","count":3}]},{"hash":"842253268650650311","title":"Cellular growth and homeostasis","description":"The enriched GO terms point to core cellular maintenance and growth processes: transcription elongation regulation, protein folding and ER targeting, and mitotic spindle/cytoskeleton assembly, all central to cell viability and division. Additional terms like apoptotic process, filamentous growth, and ubiquitin-independent degradation indicate broader regulation of cell fate and morphology, consistent with a general growth/homeostasis cluster. Some terms (photosynthesis, septum digestion) are more context-specific/outliers but still relate to cellular growth or division in broader systems. Confidence: Medium","confidence":"","size":24,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032968","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0006457","count":2},{"id":"GO:0007021","count":2},{"id":"GO:0015979","count":2}]},{"hash":"895864971083533430","title":"Plant Secondary Metabolite Biosynthesis","description":"The top GO terms cluster around biosynthetic and catabolic processes for plant specialized metabolites (strigolactones, alkaloids, stilbenes, antibiotics) and include a developmental note on secondary shoot formation, suggesting a broad theme of plant secondary metabolism rather than a single, cohesive enzymatic pathway. Some terms are obsolete, but the remaining signals point to diverse metabolite biosynthesis in plants.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043486","count":2},{"id":"GO:0019380","count":1},{"id":"GO:0042619","count":1},{"id":"GO:0006660","count":1},{"id":"GO:1901601","count":1}]},{"hash":"279661276012215818","title":"Mitochondrial Translation and Respiratory Metabolism","description":"The cluster is dominated by mitochondrial-focused functions: multiple GO terms for mitochondrial tRNA aminoacylation (seryl, glycyl, threonyl), mitochondrial DNA metabolic process, and the respiratory electron transport chain, pointing to mitochondrial protein synthesis and energy production as the core theme. Some terms (e.g., systemic acquired resistance) appear as noise, but the mitochondrial translation and respiration signals are strong and representative.","confidence":"High","size":23,"edges":22,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009627","count":2},{"id":"GO:0042985","count":2},{"id":"GO:0070158","count":1},{"id":"GO:0070150","count":1},{"id":"GO:0097056","count":1}]},{"hash":"1082285431370438246","title":"Nuclear RNA Metabolism and Ribosome Biogenesis","description":"Most terms point to nuclear RNA turnover and processing (histone mRNA catabolic process; nuclear polyadenylation-dependent snRNA/snoRNA catabolism; protein localization to nucleoplasm) and to ribosome biogenesis (ribosomal large subunit biogenesis). This suggests a cohesive theme around nuclear RNA metabolism coupled with ribosome assembly. Some terms like ubiquitin-dependent ERAD and NF-kappaB activation are less central and may reflect broader regulatory annotations, but they do not diminish the core nuclear RNA/ribosome theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0009048","count":2},{"id":"GO:0032066","count":2},{"id":"GO:0071044","count":2},{"id":"GO:0071037","count":2}]},{"hash":"270392971256179933","title":"ECM remodeling and morphogenesis","description":"The top GO terms point to extracellular matrix (ECM) remodeling (collagen catabolic process, proteolysis in protein catabolic process, bone resorption, intramembranous ossification) and tissue morphogenesis (lung epithelial tube branching, decidualization). While a few terms are obsolete, the shared theme is ECM degradation/remodeling coupled with developmental morphogenesis across tissues, justifying the label.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035593","count":2},{"id":"GO:0051603","count":2},{"id":"GO:0060441","count":2},{"id":"GO:0046697","count":2},{"id":"GO:0010815","count":2}]},{"hash":"443450341223629650","title":"Translation and Development Signaling Proteins","description":"The cluster's GO terms center on translation and ribosome maturation (translation, maturation of LSU-rRNA, regulation of translation), suggesting a core role in protein synthesis; however, several development- and signaling-related terms (face development, retinal axon guidance, neural tube patterning, IL-12 production) and biofilm formation indicate a broad, heterogeneous set of functions. This label captures the strongest shared theme (translation-related activity) while acknowledging the diverse annotations.","confidence":"Medium","size":23,"edges":4,"triangles":0,"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:0060324","count":1},{"id":"GO:1901621","count":1}]},{"hash":"1972502158854897016","title":"Organelle RNA processing and ribosome assembly","description":"The top terms cluster around mitochondrial RNA processing, mitochondrial large ribosomal subunit assembly, and chloroplast rRNA processing, plus cellular respiration, pointing to organelle ribosome biogenesis and energy metabolism as the core theme. Some terms (face development, neural tube patterning, IL-12 production) seem less related, likely annotation noise, but do not overwhelm the central signal.","confidence":"Medium","size":23,"edges":18,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000902","count":3},{"id":"GO:0000963","count":2},{"id":"GO:1902775","count":2},{"id":"GO:0045333","count":2},{"id":"GO:1901259","count":2}]},{"hash":"599264156279237822","title":"Diverse membrane sugar and ion transporters","description":"The top GO terms are dominated by transmembrane transport activities for a variety of substrates (arabinose, galactose, sialic acid, nitrate, phosphate, sodium), indicating these proteins are primarily membrane transporters for sugars and ions. A secondary term on ubiquitin-dependent protein catabolic process is less central to the cluster\u2019s main function. Therefore, the name emphasizes the transporter nature across membranes.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006511","count":2},{"id":"GO:0098700","count":2},{"id":"GO:0015751","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0042891","count":2}]},{"hash":"597784219662244290","title":"Ribosome Biogenesis and Translation","description":"The top GO terms are dominated by ribosome-related processes: ribosome biogenesis, small subunit biogenesis, rRNA export, and translation, pointing to a cohesive role in producing ribosomes and protein synthesis. A few outlier terms exist, but they are sparse and do not outweigh the central theme. Confidence is Medium.","confidence":"Medium","size":23,"edges":5,"triangles":0,"max_degree":2,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0042274","count":2},{"id":"GO:0006407","count":2},{"id":"GO:0006412","count":2}]},{"hash":"189349753859042613","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000395","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0044319","count":2},{"id":"GO:0035278","count":2},{"id":"GO:0000380","count":2}]},{"hash":"694137636066609571","title":"Nuclear stress response and cell cycle control","description":"The dominant signals are cell division and cell cycle (GO:0051301, GO:0007049), with supporting nuclear/processes like pore complex assembly and Cajal body\u2013related regulation, and telomere maintenance. Stress-related terms (cadmium response, heat response) suggest a broader nuclear stress\u2013response context, while immune signaling terms (IgG isotype switching, IL-6 production) appear peripheral but may reflect integrated signaling networks. Overall, the cluster centers on nuclear organization and cell cycle control under stress.","confidence":"Medium","size":22,"edges":73,"triangles":66,"max_degree":13,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":8},{"id":"GO:0007049","count":6},{"id":"GO:0046686","count":5},{"id":"GO:0046931","count":4},{"id":"GO:0048291","count":4}]},{"hash":"984870675345300160","title":"Regulation of cell growth, differentiation, and death","description":"The cluster includes GO terms related to apoptosis, cell growth, fat cell differentiation, and regulation of the cell cycle (CDK activity), plus processes tied to differentiation, migration, and cytoskeletal organization. While telomere maintenance and mRNA processing add breadth, the shared theme appears to be general regulation of cellular fate, growth, and survival rather than a single specialized pathway.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:1904355","count":3},{"id":"GO:0006397","count":3},{"id":"GO:0032212","count":3},{"id":"GO:0051017","count":3}]},{"hash":"1051364775818059454","title":"Golgi\u2013endosome\u2013ER transport","description":"The top GO terms cluster around vesicle trafficking within the endomembrane system (endosome to Golgi, early-to-late endosome transport, retrograde Golgi-to-ER transport) and related membrane biogenesis processes (dense core granule maturation, prospore membrane formation), suggesting a shared function in intracellular transport. Some other terms (cell division, ribosome biogenesis) are present but appear less central to the cluster\u2019s core theme.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0034499","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0032120","count":1}]},{"hash":"1302153725276431316","title":"Spliceosome and Translation Initiation Machinery","description":"Most terms describe RNA processing and ribosome biogenesis (splicing via spliceosome, alternative splicing, small-subunit processome assembly) and translation initiation (eIF4F complex assembly, regulation of translational initiation). This points to a cluster of proteins involved in post-transcriptional gene expression\u2014splicing and initiation of translation\u2014rather than a single metabolic pathway. A few noisy or obsolete terms exist, and a biotin biosynthesis term seems incidental.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0006446","count":1},{"id":"GO:1902625","count":1},{"id":"GO:0097010","count":1}]},{"hash":"1222934015367588608","title":"ER Protein Processing and Unfolded Protein Response","description":"The cluster\u2019s prominent GO terms center on secretory pathway protein maturation and ER stress responses, including ER-to-cytosol proteolysis (ERAD), ER and unfolded protein response, EGFR ligand maturation, and MHC-II antigen processing, with additional developmental fate specification terms that can be tied to signaling via secretory routes. This suggests a shared theme around proteins\u2019 processing and quality control in the secretory/ER pathway, plus related signaling. ","confidence":"Medium","size":22,"edges":17,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035311","count":3},{"id":"GO:0048515","count":3},{"id":"GO:0038005","count":3},{"id":"GO:0042676","count":3},{"id":"GO:1904211","count":3}]},{"hash":"1252545864137711896","title":"Ubiquitin-Proteasome Degradation and ERAD Pathways","description":"The top GO terms are dominated by ubiquitination and proteasome-related processes: K48- and K6-linked ubiquitination, SCF-dependent proteasomal degradation, the ER-associated degradation (ERAD) pathway, and translation/protein handling steps. The presence of ribosomal subunit export and translation hints at broader protein quality control and turnover, which ties back to ubiquitin tagging and proteasomal degradation. Peroxisomal import, viral processes, and DNA repair terms may reflect related proteostasis and genome maintenance functions that intersect with ubiquitin signaling. Overall, the common theme is ubiquitin-mediated regulation of protein fate and turnover.","confidence":"High","size":21,"edges":16,"triangles":10,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0000055","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0070936","count":2}]},{"hash":"1517780130887008591","title":"Developmental regulators of myogenesis and vasculogenesis","description":"This cluster shows connections to transcriptional regulation (DNA-templated transcription) and signals guiding muscle formation (myoblast differentiation) and blood vessel development (vasculogenesis), with some Notch pathway influence. The ER protein folding term may reflect secretory/membrane components involved in signaling during development. Overall, the terms converge on developmental signaling coordinating muscle and vascular differentiation, supporting a label focused on development and differentiation.","confidence":"Medium","size":21,"edges":50,"triangles":27,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0034975","count":2},{"id":"GO:0036138","count":1},{"id":"GO:2001214","count":1}]},{"hash":"163013492164374267","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":13,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0021762","count":3},{"id":"GO:0048741","count":3},{"id":"GO:0000281","count":3}]},{"hash":"2289634872487345101","title":"Neural development and craniofacial patterning","description":"The cluster is enriched for nervous system development terms (nervous system development, cerebral cortex development, neural tube patterning) and craniofacial features (face development), along with calcium-dependent exocytosis, suggesting roles in neuronal signaling and early craniofacial neural development. Some terms (biofilm, IL-12) appear peripheral noise but do not override the dominant neural development theme.","confidence":"High","size":21,"edges":12,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045956","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0021987","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0045793","count":3}]},{"hash":"591871139566138654","title":"Neural development and differentiation","description":"Top terms include nervous system development, midbrain dopaminergic neuron differentiation, and related developmental processes, with additional general cellular processes and morphology terms. The strongest signal is neural development, supported by a few non-neural terms, suggesting a neurodevelopment-focused cluster with some broader roles.","confidence":"Medium","size":21,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031591","count":3},{"id":"GO:0003100","count":2},{"id":"GO:0042176","count":2},{"id":"GO:0060789","count":2},{"id":"GO:1904948","count":2}]},{"hash":"670273626976305454","title":"Oocyte Maturation and Meiotic Spindle Assembly","description":"This cluster is dominated by GO terms for oocyte maturation and spindle assembly in female meiosis I, with microtubule polymerization supporting spindle dynamics. While other terms touch on general proteolysis and development, the clearest shared function among the proteins is meiosis/oocyte maturation and spindle formation, suggesting a focus on female gametogenesis and cell-cycle regulation.","confidence":"High","size":21,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030488","count":2},{"id":"GO:0051436","count":1},{"id":"GO:0046785","count":1},{"id":"GO:0001556","count":1},{"id":"GO:0021993","count":1}]},{"hash":"1279073777262009322","title":"Vesicle trafficking and ER-Golgi transport","description":"This cluster is characterized by GO terms centered on vesicle fusion regulation, ER-to-Golgi transport, Rab signaling, and intracellular protein transport (e.g., regulation of vesicle fusion, retrograde transport to Golgi, ER to Golgi vesicle-mediated transport, Rab signal transduction). While a few terms touch on cell cycle signaling, the dominant theme is vesicle trafficking and intracellular transport, suggesting the proteins function together in ER-Golgi and related vesicle pathways.","confidence":"High","size":21,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045737","count":3},{"id":"GO:0032889","count":2},{"id":"GO:0031338","count":2},{"id":"GO:0035526","count":2},{"id":"GO:0031578","count":2}]},{"hash":"742097827389551681","title":"Chaperone-assisted folding and ER-Golgi trafficking","description":"The cluster highlights protein maturation steps: chaperone/cofactor-dependent refolding and peptidyl-prolyl isomerization (protein folding), ER-to-Golgi vesicle transport (secretory pathway), and elements of ciliogenesis (non-motile cilium assembly/regulation), with supporting signals from cell division and phosphorylation regulation. This pattern suggests proteins involved in folding and trafficking within the secretory pathway, linked to ciliogenesis.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070389","count":2},{"id":"GO:0000413","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0033138","count":2}]},{"hash":"1361394227304856174","title":"Embryonic organogenesis and vascular patterning","description":"The GO terms cluster around embryonic development of the heart (endocardial development, heart tube patterning), kidney structures (metanephric development), and vascular processes (angiogenesis/lymphangiogenesis), plus related signaling and axon guidance aspects, indicating a cohesive theme of organ formation and vascular patterning. The lack of edges suggests limited interaction data, but the shared developmental theme supports this label.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":2},{"id":"GO:0045880","count":1},{"id":"GO:0060958","count":1},{"id":"GO:1901492","count":1},{"id":"GO:0072233","count":1}]},{"hash":"617495227701097359","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0009789","count":1},{"id":"GO:0010231","count":1},{"id":"GO:0009738","count":1},{"id":"GO:0006744","count":1}]},{"hash":"226974500423899498","title":"Ubiquitin-Dependent Protein Degradation (ERAD)","description":"Dominant signals are ubiquitin-dependent degradation (K48-linked ubiquitination and ERAD) and general proteolysis; a few eye-development terms appear but likely reflect tissue expression rather than core function.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002088","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0030433","count":1},{"id":"GO:0070936","count":1},{"id":"GO:0046621","count":1}]},{"hash":"146167954013841151","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by GO terms tied to ribosome assembly and function\u2014ribosome biogenesis, small and large subunit export, tRNA modification, and translational termination\u2014along with selenocysteine incorporation and positive regulation of cytoplasmic translation. The combination points to proteins involved in ribosome assembly and overall protein synthesis, with occasional broader growth-related terms (e.g., cell division, antibiotic response) that may reflect secondary roles in rapidly growing cells.","confidence":"High","size":20,"edges":99,"triangles":175,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0001514","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0006400","count":1}]},{"hash":"326868724390500634","title":"RNA Processing and snoRNP Assembly","description":"The cluster is dominated by RNA-centric functions: DNA-templated transcription, translation, snoRNA localization, and box C/D snoRNP assembly, indicating RNA processing and ribonucleoprotein complex formation. Centromeric/centrosomal terms and cadmium response appear only peripherally, suggesting these are secondary associations. Obsolete methylation terms appear as noise rather than core drivers. ","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051569","count":2},{"id":"GO:1904780","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0071276","count":2}]},{"hash":"908525002603335117","title":"Ribosome biogenesis and translation initiation","description":"This cluster is dominated by GO terms for maturation of SSU rRNA, formation of translation preinitiation complex, and translation reinitiation, indicating involvement in ribosome assembly and initiation of protein synthesis. Additional terms such as mitotic spindle orientation and spliceosome activity appear less central, but do not overshadow the core translation-related signal.","confidence":"High","size":20,"edges":15,"triangles":3,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0000132","count":2}]},{"hash":"129730606095004259","title":"Plant secondary metabolism and shoot development","description":"Most of the top GO terms point to plant-specific metabolism and growth regulation, including strigolactone biosynthesis, alkaloid and stilbene metabolism, triglyceride catabolism, epoxygenase P450 pathways, and secondary shoot formation, which together suggest a cluster of proteins involved in plant secondary metabolism and shoot development. Locomotory exploration behavior appears as an outlier, but it doesn't override the main plant-focused theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035641","count":2},{"id":"GO:0019380","count":2},{"id":"GO:0006660","count":2},{"id":"GO:1901601","count":2},{"id":"GO:0046272","count":2}]},{"hash":"1454356013711902668","title":"TNF signaling and ubiquitin-mediated apoptosis","description":"This cluster centers on TNF-mediated signaling and regulation of cell death pathways (apoptosis and necroptosis), with a notable emphasis on ubiquitin signaling (K63-linked ubiquitination) that modulates these pathways. Additional GO terms hint at related stress responses and vesicle trafficking, but the strongest and most coherent theme is inflammatory signaling linked to apoptosis/necroptosis and ubiquitination. ","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0042144","count":2},{"id":"GO:0060546","count":1},{"id":"GO:0070534","count":1},{"id":"GO:0048536","count":1}]},{"hash":"374564312054496950","title":"Ribosome Biogenesis and Cytoplasmic Translation","description":"The set is dominated by GO terms for translation, maturation of small and large ribosomal subunit rRNA (SSU and LSU) from rRNA transcripts, and cytoplasmic translation, plus small subunit ribosome assembly. These collectively indicate a focus on ribosome biogenesis and the execution of protein synthesis in the cytoplasm, with a minor note about translation initiation regulation. ","confidence":"High","size":20,"edges":117,"triangles":323,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":10},{"id":"GO:0000462","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0002181","count":2}]},{"hash":"1137040840328367734","title":"Cytoskeletal Remodeling and Cell Migration","description":"The cluster centers on processes that regulate the actin cytoskeleton and cell motility, including establishment/maintenance of actin polarity, axon fasciculation and neuron axonogenesis, wound healing, and regulation of Rho signaling and vascular permeability. Although a few terms point to membrane trafficking and lipidation (sebaceous gland development, vacuole fusion, palmitoylation), these can influence cytoskeletal dynamics and cell junctions, reinforcing a common theme of cytoskeleton-driven remodeling and cell movement across developmental and tissue contexts.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048733","count":4},{"id":"GO:0042144","count":4},{"id":"GO:0018230","count":4},{"id":"GO:0009408","count":2},{"id":"GO:0021955","count":1}]},{"hash":"742504399303280538","title":"Synaptic vesicle trafficking","description":"The top GO terms cluster around vesicle movement and cycling, including synaptic vesicle endocytosis, recycling, and anterograde transport, as well as intracellular transport between ER and Golgi. Neuronal functions like short-term memory and fear response align with vesicle-mediated signaling in neurons, reinforcing a vesicle-trafficking theme. Some cell-cycle terms may be incidental noise, but the dominant pattern is vesicle transport in neurons. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001662","count":2},{"id":"GO:0008284","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0007614","count":2},{"id":"GO:0006896","count":1}]},{"hash":"2008932288706700649","title":"RNA processing and translation initiation","description":"This cluster is enriched for GO terms spanning multiple stages of RNA metabolism: regulation of translational initiation and eIF4F complex assembly point to translation control, while mRNA polyadenylation, spliceosome-mediated splicing, and mRNA export indicate RNA processing and ribonucleoprotein maturation. Small-subunit processome assembly emphasizes ribosome biogenesis. Taken together, the proteins appear to function in RNA maturation and the preparation for translation, justifying a label centered on RNA processing and initiation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":2},{"id":"GO:1902625","count":2},{"id":"GO:0097010","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0034462","count":2}]},{"hash":"1496759251661296179","title":"Unknown","description":"The terms span diverse biological contexts (animal muscle development, hypoxia response, plant root growth, hormone signaling, centrosome localization, neuroblast polarity, and pronuclear migration) and there are no edges linking the proteins, so there is no coherent unifying function to name this cluster.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048642","count":1},{"id":"GO:1900037","count":1},{"id":"GO:0060430","count":1},{"id":"GO:0010449","count":1},{"id":"GO:0042921","count":1}]},{"hash":"178643543044765344","title":"Membrane signaling and endomembrane trafficking","description":"The cluster\u2019s top GO terms center on receptor-mediated signaling (GPCR, dopamine receptor, Wnt signaling) and on intracellular trafficking between endosomes and the Golgi, with ancillary links to energy signaling (CAMKK-AMPK) and lysosomal-related processes. This suggests a cohesive module of membrane-initiated signaling tightly coupled to endomembrane transport, rather than a single isolated pathway.","confidence":"High","size":19,"edges":45,"triangles":35,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:1905289","count":3},{"id":"GO:0007186","count":3},{"id":"GO:1904887","count":3},{"id":"GO:0071287","count":3},{"id":"GO:0035751","count":3}]},{"hash":"2218004136968045525","title":"Ribosome biogenesis and translation","description":"The cluster is dominated by GO terms tied to protein synthesis \u2014 translation, ribosome biogenesis (cytosolic and mitochondrial), rRNA maturation, and regulation/termination of translation \u2014 pointing to involvement in ribosome function and protein synthesis. A couple of outliers exist (skeletal muscle differentiation, transcription-coupled repair) but do not undermine the central theme.","confidence":"High","size":19,"edges":100,"triangles":261,"max_degree":18,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0042254","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0035914","count":2},{"id":"GO:0006283","count":2}]},{"hash":"579330445461647990","title":"Cell Division and Chromatin Assembly","description":"Top GO terms center on cell division, DNA-templated transcription, and CENP-A\u2013containing chromatin assembly, with supporting signals from microtubule severing and chromatin-related processes. Some terms also hint at vesicle transport and development, suggesting additional roles beyond core cell-cycle machinery. Overall, the dominant theme is chromosome segregation and cytoskeletal regulation during cell division, with broader cellular functions present as noise.","confidence":"Medium","size":19,"edges":18,"triangles":9,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0030433","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0051013","count":3}]},{"hash":"1851026818384926110","title":"Ubiquitin-dependent proteolysis and ERAD","description":"The top GO terms are dominated by ubiquitin-related processes, especially ubiquitin-dependent protein catabolic pathways and autoubiquitination, pointing to ubiquitin-proteasome/ER-associated degradation as the core function of this cluster. Some other terms (transcription, DNA replication, GTPase activity) appear but do not outweigh the central degradation theme. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0051865","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0000462","count":2}]},{"hash":"85230985189422119","title":"ER-Golgi transport and ribosome biogenesis","description":"This cluster's top terms prominently feature ER-Golgi vesicle transport in both directions and ribosome biogenesis, suggesting a shared involvement in the secretory pathway and protein synthesis, with transcription activity as a supporting function. Developmental terms appear less central to the core theme. ","confidence":"Medium","size":19,"edges":17,"triangles":7,"max_degree":6,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006890","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0021510","count":3},{"id":"GO:0006351","count":3}]},{"hash":"1260553225482571146","title":"Immune and stress signaling","description":"This cluster is enriched for terms related to xenobiotic response and NF-kappaB signaling, along with immune-related processes like T cell homeostasis and transcriptional regulation, plus EMT and stress-induced cardiac hypertrophy. While a couple of terms (e.g., antibiotic biosynthetic process, cell budding) are less coherent with immune-stress signaling, the dominant GO terms point to transcriptional regulation in immune and stress response pathways.","confidence":"Medium","size":19,"edges":12,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":3},{"id":"GO:0043123","count":2},{"id":"GO:0043029","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0042220","count":2}]},{"hash":"811443607653797974","title":"Cell Cycle and Protein Quality Control","description":"This cluster centers on cell cycle processes (cell division, DNA replication, G1/S transition) and includes terms related to protein homeostasis, such as the ER unfolded protein response and ER-to-Golgi transport, plus protein urmylation and tRNA wobble thiolation, suggesting coordinated regulation of cell-cycle progression with protein folding, processing, and quality control under stress. The mix indicates a broader theme of maintaining cellular function during growth and division, with stress-response and translational quality-control components.","confidence":"Medium","size":19,"edges":76,"triangles":162,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0006777","count":2},{"id":"GO:0032447","count":2},{"id":"GO:0018192","count":2},{"id":"GO:2000220","count":2}]},{"hash":"1922673901010588800","title":"Vesicle Trafficking Regulation","description":"Many of the top GO terms point to vesicle fusion and intracellular transport, such as regulation of vesicle fusion, retrograde transport from the plasma membrane to the Golgi, and Rab protein signaling, suggesting a module focused on vesicle trafficking and membrane dynamics. Some associated terms (e.g., postsynaptic potential regulation, apoptosis, immunoglobulin diversification) are related contexts or stress responses but do not override the central trafficking theme.","confidence":"Medium","size":19,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0090394","count":2},{"id":"GO:0016445","count":1},{"id":"GO:0006915","count":1},{"id":"GO:0032889","count":1}]},{"hash":"117069330724433741","title":"RNA processing and translation initiation","description":"The cluster shows GO terms tied to RNA maturation and processing (splicing, polyadenylation, mRNA export, small-subunit processome assembly) as well as translation initiation (translation, regulation of translational initiation, eIF4F complex assembly). This suggests a cohesive theme centered on RNA processing/generation of mRNA and its subsequent engagement in protein synthesis, rather than a single enzymatic function.","confidence":"High","size":19,"edges":5,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0006446","count":3},{"id":"GO:1902625","count":3},{"id":"GO:0097010","count":3},{"id":"GO:0006378","count":3}]},{"hash":"910389230913671417","title":"Mitochondrial respiration and vacuolar trafficking","description":"The GO terms indicate core mitochondrial energy production processes: NADH dehydrogenase to ubiquinone, respiration chain complex II assembly, proton transmembrane transport, and proton motive force-driven ATP synthesis. Additionally, vacuolar functions are highlighted by vacuole organization, protein targeting to vacuole, and vacuolar acidification, along with copper ion homeostasis. Together, these suggest a cluster of proteins involved in mitochondrial energy metabolism with supporting roles in vacuolar maintenance and ion handling. Confidence: Medium","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042777","count":1},{"id":"GO:0006626","count":1},{"id":"GO:0006878","count":1},{"id":"GO:0006814","count":1},{"id":"GO:0015991","count":1}]},{"hash":"628979445951453315","title":"Ribosome biogenesis and rRNA processing","description":"This cluster is dominated by terms related to ribosome production: maturation of 5.8S and LSU rRNA, large subunit assembly and export, and preribosome assembly, pointing to a cohesive theme of ribosome biogenesis. The inclusion of spliceosomal snRNP assembly fits with broader RNA-protein assembly processes, while a few immune- and stress-related terms may reflect pleiotropy or context-specific roles rather than a primary function of the cluster.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000466","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0000463","count":1},{"id":"GO:1902626","count":1}]},{"hash":"83181746635428276","title":"ER Protein Folding and Redox Homeostasis","description":"The cluster is enriched for redox-related functions (cell redox homeostasis, cellular oxidant detoxification, deglutathionylation) and ER-based protein folding, plus protein repair, suggesting a cohesive role in maintaining protein quality under redox stress across compartments. Some terms hint at nuclear transport regulation and transcription factor activity, but the dominant theme remains redox-control of protein folding and maintenance. ","confidence":"High","size":18,"edges":13,"triangles":6,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045454","count":6},{"id":"GO:0034975","count":5},{"id":"GO:0016032","count":4},{"id":"GO:0043388","count":4},{"id":"GO:0098869","count":4}]},{"hash":"1123052930785907149","title":"Ribosome Biogenesis and RNA Processing","description":"Top GO terms cluster around translation, ribosome biogenesis, and RNA maturation (rRNA and snRNA pseudouridine synthesis), plus mRNA surveillance and transcription termination. This suggests a cohesive nuclear RNA-processing and ribosome-assembly program, rather than disparate pathways.","confidence":"High","size":18,"edges":75,"triangles":122,"max_degree":14,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0031118","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0031120","count":3},{"id":"GO:2000623","count":3}]},{"hash":"83436423561000180","title":"RNA processing and translation initiation","description":"The cluster is enriched for mRNA export and splicing regulation terms, plus assembly processes for translation initiation (eIF4F complex) and ribosome biogenesis (small-subunit processome), indicating a cohesive set of proteins involved in RNA processing and initiation of protein synthesis.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":3},{"id":"GO:0000381","count":3},{"id":"GO:0048025","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0006260","count":2}]},{"hash":"2027589973935521319","title":"Ribosome biogenesis and cytoskeleton/trafficking","description":"The dominant signals are ribosome biogenesis and ribosomal large subunit assembly, indicating a core involvement in ribosome production. Supporting terms point to cytoskeletal organization and tubulin folding, plus Golgi maintenance and post-Golgi vesicle transport, suggesting coordination between protein synthesis machinery and intracellular transport/organelle positioning. A few terms related to DNA replication or morphogenesis are present at low frequency and do not define the main theme. ","confidence":"Medium","size":18,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0006267","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0010197","count":1},{"id":"GO:0007010","count":1}]},{"hash":"1519786242067710799","title":"RNA processing and translation initiation","description":"The GO terms cluster around RNA processing steps (splicing, polyadenylation, mRNA export, processome assembly) and translation initiation machinery (eIF4F complex assembly, regulation of translational initiation), indicating a protein set involved in RNA metabolism and the initiation of protein synthesis.","confidence":"Medium","size":18,"edges":11,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1901407","count":2},{"id":"GO:0006446","count":1},{"id":"GO:1902625","count":1},{"id":"GO:0097010","count":1},{"id":"GO:0006378","count":1}]},{"hash":"1822882337223421293","title":"Mitochondrial transport and redox regulation","description":"This cluster centers on mitochondrial metabolism and stress responses: transport of metabolites like alpha-ketoglutarate and participation in the malate-aspartate shuttle, ion transport (manganese and magnesium), regulation of mitochondrial membrane permeability, and response to superoxide, together with necroptosis regulation. These indicate a coherent mitochondrial metabolism/redox program; the unrelated 'female pregnancy' term may reflect tissue-specific roles but does not define the cluster.","confidence":"High","size":18,"edges":8,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0046902","count":4},{"id":"GO:0060546","count":4},{"id":"GO:0007565","count":4},{"id":"GO:0070542","count":4},{"id":"GO:0043490","count":4}]},{"hash":"1649458742644131646","title":"Unknown","description":"Top terms are a mix of metabolic and organelle gene-expression processes (coenzyme A and acetyl-CoA biosynthesis, pantothenate catabolic, cellular respiration; mitochondrial and chloroplast rRNA processing; mitoribosomal subunit assembly) plus unrelated terms (liver development, complement activation, heterotypic cell-cell adhesion). There is no single coherent function linking these terms, so this cluster is best labeled Unknown with no confidence. ","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015937","count":2},{"id":"GO:0001889","count":2},{"id":"GO:0015941","count":1},{"id":"GO:1990181","count":1},{"id":"GO:0000963","count":1}]},{"hash":"1489691382087195597","title":"Dopaminergic signaling and neural development","description":"The cluster is anchored by terms related to neural signaling, notably dopaminergic synaptic transmission and behavioral responses to cocaine, pointing to dopaminergic neuronal activity. Additional terms such as ERBB signaling and neural tube patterning, along with face development, suggest broader neural development and signal transduction roles. A few terms (cadmium/ionomycin response, mitotic checkpoint) appear more general stress or cell-cycle related, but the dominant theme is neural signaling and development. ","confidence":"Medium","size":18,"edges":10,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":3},{"id":"GO:0060324","count":2},{"id":"GO:1904637","count":2},{"id":"GO:0007094","count":2},{"id":"GO:0033160","count":2}]},{"hash":"1279336497323878727","title":"Gene Expression and Cell Cycle Regulation","description":"The proteins cluster around DNA replication, transcription (DNA-templated), translation, and regulation of CDK activity, with additional development/morphogenesis terms. This points to a cohesive theme of coordinating gene expression with cell cycle control and growth signals.","confidence":"High","size":17,"edges":46,"triangles":44,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006977","count":3},{"id":"GO:0045727","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0007275","count":3}]},{"hash":"1309477418023329806","title":"Redox Homeostasis and ER Protein Folding","description":"The cluster notably includes GO terms focused on oxidative-reductive balance and redox detoxification (oxidation-reduction process, cell redox homeostasis, removal of superoxide radicals, cellular oxidant detoxification) as well as endoplasmic reticulum protein folding, suggesting a shared theme of managing oxidative stress and protein maturation in the ER. While other terms touch on extracellular matrix and neuronal plasticity, the strongest common thread appears to be redox regulation paired with ER-associated protein handling.","confidence":"Medium","size":17,"edges":25,"triangles":21,"max_degree":7,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0045454","count":5},{"id":"GO:0034975","count":4},{"id":"GO:0060291","count":3},{"id":"GO:0010811","count":3}]},{"hash":"1319890592314165657","title":"Unknown","description":"The terms span heat response, transcription termination, telomere maintenance, cell cycle, endothelial migration, proton transport, mitochondrial ATP synthesis, type III secretion, mitochondrial targeting, and lipid metabolism. There isn't a single dominant theme tying these functions together, suggesting diverse, loosely related roles rather than one cohesive cluster.","confidence":"","size":17,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":3},{"id":"GO:0006353","count":3},{"id":"GO:0032212","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0043536","count":2}]},{"hash":"334328522554172573","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0043588","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0000132","count":2}]},{"hash":"1777552256374077986","title":"Cell cycle regulation and ubiquitination","description":"The top GO terms cluster around cell division, meiotic nuclear division, cytokinesis regulation, and proliferation, with supporting ubiquitin pathways (K11-linked ubiquitination, ubiquitin ligase activity) and cytoskeletal dynamics (actin filament capping). TORC1 signaling also links growth to division, reinforcing a cell-cycle control theme. An outlier term for synaptic plasticity appears incidental. Overall, the dominant signal is cell cycle control coupled with ubiquitin-mediated regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0032466","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0031915","count":1},{"id":"GO:0040020","count":1}]},{"hash":"1681860797178828711","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":64,"triangles":95,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":5},{"id":"GO:0006369","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0019079","count":5}]},{"hash":"1315854436500671142","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":52,"triangles":69,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0070493","count":2},{"id":"GO:0010801","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0007420","count":2}]},{"hash":"1998785000014931826","title":"Ribosome assembly and translation initiation","description":"The cluster is dominated by GO terms tied to ribosome biogenesis and rRNA maturation (LSU rRNA maturation, ribosome biogenesis, translation preinitiation complex formation, translation reinitiation, rRNA methylation, tRNA wobble base methylation), all pointing to protein synthesis machinery. While there are additional terms related to cell division and cilium assembly, the strongest signals are centered on ribosome assembly and the initiation/assembly steps of translation, supporting a cohesive theme around production and initiation of the protein synthesis apparatus.","confidence":"High","size":17,"edges":33,"triangles":30,"max_degree":10,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000463","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0051301","count":3}]},{"hash":"659309637687448461","title":"Glutamatergic Synapse Trafficking and Neurite Morphogenesis","description":"The top GO terms cluster around neuronal synaptic function and trafficking, especially glutamatergic synaptic transmission and receptor recycling, complemented by endosome size regulation and Rho signaling that govern cytoskeletal remodeling and neurite development. This suggests a cohesive module of glutamatergic synapse receptor trafficking and neuronal morphogenesis, with involvement of endosomal pathways and Rho-mediated signaling in neurite dynamics.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0034968","count":2},{"id":"GO:0051036","count":2},{"id":"GO:0035249","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0006355","count":2}]},{"hash":"2166655626615006972","title":"Neuronal Golgi Vesicle Trafficking","description":"Based on the top GO terms, the cluster centers on Golgi- and vesicle-related transport processes (Golgi to ER/vacuole, endocytosis, anterograde/retrograde vesicle transport, Golgi localization and inheritance) with an emphasis on neuronal contexts (synaptic vesicle transport, Purkinje cell maturation, locomotory behavior). While some terms touch on pigmentation or neural development, the dominant pattern is Golgi-mediated vesicle trafficking in neurons, suggesting these proteins function together in neuronal secretory pathways.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006896","count":1},{"id":"GO:0006897","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0048490","count":1},{"id":"GO:0043473","count":1}]},{"hash":"935142571110630740","title":"DNA replication and repair","description":"This cluster centers on cell division and multiple DNA repair pathways (alternative NHEJ for DSBs, base-excision repair with ligation, single-strand break repair) plus DNA synthesis during lagging strand elongation, suggesting roles in genome maintenance. A couple of immune-rearrangement terms (V(D)J recombination, pro-B cell differentiation) align with DNA repair/development processes, reinforcing a DNA-damage response theme. ","confidence":"High","size":17,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0000281","count":2},{"id":"GO:0097681","count":1},{"id":"GO:0006288","count":1},{"id":"GO:0006273","count":1}]},{"hash":"476346412387123181","title":"Redox-Linked Transcriptional Repression","description":"The cluster is dominated by redox-related terms (cell redox homeostasis, cellular oxidant detoxification, cellular response to oxidative stress, protein deglutathionylation) and by negative regulation of transcription by RNA polymerase II, plus DNA-templated transcription. This suggests a theme where oxidative stress influences transcriptional activity, possibly via redox-sensitive regulation of Pol II. Confidence in this linkage is moderate given the overlap but not absolute one-to-one mapping across all members.","confidence":"Medium","size":17,"edges":25,"triangles":14,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045454","count":6},{"id":"GO:0098869","count":6},{"id":"GO:0000122","count":5},{"id":"GO:0080058","count":5},{"id":"GO:0055114","count":5}]},{"hash":"178742849614792033","title":"Mitochondrial translation and tRNA processing","description":"The strongest signals are mitochondrial phenylalanyl-tRNA aminoacylation, tRNA processing, and translation, which together point to components of mitochondrial protein synthesis and RNA maturation. The other terms seem less related (e.g., BMP signaling, photosystem adjustments, digestion), suggesting they may be annotation noise relative to the core mitochondrial translation theme.","confidence":"High","size":17,"edges":29,"triangles":12,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0007586","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0008033","count":1},{"id":"GO:0070156","count":1},{"id":"GO:0006412","count":1}]},{"hash":"1511026316402977322","title":"Vesicle trafficking and protein localization","description":"Most GO terms in this cluster point to intracellular membrane trafficking and protein localization, including regulation of vacuole organization, endosome targeting, ER-to-Golgi exit, phospholipid translocation, and establishment of protein localization. While a few terms relate to differentiation or growth, the recurring theme is vesicle transport and membrane-associated protein targeting, suggesting a functional cluster in membrane trafficking.","confidence":"Medium","size":17,"edges":28,"triangles":7,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0044088","count":1},{"id":"GO:0036010","count":1},{"id":"GO:0070863","count":1},{"id":"GO:0006855","count":1},{"id":"GO:0045332","count":1}]},{"hash":"1158217862581132021","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051084","count":1},{"id":"GO:0032543","count":1},{"id":"GO:0022417","count":1},{"id":"GO:0045041","count":1},{"id":"GO:0033617","count":1}]},{"hash":"2106361640201814895","title":"Ribosome Biogenesis and Cytoskeleton Regulation","description":"The top GO terms cluster around ribosome biogenesis and rRNA maturation, with additional signals for actin cytoskeleton dynamics (Arp2/3\u2013mediated nucleation) and sarcomere organization, pointing to a theme of ribosome assembly coupled with cytoskeletal/muscle-related processes. Other terms (seminiferous tubule development, apoptosis, polyprotein oligomerization) suggest broader regulatory roles but are less central. This makes the ribosome assembly plus cytoskeleton theme the best-fit though not exclusively representative, hence a moderate level of confidence.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0072520","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0034314","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0043982","count":2}]},{"hash":"889098004408883044","title":"Neural and craniofacial vascular development","description":"This cluster centers on development-related processes: angiogenesis and endothelial migration, face (craniofacial) development, and neural patterning and axon guidance (retinal ganglion cell axon guidance, dorsal/ventral neural tube patterning), with insulin receptor signaling suggesting growth regulation. A few terms about Gram-positive defense and biofilm are less connected and may reflect annotation noise. Overall, the dominant theme is coordinated development of neural, craniofacial, and vascular structures.","confidence":"Medium","size":16,"edges":9,"triangles":1,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008286","count":4},{"id":"GO:0050830","count":4},{"id":"GO:1904780","count":4},{"id":"GO:0043536","count":4},{"id":"GO:0001525","count":4}]},{"hash":"1981560901320804362","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035372","count":3},{"id":"GO:0061158","count":2},{"id":"GO:0097011","count":2},{"id":"GO:1904628","count":2},{"id":"GO:0048535","count":2}]},{"hash":"585705347787253713","title":"RNA processing and transcription regulation","description":"This cluster shows enrichment in RNA-focused processes: rRNA methylation, rRNA modification, and spliceosomal tri-snRNP complex assembly, pointing to RNA processing and ribosome biogenesis. It also includes a term for negative regulation of transcription by RNA polymerase II, suggesting transcriptional control. Additional terms about cell growth and stress/ redox responses are peripheral but present. The dominant signal is RNA metabolism with a transcriptional control component, supporting this label.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031167","count":2},{"id":"GO:0009408","count":2},{"id":"GO:0016049","count":2},{"id":"GO:0018027","count":2},{"id":"GO:0045454","count":2}]},{"hash":"1011030142893724425","title":"Unknown","description":"The top GO terms are a jumble across immune regulation, plant signaling, metabolism, and structural processes, with no coherent shared function linking the proteins. No edges or triangles further suggest a lack of a cohesive pathway or interaction theme, so a meaningful single-label name cannot be assigned.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0020035","count":2},{"id":"GO:0009405","count":2},{"id":"GO:0046203","count":1},{"id":"GO:0042102","count":1},{"id":"GO:0008612","count":1}]},{"hash":"38184403568381608","title":"Ribosome biogenesis and translation machinery","description":"The top GO terms center on translation and ribosome biogenesis, including translation itself, ribosome biogenesis, rRNA pseudouridine synthesis, tyrosyl-tRNA aminoacylation, and maintenance/regulation of translational fidelity. This points to a cluster of proteins involved in ribosome assembly and the protein synthesis machinery, with some related terms (like response to antibiotic or fertilization) likely reflecting context-dependent roles or shared components. ","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0042254","count":5},{"id":"GO:0046677","count":4},{"id":"GO:0007338","count":3},{"id":"GO:0006450","count":2}]},{"hash":"2073086499736191045","title":"Wybutosine/tRNA wobble modification","description":"The strongest shared signals are wybutosine biosynthetic process and tRNA wobble uridine modification, pointing to a core theme around tRNA modification pathways. Other terms appear disparate (muscle differentiation, sarcomere organization, membrane potential, glucosinolate metabolism, spindle localization, synaptic depression, ubiquitin-dependent proteolysis), suggesting mixed annotations that dilute the overall signal. Thus, the cluster most plausibly reflects tRNA wobble/wybutosine modification functions, but with moderate confidence due to noise from unrelated terms.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031591","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0002098","count":2},{"id":"GO:0035914","count":1},{"id":"GO:0045214","count":1}]},{"hash":"578648372229701166","title":"Placental Development and Nutrient Transport","description":"The dominant GO terms are placenta development and embryonic placenta development, with supporting signals for nutrient handling (response to nutrient, vitamin transport, vitamin E metabolic process). This points to a cohesive theme around placental formation and fetal nutrient transfer, with additional cellular processes like lysosome organization that may support trafficking and turnover in placental cells. Overall, the label captures the central placental/nutrient-transfer theme, though some terms suggest broader cellular roles.","confidence":"Medium","size":16,"edges":36,"triangles":19,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0009268","count":1},{"id":"GO:0001890","count":1},{"id":"GO:0007584","count":1},{"id":"GO:0042360","count":1},{"id":"GO:0009636","count":1}]},{"hash":"402177544848969776","title":"RNA splicing and translation regulation","description":"The cluster is enriched for RNA processing and post-transcriptional control, including spliceosome-mediated mRNA splicing, small-subunit processome assembly, regulation of translational initiation, and stress-related mRNA stability, along with ncRNA-mediated gene silencing. This points to a cohesive functional module centered on RNA processing and control of translation.","confidence":"High","size":16,"edges":33,"triangles":28,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0010610","count":4},{"id":"GO:0000398","count":3},{"id":"GO:0006446","count":3}]},{"hash":"876589809695855183","title":"Ribosome biogenesis and rRNA processing","description":"The top terms are dominated by ribosome biogenesis (GO:0042254) and rRNA processing (GO:0006364), pointing to a core function in ribosome assembly and RNA maturation. Other terms appear sporadic or annotation artifacts, but the shared emphasis on ribosome-related processes supports this theme.","confidence":"High","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0009239","count":1},{"id":"GO:0019878","count":1},{"id":"GO:0006364","count":1},{"id":"GO:0042759","count":1}]},{"hash":"1382257382771785123","title":"Proteostasis and secretory pathway organization","description":"The cluster shows strong signals for protein folding, chaperone activity, and ubiquitin-proteasome\u2013based quality control (protein folding, proteasome regulatory particle assembly, cytoplasm protein quality control), alongside ER-to-Golgi transport and Golgi ribbon formation, which together point to protein homeostasis and vesicle trafficking through the secretory pathway. Microtubule and tubulin assembly terms further support trafficking and organelle organization, though a few transcription-related terms are present. Overall, the dominant theme is proteostasis linked to the secretory pathway.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032968","count":2},{"id":"GO:0051131","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0070682","count":2}]},{"hash":"660370876764449097","title":"Glycoprotein Biosynthesis and ER-Golgi Trafficking","description":"The cluster is dominated by glycosylation and secretory pathway terms: dolichol-linked oligosaccharide biosynthesis, GPI anchor biosynthesis, and ER-to-Golgi vesicle transport, plus general protein transport and endosome-to-Golgi trafficking. Some outlier terms (antibiotic biosynthesis, RNA methylation) may reflect annotation noise rather than core function. Overall, it points to a glycobiology/secretory pathway theme.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":2},{"id":"GO:0036265","count":2},{"id":"GO:0006488","count":2},{"id":"GO:0042147","count":1},{"id":"GO:0006888","count":1}]},{"hash":"781237257628380368","title":"Organelle Regulation and Signaling","description":"The Top Terms point to regulation of mitochondrial membrane permeability and mitochondrial protein import, plus various organelle-related processes (vacuole fusion, photosystem stoichiometry adjustment), suggesting a theme around organelle function and dynamics. There are also terms tied to broader signaling pathways (NF-kappaB, BMP) and lipid metabolism, indicating a regulatory rather than a single-pathway function. Overall, the cluster seems to group proteins involved in organelle regulation and related signaling.","confidence":"Medium","size":16,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046902","count":1},{"id":"GO:0070940","count":1},{"id":"GO:1903740","count":1},{"id":"GO:2000134","count":1},{"id":"GO:0030150","count":1}]},{"hash":"1462022319503823469","title":"Amino acid transport and vesicle trafficking","description":"Dominant GO terms indicate amino acid transport (proline, glycine import) and vesicle-related processes (clathrin-dependent endocytosis, synaptic vesicle coating, intracellular protein transport), suggesting a shared theme around membrane transport and cargo trafficking. Some outlier terms (oxidative stress, morphogenesis) may reflect secondary associations or annotation noise, but the core appears to be transport and trafficking.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015824","count":2},{"id":"GO:0036233","count":2},{"id":"GO:0060325","count":1},{"id":"GO:0016183","count":1},{"id":"GO:0072583","count":1}]},{"hash":"1424076367306122249","title":"Mitochondrial gene expression and import","description":"The GO terms clustered here point to mitochondrial functions: initiation of mitochondrial translation, and multiple pseudouridine-synthesis activities for mRNA, tRNA, and snRNA, plus protein insertion into the mitochondrial inner membrane and targeting to mitochondria. Together these imply a module of mitochondrial gene expression and protein import/assembly. A few terms are obsolete or broad, but the dominant theme is mitochondrial processes.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016242","count":2},{"id":"GO:0070124","count":1},{"id":"GO:1990481","count":1},{"id":"GO:0031119","count":1},{"id":"GO:0031120","count":1}]},{"hash":"2153725730170882114","title":"Unknown","description":"There is no coherent shared function among the proteins based on GO terms; the only signal is GO:0009405 marked as obsolete and associated with a single protein, so a meaningful cluster label cannot be assigned.","confidence":"","size":15,"edges":26,"triangles":20,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009405","count":1}]},{"hash":"1831497662964793005","title":"DNA replication, repair, and telomere maintenance","description":"The cluster centers on genome maintenance functions, with GO terms for DNA replication, transcription-coupled nucleotide-excision repair, and regulation of telomere capping/telomerase activity, suggesting a cohesive theme around DNA repair and telomere maintenance; auxiliary terms about vacuolar acidification/proton transport are less defining. ","confidence":"High","size":15,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0051973","count":2},{"id":"GO:0007035","count":1},{"id":"GO:1902600","count":1}]},{"hash":"2051460628565861715","title":"Core Cell Cycle and Trafficking Machinery","description":"This cluster is dominated by GO terms tied to essential cellular processes such as ER-Golgi vesicle transport, DNA replication and cell division, protein oligomerization and chaperone-mediated assembly, and mitochondrial protein import, indicating a cohesive theme of fundamental cellular maintenance and proliferation machinery. Some terms like substantia nigra development and response to cocaine are less central, but the core signal points to core trafficking, folding, replication/repair, and division functions.","confidence":"Medium","size":15,"edges":53,"triangles":71,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006888","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0021762","count":4},{"id":"GO:0051260","count":4}]},{"hash":"1238363492531695426","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":50,"triangles":65,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048701","count":7},{"id":"GO:0006260","count":7},{"id":"GO:0000184","count":5},{"id":"GO:0007275","count":4},{"id":"GO:0046827","count":4}]},{"hash":"1684137151555832867","title":"Brassinosteroid and cuticle lipid biosynthesis","description":"The top GO terms cluster around plant-specific lipid metabolism and development: brassinosteroid homeostasis, very long-chain fatty acid biosynthesis, fatty acid elongation, and wax biosynthetic processes, all linking to cuticle formation and epidermal structures like trichomes. While some terms (progesterone/androgen metabolism) may be cross-annotated, the dominant signal points to plant hormone biosynthesis and cuticle lipid pathways, justifying this label as representative of the cluster\u2019s function.","confidence":"High","size":15,"edges":36,"triangles":27,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0030540","count":1},{"id":"GO:0010091","count":1},{"id":"GO:0010025","count":1},{"id":"GO:0006702","count":1},{"id":"GO:0019408","count":1}]},{"hash":"2204353543394971924","title":"Mitotic Chromatin Assembly and Microtubule Dynamics","description":"The cluster is enriched for nuclear processes: DNA-templated transcription, DNA replication, CENP-A\u2013containing chromatin assembly, and cell division, plus microtubule severing, all pointing to mitosis and chromatin maintenance. While a vesicle transport term and some development terms appear, the dominant theme centers on chromatin organization and spindle dynamics during cell division.","confidence":"High","size":15,"edges":9,"triangles":2,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0051013","count":3}]},{"hash":"1884471341067412093","title":"DNA replication and chromatin assembly","description":"The cluster centers on DNA replication (GO:0006260) and CENP-A containing chromatin assembly (GO:0061641), with related chromatin dynamics terms like nucleosome mobilization, suggesting a common theme of genome duplication and centromeric chromatin maintenance. In addition, there are inheritance terms for mitochondria and vacuoles, and some Golgi/ER trafficking terms that may reflect broader cell-division\u2013related processes or noise, but the strongest signal is replication and chromatin maintenance.","confidence":"Medium","size":15,"edges":55,"triangles":87,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0000001","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0045053","count":3},{"id":"GO:0001300","count":3}]},{"hash":"1945582779059663806","title":"Ribosome Biogenesis and Translation","description":"This cluster is strongly enriched for ribosome-related functions: translation (GO:0006412), ribosomal subunit assembly and biogenesis (GO:0000028, GO:0042254), ribosomal export from the nucleus (GO:0000055), and initiation/termination of translation (GO:0006413, GO:0006415), as well as maturation of SSU rRNA (GO:0000462). These converging terms point to proteins involved in ribosome assembly and function, making this label representative of the cluster\u2019s biology.","confidence":"High","size":15,"edges":104,"triangles":442,"max_degree":14,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0000028","count":5},{"id":"GO:0006407","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0006415","count":3}]},{"hash":"1445100281798293196","title":"Ubiquitin-Dependent Degradation and ER-Golgi Trafficking","description":"The strongest signals are ubiquitin-dependent protein catabolic process and K11-linked ubiquitination, indicating active proteasomal turnover. Also enriched are ER-to-Golgi vesicle transport and cell-cycle-related terms, suggesting coordinated protein sorting and regulation. Some non-nearby terms (plant/fungal) may reflect annotation noise. Overall, label fits the core ubiquitin-proteasome and trafficking theme.","confidence":"High","size":15,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0007399","count":2},{"id":"GO:1902953","count":2},{"id":"GO:0031915","count":1},{"id":"GO:0048825","count":1}]},{"hash":"1530538047472606406","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by GO terms tied to protein synthesis, including translation, ribosome biogenesis, and formation of translation preinitiation complexes, with additional support from translation reinitiation. A few outlier terms (retina development, mRNA splicing regulation) are less indicative of the core function, but overall the proteins appear to participate in ribosome assembly and active translation. ","confidence":"High","size":15,"edges":10,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0002188","count":2}]},{"hash":"918647670733259782","title":"Ribosome biogenesis and rRNA processing","description":"Dominant terms point to ribosome biogenesis and LSU-rRNA maturation, which together reflect roles in ribosome assembly and processing of ribosomal RNA. While there are a few additional GO terms related to transcription or development, the strongest shared function among the proteins is ribosome biogenesis, anchored by LSU rRNA maturation.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000463","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0007568","count":2}]},{"hash":"828839846450039557","title":"ER-Golgi vesicle trafficking and Golgi retention","description":"This cluster is dominated by GO terms related to vesicle transport between the endoplasmic reticulum and the Golgi, intracellular protein transport, and Golgi retention, with supporting terms for retrograde transport and endocytic recycling. While translation and mitotic condensation appear, the overarching theme ties to Golgi/ER trafficking and protein sorting. ","confidence":"High","size":15,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0045053","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1457880536834585590","title":"Ribosome biogenesis and translation","description":"The top GO terms are dominated by ribosome-related processes: ribosomal subunit biogenesis (small and large), ribosome biogenesis, cytoplasmic translation, and tRNA modification, plus export of ribosomal subunits from the nucleus. This points to a cohesive set of proteins involved in ribosome assembly and protein synthesis. Some other terms (cell division or stress responses) may reflect secondary roles or shared components but do not define the core function.","confidence":"High","size":15,"edges":21,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0000747","count":2},{"id":"GO:1901001","count":2},{"id":"GO:0042274","count":2},{"id":"GO:0000055","count":2}]},{"hash":"406529105619676280","title":"Mitochondrial Transport and Redox Regulation","description":"The top GO terms cluster around mitochondria: regulation of mitochondrial membrane permeability, malate-aspartate shuttle, alpha-ketoglutarate transport, and mitochondrial ion transport (manganese, magnesium). There are also entries for response to superoxide and regulation of necroptotic processes, which tie into mitochondrial redox signaling and cell death pathways. A single term (female pregnancy) seems unrelated and likely incidental. Overall, the terms converge on mitochondrial transport, metabolism, and redox control, supporting this label.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046902","count":1},{"id":"GO:0060546","count":1},{"id":"GO:0007565","count":1},{"id":"GO:0070542","count":1},{"id":"GO:0043490","count":1}]},{"hash":"31580574621796957","title":"DNA Repair and Telomere Maintenance","description":"The terms cluster around DNA processing and genome integrity: V(D)J recombination and B cell differentiation relate to programmed DNA rearrangements requiring NHEJ repair; NHEJ, telomere protection, and telomeric loop formation point to telomere maintenance; DNA replication is part of maintaining genome integrity. Some metabolic terms appear as outliers, but the dominant theme ties to DNA damage response and chromosome end upkeep.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033151","count":2},{"id":"GO:0030183","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0006260","count":2}]},{"hash":"276773871917543178","title":"Proteostasis and Protein Processing","description":"The cluster is dominated by GO terms for protein degradation and processing (proteasome regulatory particle assembly; protein catabolic process), with supporting terms for post-translational modification (glycosylation; poly-ADP-ribosylation) and protein trafficking (maintenance of protein localization in the plasma membrane). Some included terms (heart morphogenesis, pain sensing) appear peripheral or noisy, but the core theme centers on proteostasis and protein maturation/trafficking.","confidence":"Medium","size":15,"edges":51,"triangles":71,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0070682","count":2},{"id":"GO:0030163","count":2},{"id":"GO:0006487","count":1},{"id":"GO:0070427","count":1},{"id":"GO:0000083","count":1}]},{"hash":"1582402618210982708","title":"Diverse Transmembrane Transporters","description":"The Top Terms show multiple transmembrane transport processes spanning ions (sodium, phosphate), sugars (D-glucose, D-xylose), nitrite, vitamins, and organic cations, plus a metabolic term. This pattern indicates a cluster of proteins functioning as transporters across membranes with diverse substrates. The one outlier term about replicative senescence is unrelated but does not derail the overall transport theme. Therefore the label \"Diverse Transmembrane Transporters\" captures the main function represented.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":1},{"id":"GO:1904659","count":1},{"id":"GO:1904728","count":1},{"id":"GO:0015753","count":1},{"id":"GO:0006817","count":1}]},{"hash":"1925603377376102044","title":"EGFR signaling and actin dynamics in development","description":"The cluster is enriched for EGFR signaling (GO:0007173), endocytic recycling (GO:0032456), and actin cytoskeleton remodeling (GO:0010592, GO:0051496, GO:0021766), suggesting coordination between receptor trafficking, phosphorylation events, and actin-driven processes like lamellipodium and stress fiber assembly. The presence of various development-related terms (hippocampus, heart, liver development, post-embryonic development) implies roles across tissues during development, aligning with a theme of signaling-guided cytoskeletal changes in developmental contexts.","confidence":"High","size":14,"edges":14,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0033138","count":3},{"id":"GO:0051496","count":2},{"id":"GO:0048714","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0007507","count":2}]},{"hash":"868161610503770417","title":"Unknown","description":"The top terms span transcription (DNA-templated transcription, transcription initiation), protein turnover (ubiquitination, ERAD), various signaling pathways (Wnt, dopamine receptor, TORC1), plus transcytosis and cell division. This spread suggests no single cohesive function tying all proteins together, and the lack of defined interactions implies it\u2019s not easily categorized into a specific, interpretable cluster name.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0090263","count":2},{"id":"GO:0045056","count":2},{"id":"GO:0060161","count":2}]},{"hash":"868922228992827769","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":30,"triangles":30,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000466","count":8},{"id":"GO:0000463","count":8},{"id":"GO:0042273","count":7},{"id":"GO:0000480","count":6},{"id":"GO:0000398","count":6}]},{"hash":"1987223751039747707","title":"Ribosome biogenesis and translation","description":"The cluster is dominated by GO terms for ribosome biogenesis, ribosomal subunit assembly, maturation of rRNA, and translation, including mitochondrial ribosome assembly, indicating a core function in ribosome production and protein synthesis; the additional RNA processing and chromatin-related terms may reflect multifunctionality but do not define the main theme.","confidence":"High","size":14,"edges":85,"triangles":301,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0042273","count":5},{"id":"GO:0006605","count":4},{"id":"GO:0000027","count":4},{"id":"GO:1902775","count":3}]},{"hash":"289339735945812722","title":"Bacterial Stress Response and Metabolism","description":"The top GO terms point to antibiotic response and metal/selenium-related stress (response to antibiotic, response to tellurium ion, selenium compound metabolic process) alongside DNA repair (nucleotide-excision repair) and core metabolic activities (aerobic respiration, ubiquinone biosynthesis, polyamine biosynthetic process, even antibiotic biosynthesis). The combination suggests a general bacterial stress-adaptation and energy/metabolic state rather than a single, tight pathway, so a broad label like \u201cBacterial Stress Response and Metabolism\u201d fits. ","confidence":"Medium","size":14,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0006289","count":2},{"id":"GO:0046690","count":1},{"id":"GO:0001887","count":1},{"id":"GO:0009877","count":1}]},{"hash":"229007325616220727","title":"Chromatin remodeling and DNA replication under stress","description":"The cluster's top GO terms center on chromatin dynamics (DNA duplex unwinding, histone exchange, subtelomeric heterochromatin formation) and DNA replication (leading strand elongation), with additional stress-related processes (stress granule disassembly, SCF complex disassembly in response to cadmium, protein unfolding). This coherence suggests proteins in this cluster participate in chromatin remodeling and DNA synthesis, while engaging stress responses.","confidence":"High","size":14,"edges":27,"triangles":10,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0032508","count":3},{"id":"GO:0043486","count":3},{"id":"GO:0006348","count":3},{"id":"GO:0019885","count":2},{"id":"GO:0030154","count":2}]},{"hash":"1842718975364027035","title":"Vesicle trafficking and cytoskeletal dynamics","description":"This cluster centers on processes tied to membrane trafficking and the cytoskeleton: Golgi organization and filopodium assembly point to vesicle routing and actin-driven structure formation, while GABAergic synaptic transmission reflects vesicle release at neural synapses. Additional terms like cell spreading and mating projection growth relate to adhesion and morphogenesis driven by cytoskeletal remodeling; the apoptosis and cell cycle terms may reflect broader regulatory context. Overall, the shared theme is membrane trafficking coupled with cytoskeletal dynamics.","confidence":"Medium","size":14,"edges":38,"triangles":42,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0031384","count":2},{"id":"GO:0043525","count":2},{"id":"GO:0010796","count":2},{"id":"GO:0043524","count":2},{"id":"GO:0007049","count":2}]},{"hash":"711359180945741981","title":"Unknown","description":"The GO terms are highly diverse, spanning energy metabolism (ferredoxin, ATP synthesis), multiple catabolic processes (phenylacetate, xanthine), nitrogen fixation, ion transport, lactation, and both positive and negative regulators of vascular development. There is no single dominant biological function tying all proteins together, suggesting the cluster does not represent a cohesive shared role. Therefore, Unknown with None confidence. ","confidence":"","size":14,"edges":15,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006124","count":1},{"id":"GO:1900747","count":1},{"id":"GO:0010124","count":1},{"id":"GO:0045602","count":1},{"id":"GO:0007595","count":1}]},{"hash":"409611667388011137","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032968","count":2},{"id":"GO:0042068","count":1},{"id":"GO:0035330","count":1},{"id":"GO:1905490","count":1},{"id":"GO:0072356","count":1}]},{"hash":"1616431989813993516","title":"Brain development and Golgi-endosomal transport","description":"This cluster centers on neural development (brain development, positive regulation of cell population proliferation) and intracellular vesicle trafficking (endomembrane system organization, Golgi to lysosome transport, endosomal transport), with a highlight on myelin assembly. These connections point to proteins involved in brain maturation and the trafficking machinery that supports neuron and myelin formation, rather than a single isolated pathway.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008284","count":2},{"id":"GO:0007420","count":2},{"id":"GO:1903358","count":1},{"id":"GO:0010256","count":1},{"id":"GO:0090160","count":1}]},{"hash":"756368261780767908","title":"Porphyrin/Heme and Chlorophyll Biosynthesis","description":"Based on the Top Terms, the strongest and most coherent signal is porphyrin-based biosynthesis (heme, protoporphyrinogen IX) and chlorophyll biosynthesis, which ties the proteins to tetrapyrrole metabolism. The presence of several transmembrane transport terms suggests associated membrane roles, so the cluster may include porphyrin pathway components alongside transport-related proteins. Overall, the dominant theme is porphyrin/heme and chlorophyll biosynthesis, with transport-related functions as a secondary aspect.","confidence":"Medium","size":14,"edges":12,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006783","count":1},{"id":"GO:0015995","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0006782","count":1},{"id":"GO:0098700","count":1}]},{"hash":"1470848270819049844","title":"Mitochondrial ribosome biogenesis and rRNA maturation","description":"This cluster is dominated by GO terms related to assembling and maturing mitochondrial ribosomes (e.g., mitochondrial large subunit assembly, ribosomal large subunit biogenesis, maturation of rRNA components) and general RNA processing, indicating a cohesive theme around ribosome formation and rRNA maturation with some RNA splicing terms present as ancillary processes.","confidence":"High","size":14,"edges":68,"triangles":168,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:1902775","count":3},{"id":"GO:0000390","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0042273","count":2}]},{"hash":"286225598373687868","title":"Unknown","description":"The top GO terms span diverse processes from plant-specific pollen development and stilbene metabolism to animal muscle organization, hormone response, and general metabolism, with several unrelated biosynthetic and transport pathways. There isn\u2019t a single cohesive function linking these proteins, so no clear cluster label emerges beyond Unknown.","confidence":"","size":14,"edges":28,"triangles":27,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006564","count":3},{"id":"GO:0009103","count":3},{"id":"GO:0009555","count":2},{"id":"GO:0046272","count":2},{"id":"GO:0005986","count":2}]},{"hash":"1440421128598216050","title":"Unknown","description":"The terms span translation, development, photosynthesis-related processes, mitochondrial assembly, photoreceptor maintenance, copper homeostasis/transport, circulatory development, redox balance, and immune antigen presentation. This extreme diversity, plus zero connections among proteins, provides no coherent functional theme to label the cluster.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0007308","count":1},{"id":"GO:0010196","count":1},{"id":"GO:0008535","count":1},{"id":"GO:0045494","count":1}]},{"hash":"995510280611558297","title":"Vesicle trafficking and cell division","description":"This cluster shows strong signals for intracellular transport (ER-to-Golgi and Golgi-to-vacuole pathways) alongside core cell cycle processes (cell division, cell cycle, mitotic spindle assembly). Ribosome biogenesis and ribosomal subunit export add a dimension of growth and protein synthesis linked to division. Overall, the dominant themes are vesicle trafficking coupled with cell cycle progression, with supportive links to ribosome production.","confidence":"Medium","size":13,"edges":42,"triangles":69,"max_degree":10,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006888","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0090529","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0006896","count":3}]},{"hash":"410192723125216916","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":1},{"id":"GO:0006364","count":1},{"id":"GO:0042274","count":1},{"id":"GO:0090503","count":1},{"id":"GO:0000973","count":1}]},{"hash":"1671740883364261328","title":"Nuclear transcription and proteostasis","description":"The cluster centers on nuclear gene expression processes (DNA-templated transcription and spliceosomal assembly) and protein quality control/proteostasis (ERAD-related, chaperone involvement, and ubiquitin processing), suggesting a link between transcription and protein homeostasis.","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0051568","count":2},{"id":"GO:0034729","count":2},{"id":"GO:0006351","count":2},{"id":"GO:1904378","count":2}]},{"hash":"1805514157287595214","title":"RNA Pol II Transcription and RNA Processing","description":"TheTop GO terms cluster around transcription by RNA polymerase II and downstream RNA processing steps, including polyadenylation and mRNA cleavage, as well as transcription termination. Some terms also touch on chromatin silencing and calcium/NFAT signaling, which can influence transcriptional regulation. Taken together, the proteins appear to form a gene-expression regulation cluster centered on transcription and RNA processing.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010526","count":1},{"id":"GO:0006378","count":1},{"id":"GO:0006369","count":1},{"id":"GO:0070940","count":1},{"id":"GO:0042769","count":1}]},{"hash":"1886234942548399668","title":"Mitosis and Nuclear Transport Regulation","description":"The cluster is enriched for mitosis-related processes (mitotic metaphase chromosome alignment; protein localization to kinetochore) and nucleocytoplasmic transport (mRNA transport; regulation of protein export from nucleus), with supporting signals from TORC1 signaling and GTPase regulation. This suggests a core theme around cell division intertwined with nuclear-cytoplasmic trafficking, despite some outliers like viral processes and metal stress responses.","confidence":"Medium","size":13,"edges":15,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":3},{"id":"GO:0051028","count":2},{"id":"GO:0046825","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0016032","count":2}]},{"hash":"155519982166301565","title":"Regulation of Developmental Signaling","description":"The proteins appear connected to modulation of several signaling pathways (NF-kappaB, BMP, TGF-beta) and developmental processes (meristem identity, cellular response to TGF-beta), with additional roles in nuclear export and vesicle trafficking. This suggests a cohesive theme centered on regulating signaling and development, though some terms (e.g., photosystem adjustment) may reflect broader or context-specific roles.","confidence":"Medium","size":13,"edges":58,"triangles":128,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0042347","count":1},{"id":"GO:0030514","count":1},{"id":"GO:0080005","count":1},{"id":"GO:0061191","count":1},{"id":"GO:0042006","count":1}]},{"hash":"1085706548040134942","title":"Neural remodeling and myelin/paranodal maintenance","description":"The top GO terms cluster around neural development and connectivity, including tissue remodeling, extracellular matrix disassembly, protein localization to myelin sheath, paranodal junction maintenance, and modulation of excitatory synaptic potentials. While mitotic cell-cycle terms appear, the dominant signals point to neural remodeling, axon-glial interactions, and synaptic regulation rather than cell division. Confidence: Medium.","confidence":"","size":13,"edges":9,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:1900087","count":2},{"id":"GO:0048771","count":1},{"id":"GO:0035750","count":1},{"id":"GO:0030194","count":1}]},{"hash":"1112795574764248770","title":"Embryonic neural development and transcriptional regulation","description":"Top GO terms highlight neural and broader developmental processes (forebrain development, neural tube closure, skeletal and multicellular development) and transcriptional activity (DNA-templated transcription, gene expression regulation). Although there are stress- and immune-related terms (ER stress\u2013associated apoptotic signaling, cadmium ion response, defense against Gram-positive bacteria), the strongest cluster signal centers on developmental progression and neural formation, suggesting proteins enriched for transcriptional regulation during embryogenesis.","confidence":"Medium","size":13,"edges":25,"triangles":10,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0001501","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0071276","count":2}]},{"hash":"138066061138927502","title":"Ribosome Biogenesis and Translation","description":"The top GO terms are dominated by translation and ribosome-related processes, including cytoplasmic translation, ribosomal subunit assembly/biogenesis, and rRNA maturation, indicating the proteins mainly participate in ribosome production and protein synthesis; a few peripheral terms (mitotic checkpoint signaling, antibiotic response) do not define the core function.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":12},{"id":"GO:0000027","count":4},{"id":"GO:0042273","count":3},{"id":"GO:0007093","count":2},{"id":"GO:0042254","count":2}]},{"hash":"1088952369127640011","title":"Unknown","description":"The top GO terms span unrelated biological themes, including Notch signaling (animal development), various catabolic and biosynthetic metabolic processes, mitochondrial protein import, plant defense signaling, and fruit ripening. There is no clear, cohesive functional theme tying these proteins together, making it inappropriate to assign a specific, representative label. Unknown functions best describe this cluster.","confidence":"","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007219","count":2},{"id":"GO:0042853","count":2},{"id":"GO:0097053","count":2},{"id":"GO:0045040","count":1},{"id":"GO:0030150","count":1}]},{"hash":"347070656386672424","title":"NF-kappaB and innate immune regulation via deubiquitination","description":"This cluster centers on proteins involved in dampening inflammatory signaling, especially NF-kappaB, CD40, TLR3, and IL-1 pathways, with several members acting as deubiquitinases for K48- and K33-linked ubiquitin. While there are a couple GO terms relating to DNA repair, the dominant signal is negative regulation of innate immune signaling through deubiquitination, suggesting a cohesive group of regulators that fine-tune immune responses.","confidence":"Medium","size":13,"edges":12,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043124","count":1},{"id":"GO:0006281","count":1},{"id":"GO:2000780","count":1},{"id":"GO:0071108","count":1},{"id":"GO:0032495","count":1}]},{"hash":"163182950714359401","title":"Multi-tissue development and differentiation","description":"The terms point to differentiation and development across several tissues (skeletal muscle, heart, intestinal epithelium, hematopoietic stem cells) and include transcription regulation and protein turnover via ubiquitin pathways, with a glucocorticoid response noted. This suggests a cohesive theme of developmental programs across tissues, coupled with protein homeostasis.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1902035","count":1},{"id":"GO:0035914","count":1},{"id":"GO:0045184","count":1},{"id":"GO:0006469","count":1},{"id":"GO:0016579","count":1}]},{"hash":"1063014819269596989","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0000184","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0000390","count":2},{"id":"GO:0006370","count":2}]},{"hash":"2018938928604548971","title":"Mitochondrial energy metabolism and ER protein handling","description":"The cluster centers on mitochondria-associated processes (mitophagy, respiration, ATP synthesis) and ER-based protein folding/secretion, suggesting a theme of mitochondrial energy maintenance intertwined with ER protein handling. A few terms (aging, cutin/triglyceride biosynthesis, IL-2 production) appear as outliers/noise.","confidence":"Medium","size":13,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000422","count":1},{"id":"GO:0010259","count":1},{"id":"GO:0043457","count":1},{"id":"GO:0009306","count":1},{"id":"GO:0034975","count":1}]},{"hash":"154381097036335263","title":"Developmental cell fate specification and differentiation","description":"This cluster centers on GO terms involving cell fate specification and differentiation across developmental contexts (wing and eye development, spermatid differentiation). Additional terms about transcription regulation and protein processing appear as supporting cellular mechanisms during differentiation. Overall, the common theme points to developmental differentiation, though some unrelated terms introduce noise. ","confidence":"Medium","size":13,"edges":23,"triangles":7,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0035311","count":1},{"id":"GO:0048515","count":1},{"id":"GO:0038005","count":1},{"id":"GO:0042676","count":1},{"id":"GO:1904211","count":1}]},{"hash":"1204457930687798200","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":44,"triangles":76,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006268","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0090394","count":5},{"id":"GO:0006311","count":5},{"id":"GO:0045944","count":5}]},{"hash":"595369588603158138","title":"Fatty Acid Metabolism","description":"The GO terms point to a core lipid metabolism signal: transport of medium-chain fatty acids, fatty acid biosynthetic process, and long-chain fatty acid metabolic process, along with acetyl-CoA\u2013related flux (acetyl-CoA biosynthetic from acetate and pyruvate fermentation to acetate). While there are some outlier terms (bioluminescence, seed germination regulation, phenylpropanoid metabolism, rRNA maturation), the recurring theme centers on fatty acid synthesis and processing, suggesting the cluster represents lipid metabolism.","confidence":"Medium","size":12,"edges":19,"triangles":14,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":2},{"id":"GO:0001579","count":2},{"id":"GO:0019427","count":2},{"id":"GO:0090410","count":2},{"id":"GO:0008218","count":2}]},{"hash":"692614881785010871","title":"ER targeting and vesicle transport","description":"Most top GO terms point to entry and trafficking through the secretory pathway: targeting proteins to the ER, regulating their exit from the ER, and localization to endosomes, complemented by membrane transport activities such as phospholipid translocation and xenobiotic transmembrane transport. These themes suggest a cluster of proteins involved in ER\u2013Golgi\u2013endosome trafficking and membrane organization.","confidence":"Medium","size":12,"edges":40,"triangles":85,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006465","count":1},{"id":"GO:0045047","count":1},{"id":"GO:0044088","count":1},{"id":"GO:0036010","count":1},{"id":"GO:0070863","count":1}]},{"hash":"1663356749691648745","title":"RNA processing and ERAD-related quality control","description":"This cluster shows strong signals for RNA processing and translation, including spliceosome assembly and rRNA maturation, alongside ubiquitin/ERAD-related pathways and ER stress\u2013linked apoptotic signaling. The combination suggests a theme around RNA processing together with protein quality control in the endoplasmic reticulum.","confidence":"Medium","size":12,"edges":31,"triangles":27,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0016925","count":4},{"id":"GO:0030433","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0000244","count":3}]},{"hash":"740094360915791713","title":"Immune signaling and antigen presentation","description":"These proteins cluster around immune receptor signaling and antigen processing/presentation, with enrichment for TNF signaling, Fc-epsilon receptor signaling, and MHC class I antigen presentation, plus regulatory functions like deubiquitination and suppression of inflammatory responses. The Wnt pathway terms may reflect cross-talk but do not override the dominant immune-focused theme.","confidence":"Medium","size":12,"edges":38,"triangles":55,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0002862","count":5},{"id":"GO:0090263","count":5},{"id":"GO:0038095","count":5},{"id":"GO:0006521","count":5},{"id":"GO:0016579","count":5}]},{"hash":"426671054123760944","title":"Unknown","description":"The GO terms in this cluster span development (face development, retinal ganglion cell axon guidance), signaling pathway regulation (Smoothened in dorsal/ventral neural patterning), cytoskeleton dynamics (actin reorganization), immune signaling (IL-12 and IL-2 pathways, mast cell degranulation), transcription regulation, and even biofilm formation, with no single coherent function tying them together. Low connectivity (Edges: 2, Max Degree: 1) reinforces the lack of a unifying theme, so a specific label isn\u2019t justifiable.","confidence":"","size":12,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060324","count":2},{"id":"GO:1901621","count":2},{"id":"GO:2000251","count":2},{"id":"GO:0090606","count":2},{"id":"GO:0031290","count":2}]},{"hash":"465867979495303809","title":"Unknown","description":"This cluster presents a mix of GO terms across diverse biological areas, including guard cell morphogenesis, lipid and phosphate metabolism, antibiotic response, translation, GTPase regulation, and even viral genome replication. The lack of a single coherent function or pathway tying these terms together suggests there isn\u2019t a clear, interpretable label beyond Unknown. ","confidence":"","size":12,"edges":15,"triangles":5,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0010442","count":1},{"id":"GO:0006071","count":1},{"id":"GO:0030643","count":1},{"id":"GO:0034478","count":1},{"id":"GO:0046677","count":1}]},{"hash":"255024823757468675","title":"ER Folding and Membrane Targeting","description":"Most annotations cluster around protein folding (including ER-specific folding), chaperone-assisted refolding, and post-translational targeting to membranes, with redox homeostasis supporting the folding environment. Some terms like DNA replication and ncRNA-mediated silencing are peripheral, but the dominant theme is protein processing and trafficking in the secretory/ER pathway.","confidence":"Medium","size":12,"edges":6,"triangles":2,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090084","count":3},{"id":"GO:0070389","count":3},{"id":"GO:1900035","count":3},{"id":"GO:0031204","count":3},{"id":"GO:0006260","count":3}]},{"hash":"68896851234492900","title":"Ribosome biogenesis and translation machinery","description":"The top GO terms cluster around ribosome- and translation-related processes: translation itself, formation of the translation preinitiation complex, translation termination and reinitiation, ribosome biogenesis and disassembly, and rRNA maturation. Additional terms related to mRNA processing and nonsense-mediated decay suggest a broader RNA quality-control context tied to translation, supporting a cohesive theme of ribosome assembly and protein synthesis machinery.","confidence":"High","size":12,"edges":55,"triangles":132,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0006369","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0032790","count":2}]},{"hash":"1987325747979437660","title":"RNA processing and translation machinery","description":"In this cluster, GO terms cluster around translation (translation, initiation, eIF4F complex assembly), mRNA stability under stress, and RNA processing (spliceosome, small-subunit processome), suggesting a cohesive group of proteins involved in mRNA maturation and regulation of protein synthesis.","confidence":"High","size":12,"edges":33,"triangles":32,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":5},{"id":"GO:0006412","count":4},{"id":"GO:0006446","count":4},{"id":"GO:1902625","count":4},{"id":"GO:0097010","count":4}]},{"hash":"988845200071071270","title":"Cytoskeleton remodeling and cell migration","description":"The cluster centers on actin cytoskeleton dynamics and cell movement: terms like cell migration, actin filament reorganization, podosome assembly, and GTPase activity regulation point to cytoskeletal remodeling driving motility. Additional terms such as calcium-dependent exocytosis, acrosome assembly, and epithelial polarity reflect contexts where cytoskeletal changes coordinate vesicle trafficking and tissue organization. Together, these terms suggest a cohesive theme of actin-based structural remodeling governing cell movement and related processes. The ultradian rhythm term is less connected and may be incidental.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":2},{"id":"GO:0045956","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0030037","count":1},{"id":"GO:0001675","count":1}]},{"hash":"2143731908845483317","title":"Ceramide and glycosphingolipid transport","description":"This cluster shows a clear enrichment for lipid transport and sphingolipid metabolism terms, including ceramide transport, ER-to-Golgi ceramide transport, glycosphingolipid metabolic process, and glycolipid transport. While other terms (various transmembrane transports and defense-related responses) appear, the lipid trafficking signals are the strongest and most coherent theme, suggesting these proteins function together in sphingolipid transport and related membrane trafficking. Confidence: Medium","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0072488","count":1},{"id":"GO:1902389","count":1},{"id":"GO:0009816","count":1},{"id":"GO:0015695","count":1}]},{"hash":"235734900685779341","title":"Mitochondrial Metabolism and Membrane Permeability","description":"The proteins cluster around mitochondrial function: regulation of mitochondrial membrane permeability, malate-aspartate shuttle activity, transport of key metabolites such as alpha-ketoglutarate, and ion transport (magnesium and manganese). They also connect to oxidative stress responses (response to superoxide) and regulation of necroptosis, with an ancillary term related to pregnancy that may reflect placental mitochondrial roles. Overall, the theme is mitochondrial metabolism and stress response.","confidence":"High","size":12,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046902","count":2},{"id":"GO:0060546","count":2},{"id":"GO:0007565","count":2},{"id":"GO:0070542","count":2},{"id":"GO:0043490","count":2}]},{"hash":"1647436783086402499","title":"Cell Fate Transitions and Stress Signaling","description":"The GO terms span EMT, mitotic spindle attachment, cell budding, organ senescence, and signaling cascades (NFAT, hypertrophy, extrinsic apoptosis), suggesting a broad theme of cellular state changes and stress-response signaling rather than a single cohesive pathway. This justifies a label focusing on cell fate transitions and associated signaling.","confidence":"Low","size":12,"edges":10,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006308","count":1},{"id":"GO:0080187","count":1},{"id":"GO:0090305","count":1},{"id":"GO:0051315","count":1},{"id":"GO:0007114","count":1}]},{"hash":"514427013921538130","title":"ERAD and Protein Quality Control","description":"The top GO terms cluster around ubiquitin-dependent ERAD, misfolded protein transport, heat shock response, and regulation of protein export, all core aspects of cellular proteostasis and quality control for proteins, especially in the endoplasmic reticulum. Some development-related terms appear but seem secondary to the dominant theme of protein folding/quality control. Confidence: Medium","confidence":"","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":12},{"id":"GO:1901621","count":12},{"id":"GO:0009408","count":12},{"id":"GO:0046825","count":12},{"id":"GO:0001707","count":12}]},{"hash":"728864989146903252","title":"Unknown","description":"There are no GO terms listed for this cluster, so there\u2019s no clear functional theme to name it after. With only network metrics (11 proteins, 55 edges, 165 triangles, max degree 10), a specific, representative label cannot be inferred from function alone.","confidence":"","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[]},{"hash":"803089310983463928","title":"DNA Damage Response and Repair","description":"The GO terms cluster around DNA damage sensing/repair pathways (DNA repair, transcription-coupled repair), replication stress checkpoints, and translesion synthesis, indicating proteins involved in genome integrity maintenance during replication and transcription.","confidence":"High","size":11,"edges":20,"triangles":10,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006977","count":2},{"id":"GO:0051598","count":1},{"id":"GO:0035753","count":1},{"id":"GO:0042276","count":1},{"id":"GO:0000083","count":1}]},{"hash":"994200992676533492","title":"Endomembrane trafficking and cell death signaling","description":"The top GO terms point to ER-to-Golgi vesicle transport and autophagy-related vacuole targeting, along with signals for extrinsic apoptotic and necrotic pathways and cytoskeletal organization. This combination suggests a theme of membrane trafficking under cellular stress that can influence cell fate decisions, making a label centered on vesicle trafficking with stress-related cell death most representative.","confidence":"Medium","size":11,"edges":12,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043278","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0006094","count":2},{"id":"GO:0071280","count":1},{"id":"GO:0071211","count":1}]},{"hash":"1041777309586623850","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":1},{"id":"GO:0060546","count":1},{"id":"GO:0007250","count":1},{"id":"GO:0070534","count":1},{"id":"GO:0046621","count":1}]},{"hash":"1296223469413323772","title":"Neural development and synaptic signaling","description":"This cluster centers on nervous system development terms (nervous system development, substantia nigra development), regulation of postsynaptic potential, neuron apoptosis, and small GTPase\u2013mediated signaling, suggesting roles in neural development and synaptic regulation. A few terms (ribosomal export, intermembrane transport, fungal cell wall biosynthesis) are likely unrelated noise. Overall, the dominant theme is neural development and synaptic signaling.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0007399","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0090394","count":2},{"id":"GO:0021762","count":2}]},{"hash":"749615908568942769","title":"DNA replication and ER stress response","description":"This cluster mixes core DNA replication processes (DNA replication, leading strand elongation, DNA duplex unwinding) with ER-associated proteostasis and stress responses (ER to Golgi transport, unfolded protein response, protein unfolding, stress granule disassembly, SCF complex disassembly in response to cadmium stress). The co-occurrence suggests a link between genome duplication/cell cycle activities and ER-based quality control under stress, providing a coherent, albeit broad, functional theme.","confidence":"Medium","size":11,"edges":24,"triangles":14,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0070651","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0032508","count":2},{"id":"GO:0006272","count":2}]},{"hash":"1555209998948546026","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":51,"triangles":131,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0000480","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0030433","count":2}]},{"hash":"1176424289401887273","title":"Unknown","description":"The top terms are highly diverse and include transcription regulation, chromatin organization, signaling pathways (BMP/TGF-beta), collagen catabolic processes, and even photosystem-related terms, with no coherent shared function or interactions to bind the proteins into a single, distinctive cluster.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034396","count":1},{"id":"GO:0035551","count":1},{"id":"GO:0030574","count":1},{"id":"GO:0034724","count":1},{"id":"GO:0042347","count":1}]},{"hash":"1626632814145604866","title":"Ciliary Motility and Embryonic Development","description":"This cluster is enriched for ciliary functions (axonemal dynein complex assembly; cilium-dependent cell motility) and developmental processes (heart development; determination of left/right symmetry; endodermal cell fate commitment; oligodendrocyte differentiation). The shared theme appears to be cilia-driven developmental patterning, especially left-right axis formation affecting heart development, with neural differentiation represented as well. Some transcription elongation and protein destabilization terms may reflect broader cellular roles rather than core features of the cluster.","confidence":"High","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0060285","count":1},{"id":"GO:0007368","count":1},{"id":"GO:0070286","count":1},{"id":"GO:0006368","count":1}]},{"hash":"1724575584016814664","title":"Mitochondrial protein import and Complex IV assembly","description":"This cluster is dominated by GO terms for mitochondrial targeting and assembly: protein import into the mitochondrial matrix and inner membrane insertion, plus assembly of the respiratory chain Complex IV (cytochrome c oxidase) and regulation of COX activity, consistent with mitochondrial protein maturation and assembly pathways. Some outlier terms (chloroplast import, brain development) are present but do not override the overall mitochondrial theme.","confidence":"High","size":11,"edges":27,"triangles":29,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045039","count":2},{"id":"GO:0033617","count":2},{"id":"GO:0045037","count":1},{"id":"GO:0032094","count":1},{"id":"GO:0030150","count":1}]},{"hash":"834755197894195312","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by translation and ribosome-related processes (translation, ribosome biogenesis, ribosomal subunit assembly, rRNA processing/export), with supporting roles in mitochondrial protein import and protein folding. These terms together indicate a cohesive set of proteins involved in ribosome assembly and protein synthesis, with some associated stress-responsive terms likely reflecting translational regulation. ","confidence":"High","size":11,"edges":29,"triangles":27,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0000448","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0000028","count":1},{"id":"GO:0006407","count":1}]},{"hash":"217071463922003534","title":"Strigolactone-driven shoot development","description":"The top GO terms include strigolactone biosynthetic process and secondary shoot formation, indicating a plant-specific program regulating shoot development via strigolactone signaling. Other terms are more general or metabolic, but the recurring plant-development terms dominate, supporting a label focused on shoot development and strigolactone metabolism.","confidence":"Medium","size":11,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008284","count":3},{"id":"GO:0009636","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0006479","count":3},{"id":"GO:0001824","count":3}]},{"hash":"1129778457428490939","title":"Vesicle trafficking and lipid metabolism","description":"Several top GO terms describe transport between the ER and Golgi and other vesicle routes (ER\u2192Golgi, post-Golgi, endosome to vacuole via MVB). A cluster of lipid biosynthesis processes (sphingolipid, unsaturated fatty acids, very long-chain fatty acids, long-chain acyl-CoA) indicates membrane lipid production that supports these trafficking steps. The mix suggests a functional module combining membrane synthesis with vesicle trafficking machinery. A couple of terms (intestinal development, courtship, pheromone metabolism) may reflect broader organismal contexts, but the core signal is trafficking plus lipid biosynthesis.","confidence":"Medium","size":11,"edges":19,"triangles":10,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0060628","count":2},{"id":"GO:0060576","count":2},{"id":"GO:0032511","count":1},{"id":"GO:0030148","count":1},{"id":"GO:0006636","count":1}]},{"hash":"2297540658216062257","title":"Post-transcriptional mRNA processing and translation initiation","description":"The cluster centers on post-transcriptional control of gene expression, with terms tied to mRNA maturation and export (polyadenylation, spliceosome assembly, mRNA export) and translation initiation (regulation of translational initiation, eIF4F complex assembly). The inclusion of ncRNA-mediated gene silencing and small-subunit processome assembly reinforces a shared theme of RNA processing before or during translation. Some terms are flagged as obsolete, but they still reflect components and steps involved in these processes.","confidence":"High","size":11,"edges":7,"triangles":2,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006446","count":4},{"id":"GO:1902625","count":4},{"id":"GO:0097010","count":4},{"id":"GO:0006378","count":4},{"id":"GO:0034462","count":4}]},{"hash":"1636019331785530508","title":"Folate metabolism and THF interconversion","description":"The top GO terms all relate to folic acid and tetrahydrofolate (THF) metabolism, including biosynthesis, catabolism, and interconversion. The presence of a formate metabolic process term also ties to one-carbon metabolism linked to the folate cycle. Together, these terms point to a cluster of proteins involved in folate-dependent one-carbon metabolism.","confidence":"High","size":11,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0015942","count":1},{"id":"GO:0009396","count":1},{"id":"GO:0046657","count":1},{"id":"GO:0035999","count":1}]},{"hash":"1251746617698075414","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":24,"triangles":16,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006207","count":2},{"id":"GO:0044205","count":2},{"id":"GO:0032869","count":2},{"id":"GO:0071872","count":2}]},{"hash":"1426466198316896333","title":"GTPase-regulated vesicle trafficking","description":"The cluster centers on small GTPase\u2013mediated control of vesicle movement, with strong links to ER\u2013Golgi transport, endocytic recycling, and retrograde Golgi\u2013ER routing, plus positive regulation of GTPase activity. These trafficking-related terms predominate, suggesting a cohesive module of vesicle trafficking and GTPase-regulated signaling; the other signaling and development terms may reflect broader roles or annotation spillover.","confidence":"High","size":10,"edges":23,"triangles":17,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0000186","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0021766","count":3},{"id":"GO:0090263","count":3}]},{"hash":"398362724454285504","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":15,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0090503","count":1},{"id":"GO:0000973","count":1},{"id":"GO:0034476","count":1},{"id":"GO:0032066","count":1},{"id":"GO:0034473","count":1}]},{"hash":"30206795187311430","title":"Mitochondrial Metabolism and Stress Response","description":"This cluster centers on mitochondrial functions: metabolite transport (alpha-ketoglutarate, malate-aspartate shuttle), ion transport (manganese and magnesium), regulation of mitochondrial membrane permeability, and responses related to oxidative stress and necroptosis. The lone \u201cfemale pregnancy\u201d term is likely incidental. Overall, the terms point to mitochondria-driven metabolism and stress regulation.","confidence":"Medium","size":10,"edges":18,"triangles":10,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0046902","count":1},{"id":"GO:0060546","count":1},{"id":"GO:0007565","count":1},{"id":"GO:0070542","count":1},{"id":"GO:0043490","count":1}]},{"hash":"1817163374449647138","title":"Ubiquitin-mediated proteolysis","description":"Dominant GO terms describe ubiquitination and proteasomal degradation pathways (K48-linked ubiquitination, ubiquitin-dependent protein catabolic process, autoubiquitination, ERAD). A few outliers touch on peroxisomal import or growth regulation, but the core signal is protein turnover controlled by ubiquitination.","confidence":"High","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":1},{"id":"GO:0070936","count":1},{"id":"GO:0046621","count":1},{"id":"GO:0016558","count":1},{"id":"GO:1900095","count":1}]},{"hash":"446302043049444851","title":"Chromatin Silencing and DNA Replication","description":"Proteins in this cluster are tied to DNA replication and cell-cycle progression (G1/S), and strongly to chromatin organization and silencing (heterochromatin formation, subtelomeric and mating-type locus chromatin), with links to transcriptional regulation (including sumoylation) and transcription-coupled DNA repair. This combination suggests a cohesive role in chromatin-based genome maintenance during replication. ","confidence":"High","size":10,"edges":18,"triangles":10,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0000082","count":2},{"id":"GO:0061587","count":2},{"id":"GO:0035753","count":2},{"id":"GO:0000083","count":2}]},{"hash":"1792129658350897450","title":"Multitissue Organogenesis and Growth","description":"The top GO terms are dominated by developmental and morphogenesis processes across brain, bone, gonad, and heart (e.g., brain development, osteoblast differentiation, cardiac atrium morphogenesis, multicellular organism growth), with a few immune-related terms appearing as minority signals.","confidence":"Medium","size":10,"edges":17,"triangles":11,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0001649","count":3},{"id":"GO:0008584","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0050830","count":3}]},{"hash":"26000291496215112","title":"Chloroplast Photosynthesis and Mitochondrial Respiration","description":"This cluster centers on chloroplast photosynthesis and carbon fixation, along with mitochondrial respiration, and includes organellar RNA processing and ribosomal assembly terms. Together these suggest a cohesive module of organelle-based energy metabolism and protein synthesis, linking photosynthetic and respiratory processes.","confidence":"High","size":10,"edges":26,"triangles":29,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000963","count":2},{"id":"GO:1902775","count":2},{"id":"GO:0045333","count":2},{"id":"GO:1901259","count":2},{"id":"GO:0010167","count":1}]},{"hash":"1097726113780591207","title":"Unknown","description":"The top terms are a disparate mix of RNA processing and transcription-related processes (rRNA processing, transcription antitermination, RNA polymerase II transcription) alongside translation initiation regulation, mRNA decay, and unrelated terms like isoprenoid biosynthesis and ER stress/pancreatic apoptosis. This lack of a coherent, single functional theme suggests no clear shared function for the cluster beyond general RNA metabolism, so a specific label cannot be assigned with confidence.","confidence":"","size":10,"edges":30,"triangles":39,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0097394","count":1},{"id":"GO:0045948","count":1},{"id":"GO:0090503","count":1},{"id":"GO:2000676","count":1},{"id":"GO:0050992","count":1}]},{"hash":"788310579557764775","title":"Forebrain development and dendrite morphogenesis","description":"The cluster shows clear neural-development signals, notably forebrain development and dendrite morphogenesis, suggesting roles in brain formation and neuronal morphology. Other terms indicate broader developmental programs (multicellular development, skeletal development) and general transcription/replication processes that may accompany development, but the strongest, most specific theme is neural development and dendritic formation.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0071276","count":2}]},{"hash":"222438905763296513","title":"Developmental Signaling and Morphogenesis","description":"This cluster groups terms involving regulation of signaling pathways (notably Wnt positive/negative regulation), neuronal development (midbrain dopaminergic neuron differentiation, dendrite morphogenesis), hair follicle placode formation, and immune signaling (T cell receptor signaling, mast cell degranulation). The shared theme appears to be modulation of signaling events that drive development and morphogenesis across multiple tissues, with a notable emphasis on developmental processes rather than a single pathway.","confidence":"Medium","size":10,"edges":12,"triangles":4,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0090090","count":3},{"id":"GO:0042176","count":3}]},{"hash":"2113489995706109234","title":"Ribosome biogenesis & RNA processing","description":"The strongest terms center on rRNA maturation (5.8S and LSU rRNA), and formation of translation preinitiation complexes, pointing to nucleolar ribosome assembly. Additional RNA-processing and transcription terms (splicing, DNA-templated transcription) support a broader RNA-processing/nucleosome-associated function, with some association to cell division and trafficking. Overall, the cluster appears driven by ribosome biogenesis and RNA processing factors.","confidence":"Medium","size":10,"edges":29,"triangles":42,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000466","count":3},{"id":"GO:0000463","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0030433","count":2}]},{"hash":"1968321753000136084","title":"Unknown","description":"The top GO terms are highly diverse, including photosynthesis, neuron projection development, thymidine/uracil catabolic processes, beta-alanine and thiamine biosynthesis, embryonic development, and xenobiotic response, with several obsolete terms as well. There is no single unifying function or pathway linking these terms, making it impossible to assign a concise, representative label.","confidence":"","size":10,"edges":9,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0015979","count":2},{"id":"GO:0010976","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0006214","count":2}]},{"hash":"1779624827590655692","title":"Central carbon metabolism and energy production","description":"Proteins in this cluster are enriched for glycolysis, TCA cycle, gluconeogenesis, acetyl-CoA formation, and related carbon metabolism, with supporting terms in fatty acid biosynthesis and amino acid catabolism, indicating a cohesive central-energy metabolism module.","confidence":"High","size":10,"edges":27,"triangles":35,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":5},{"id":"GO:0006096","count":5},{"id":"GO:0006094","count":3},{"id":"GO:0006103","count":3},{"id":"GO:0033512","count":2}]},{"hash":"1973615189350048480","title":"DNA transcription and chromosome maintenance","description":"The cluster centers on transcription-related processes (DNA-templated transcription and its regulation) along with chromosome-centric activities (chromosome condensation, DNA recombination) and translation regulation, suggesting a cohesive theme of gene expression control and genome maintenance. The presence of one outlier term (heterocyst development) may reflect annotation noise rather than a true functional divergence. The single-edge connectivity supports a modest, but coherent, DNA metabolism/transcription cluster.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030261","count":1},{"id":"GO:0000746","count":1},{"id":"GO:0006417","count":1},{"id":"GO:0043158","count":1},{"id":"GO:0006355","count":1}]},{"hash":"1069794360789787201","title":"Phospholipid biosynthesis and mitochondrial membrane organization","description":"The cluster shows strong enrichment for phospholipid biosynthesis (phosphatidylserine, phosphatidylethanolamine, phosphatidylglycerol) and related lipid signaling (platelet activating factor biosynthesis) as well as inner mitochondrial membrane organization, pointing to a cohesive theme of membrane lipid metabolism and mitochondrial membrane dynamics. Some unrelated terms (e.g., ERAD, cell cycle regulation) appear less representative but do not override the lipid/membrane focus.","confidence":"High","size":10,"edges":27,"triangles":37,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0006659","count":2},{"id":"GO:0006646","count":2},{"id":"GO:0070317","count":2},{"id":"GO:0006655","count":2}]},{"hash":"634933302144542030","title":"Protein Translation Machinery","description":"Cluster contains GO terms spanning all stages of translation (initiation, elongation, termination), plus mitochondrial and cytoplasmic translation, and selenocysteine incorporation, indicating a cohesive group of translation-related proteins rather than a single pathway. Some related terms like response to antibiotic or glial proliferation are incidental or reflect multifunctional proteins, but the dominant pattern is translation machinery components.","confidence":"High","size":10,"edges":24,"triangles":35,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0070125","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0001514","count":2},{"id":"GO:0006415","count":2}]},{"hash":"773587441525427603","title":"RNA Processing and Translation Initiation","description":"This cluster centers on RNA metabolism and translation-related assembly, with terms like regulation of translational initiation and eIF4F complex assembly, plus splicing (spliceosome) and mRNA export, indicating coordinated RNA maturation and translation initiation functions (a few terms are obsolete but still reflect the same theme).","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":2},{"id":"GO:1902625","count":2},{"id":"GO:0097010","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0034462","count":2}]},{"hash":"1832492330775863802","title":"ER-to-Golgi Protein Folding and Trafficking","description":"The top GO terms point to chaperone-mediated protein complex assembly and ER-to-Golgi vesicle transport, suggesting the cluster centers on protein folding and trafficking through the secretory pathway. Other terms (transcription regulation, apoptosis, terpenoid/isoprenoid biosynthesis, ubiquinone biosynthesis, and ERAD) are less cohesive with this theme and may reflect multifunctional annotations or background processes, but the core signal supports ER-related folding and transport.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051131","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0032968","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006915","count":2}]},{"hash":"370872474964860663","title":"Unknown","description":"No GO terms are provided for this cluster, so I cannot infer a common function. The network appears dense (36 edges among 9 proteins with many triangles), but without functional annotations we cannot determine a unifying theme.","confidence":"","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[]},{"hash":"20516811771048386","title":"ER-Golgi Vesicle Transport and Mitosis","description":"The top GO terms point strongly to vesicle trafficking between the ER and Golgi, including COPII-coated vesicle budding and retrograde Golgi-to-ER transport, indicating a core role in the secretory pathway. There are also signals related to cell division and mitotic spindle assembly, suggesting some involvement in the cell cycle. While ribosome biogenesis and brain development appear among the terms, the clearest shared theme across the cluster is ER-Golgi transport with auxiliary links to mitosis, hence the chosen name.","confidence":"Medium","size":9,"edges":9,"triangles":2,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006890","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0051301","count":3}]},{"hash":"1036151306380002386","title":"Mitotic cell cycle and ubiquitin-mediated proteolysis","description":"The top GO terms cluster around mitosis and DNA replication, with emphasis on ubiquitin-dependent degradation via APC/C and SCF complexes, plus microtubule-based movement and mRNA transport. This points to a cohesive theme of cell-cycle control and regulated proteolysis; broader developmental terms may reflect shared components used in multicellular contexts.","confidence":"High","size":9,"edges":9,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0031145","count":2},{"id":"GO:0007275","count":2}]},{"hash":"225678354700334074","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":19,"triangles":16,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006364","count":2},{"id":"GO:0008033","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0060294","count":1},{"id":"GO:0044458","count":1}]},{"hash":"1347765784855916375","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":18,"triangles":13,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0045899","count":2},{"id":"GO:0032968","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0030466","count":2}]},{"hash":"1685241108687599589","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":14,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001682","count":1},{"id":"GO:0000961","count":1},{"id":"GO:0009451","count":1},{"id":"GO:1900865","count":1},{"id":"GO:1905639","count":1}]},{"hash":"805773267807531388","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":33,"triangles":65,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0071038","count":2},{"id":"GO:0000467","count":2},{"id":"GO:0071049","count":2},{"id":"GO:0070478","count":2},{"id":"GO:0070481","count":2}]},{"hash":"1172932936003628895","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":9,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":2},{"id":"GO:0043588","count":1},{"id":"GO:0031915","count":1},{"id":"GO:0001501","count":1},{"id":"GO:0006890","count":1}]},{"hash":"844072797290976341","title":"RNA methylation and nucleolar RNA processing","description":"This cluster is driven by GO terms for RNA methylation (rRNA, tRNA, cap methylation and hypermethylation) and nucleolar-related processes, indicating a group of RNA-modifying/nucleolar proteins. A few outliers like cobalamin biosynthesis and fatty acid transport are present but do not define the core function. Therefore the label reflects the main theme with moderate confidence.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009236","count":1},{"id":"GO:0071167","count":1},{"id":"GO:0070475","count":1},{"id":"GO:0009452","count":1},{"id":"GO:0017126","count":1}]},{"hash":"208258792702393616","title":"Embryonic development and proliferation control","description":"The top GO terms cluster around embryonic development topics (limb development, anterior/posterior axis specification) and regulation of cell proliferation (negative regulation of neuroblast and fibroblast proliferation), with transcription by RNA polymerase II as a general context. While meiotic terms appear, the strongest signal ties to developmental patterning and growth control, suggesting proteins involved in embryonic development and growth regulation.","confidence":"Medium","size":9,"edges":15,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060173","count":1},{"id":"GO:0006311","count":1},{"id":"GO:0007406","count":1},{"id":"GO:0045144","count":1},{"id":"GO:0006366","count":1}]},{"hash":"819594700964301781","title":"Organelle ribosome biogenesis and respiration","description":"GO terms point to mitochondrial RNA processing and mitochondrial large ribosomal subunit assembly, plus chloroplast rRNA processing and cellular respiration. The common thread is organellar gene expression machinery (mitochondria and chloroplasts) linked to energy metabolism, suggesting this cluster centers on organellar ribosome biogenesis and respiration.","confidence":"Medium","size":9,"edges":6,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000963","count":1},{"id":"GO:1902775","count":1},{"id":"GO:0045333","count":1},{"id":"GO:1901259","count":1},{"id":"GO:0009826","count":1}]},{"hash":"1845829461630379119","title":"Central carbon metabolism and redox homeostasis","description":"The top GO terms cluster around glycolytic process, the TCA cycle, and 2-oxoglutarate metabolism, with related regulation of pyruvate decarboxylation and redox homeostasis, pointing to core energy production and redox balance. A few other terms (rhabdomere membrane biogenesis, gastrulation, mercury detoxification) are less aligned and likely represent broader or incidental annotations, but the central theme is metabolic pathways and redox control.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0045313","count":2},{"id":"GO:0006103","count":1},{"id":"GO:0006554","count":1}]},{"hash":"2132036565052478172","title":"Protein quality control and heat-stress response","description":"The top GO terms point to proteostasis-related processes: misfolded protein transport, ER-associated degradation (ERAD), and heat response, along with regulation of protein export and kinase activity. This suggests a cohesive cluster centered on managing misfolded proteins and stress signaling, with some developmental terms that may be less central noise. ","confidence":"Medium","size":9,"edges":14,"triangles":11,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006469","count":6},{"id":"GO:0030433","count":5},{"id":"GO:1901621","count":5},{"id":"GO:0009408","count":5},{"id":"GO:0046825","count":5}]},{"hash":"143219938171252601","title":"Unknown","description":"The cluster has only a single, obsolete GO term (pathogenesis) and essentially no connectivity or shared functional signals, providing no coherent theme to label the proteins. Therefore, the appropriate label is Unknown with no confidence in a representative function.","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009405","count":1}]},{"hash":"770187993745078560","title":"Translation Initiation Complex Assembly","description":"This cluster is dominated by terms related to the initiation of translation: formation of the translation preinitiation complex, translation reinitiation, and the assembly of the eIF4F complex, plus regulation of translational initiation. Together, these terms point to proteins that function in assembling the ribosomal initiation machinery and starting protein synthesis. Some auxiliary terms (e.g., small-subunit processome assembly) reflect connected RNA-processing steps that support ribosome biogenesis, but the core theme remains translation initiation.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0006446","count":3},{"id":"GO:1902625","count":3},{"id":"GO:0097010","count":3}]},{"hash":"1710596720580339113","title":"ER proteostasis and secretory trafficking","description":"The cluster shows strong representation of ER-associated degradation and misfolded protein handling (obsolete ubiquitin-dependent ERAD pathway, ER-associated misfolded protein catabolic process, cellular response to misfolded protein) and ER-to-Golgi vesicle transport, which together point to ER proteostasis and trafficking through the secretory pathway. While there are also terms tied to ribosome biogenesis, cell division, and chromatin assembly, these are broad cellular processes that may accompany growth but do not define the core theme as clearly as the ER quality-control terms do.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0051013","count":2}]},{"hash":"1026933614211143180","title":"Ubiquitination and NF-\u03baB/TNF Signaling","description":"Proteins in this cluster are tied to ubiquitin-related processes (ubiquitination and ubiquitin-dependent proteolysis/ERAD) and inflammatory signaling pathways, including NF-\u03baB activation and TNF-mediated signaling. While there are occasional DNA repair terms present, the strongest and most coherent signal is a module focused on ubiquitin-mediated regulation and inflammatory signaling cascades.","confidence":"High","size":8,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0000717","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0007250","count":1},{"id":"GO:0046621","count":1}]},{"hash":"111276086876988218","title":"Antimicrobial defense and antigen processing","description":"This cluster shows enrichment for antimicrobial/antibiotic biosynthesis and antibacterial peptide production, plus antigen processing for MHC class II, pointing to an immune defense theme. The presence of proteolysis and protein catabolic processes supports generation of antigenic peptides, though some metabolic terms (lipid/fatty acid biosynthesis) appear as ancillary processes.","confidence":"Medium","size":8,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":2},{"id":"GO:0006633","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0019886","count":1},{"id":"GO:0042985","count":1}]},{"hash":"219043424014684584","title":"RNA processing and translation initiation","description":"The top terms cluster around mRNA processing (spliceosome-mediated splicing, small-subunit processome assembly, polyadenylation) and translation initiation (cytoplasmic translation, eIF4F complex assembly, regulation of translational initiation). This pattern points to proteins involved in RNA maturation and in assembling the translation machinery, linking RNA processing to protein synthesis.","confidence":"High","size":8,"edges":21,"triangles":26,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0002181","count":2},{"id":"GO:0006446","count":2},{"id":"GO:1902625","count":2}]},{"hash":"185381253124370655","title":"Protein quality control and heat-stress response","description":"This cluster centers on proteostasis: redox homeostasis, chaperone/cofactor-dependent refolding, ER-associated degradation, membrane targeting, and responses to heat. Together these terms point to a module dedicated to maintaining protein integrity under stress and ensuring proper protein maturation and trafficking. A few terms like DNA replication and hedgehog pathway regulation are less connected and may reflect broader multifunctionality or annotation noise, but the dominant theme supports a quality-control/heat-stress function.","confidence":"Medium","size":8,"edges":12,"triangles":6,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045454","count":6},{"id":"GO:0090084","count":4},{"id":"GO:0070389","count":4},{"id":"GO:1900035","count":4},{"id":"GO:0031204","count":4}]},{"hash":"587688677474028415","title":"Neural development and signaling","description":"The cluster's GO terms are dominated by development-related processes (face development, neural tube patterning) and neural signaling (dopaminergic transmission, behavioral response to cocaine) with supporting growth signaling (ERBB). Some terms (IL-12 production, fibroblast migration) extend to broader signaling contexts, but the shared theme centers on signaling pathways guiding neural development and function.","confidence":"Medium","size":8,"edges":10,"triangles":3,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060324","count":4},{"id":"GO:1904637","count":4},{"id":"GO:0007094","count":4},{"id":"GO:0033160","count":4},{"id":"GO:0048148","count":4}]},{"hash":"814758060862906976","title":"Unknown","description":"The GO terms span diverse processes\u2014from signaling pathway regulation (NF-kappaB, BMP/TGF-beta) to plant development (meristem identity) and even photosystem adjustments\u2014across different organisms. There is no single cohesive function that unites these proteins, so a concise, representative label cannot be determined with confidence.","confidence":"","size":8,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042347","count":1},{"id":"GO:0030514","count":1},{"id":"GO:0080005","count":1},{"id":"GO:0061191","count":1},{"id":"GO:0042006","count":1}]},{"hash":"671284718492022313","title":"Unknown","description":"The GO terms are highly diverse with only a couple related to skeletal muscle development/differentiation, while many others point to unrelated processes (plant metabolism, cell cycle components, ubiquitin-mediated degradation, tRNA modification, immune signaling, and renal transport). This lack of a cohesive functional theme suggests no single representative function for the cluster. Confidence: None","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":1},{"id":"GO:0045214","count":1},{"id":"GO:0019762","count":1},{"id":"GO:0035853","count":1},{"id":"GO:0042787","count":1}]},{"hash":"404029779663295026","title":"Lipid metabolism and signaling","description":"The prominent GO terms center on lipid biosynthesis and remodeling (triglyceride, phosphatidylcholine, and cardiolipin remodeling; platelet activating factor biosynthesis) plus a mitochondria-linked energy process, suggesting a cohesive theme around lipid metabolism and lipid-derived signaling, even though a few terms touch on immune or neural development as potential secondary associations.","confidence":"High","size":8,"edges":7,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0019432","count":2},{"id":"GO:0010143","count":2},{"id":"GO:0042775","count":2},{"id":"GO:0070970","count":2},{"id":"GO:0002071","count":2}]},{"hash":"1728425977774404053","title":"Iron and manganese ion transport and homeostasis","description":"This cluster is dominated by terms for transport and homeostasis of iron and manganese ions (transmembrane transport, intracellular homeostasis, cellular responses to iron and manganese), as well as vacuolar acidification that supports metal sequestration. A few terms (cell wall mannoprotein biosynthesis, ethylene response) are less coherent with this theme.","confidence":"Medium","size":8,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":1},{"id":"GO:0007035","count":1},{"id":"GO:0000032","count":1},{"id":"GO:0016049","count":1},{"id":"GO:0006880","count":1}]},{"hash":"1651611189744903923","title":"Stress-Responsive Metabolism","description":"This cluster centers on metabolic pathways (glyoxylate cycle, malate/oxaloacetate, pyruvate fermentation) and redox-linked processes, coupled with diverse stress responses ( xenobiotic, hypoxia, nutrient signals, estrogen) and apoptotic regulation, suggesting adaptation of energy metabolism under stress. ","confidence":"Medium","size":8,"edges":17,"triangles":17,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0001666","count":3},{"id":"GO:0043627","count":2},{"id":"GO:0043065","count":2}]},{"hash":"1975388849907839287","title":"Vesicle trafficking and neural development","description":"Reasoning: The top GO terms include neural development processes (midbrain dopaminergic neuron differentiation, embryonic olfactory bulb interneuron precursor migration, GABAergic synaptic transmission) alongside intracellular transport and protein turnover (phagosome maturation, Golgi-to-ER retrograde transport, regulation of protein catabolic process) and aspects of cellular organization (epithelial polarity, hair follicle placode formation, kidney development). This suggests a cluster where vesicle trafficking and protein regulation intersect with neural and tissue development, justifying a label that captures both themes.","confidence":"Medium","size":7,"edges":16,"triangles":16,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090382","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0042176","count":3},{"id":"GO:0043304","count":3},{"id":"GO:0090162","count":3}]},{"hash":"1617865089450446518","title":"Centrosome-Related Cell Cycle Machinery","description":"The top GO terms are dominated by centrosome and centriole-related processes (centrosome duplication, centriole replication, centriole-centriole cohesion) and the cell cycle, with supporting translation-related terms, suggesting a cluster of proteins involved in centrosome-associated cell cycle regulation and coordinated protein synthesis. Confidence: Medium","confidence":"","size":7,"edges":13,"triangles":9,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0006413","count":2},{"id":"GO:0010457","count":1},{"id":"GO:0007099","count":1}]},{"hash":"1926897721038629715","title":"Cytoskeleton remodeling and protein turnover","description":"The cluster is enriched for actin nucleation (Arp2/3) and microtubule severing, indicating cytoskeleton dynamics, and includes ubiquitin-dependent proteasomal degradation and ER-to-Golgi vesicle transport, linking remodeling with trafficking and proteostasis. Despite some obsolete terms, the core signals center on cytoskeletal regulation and protein turnover.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0034314","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0007568","count":2}]},{"hash":"805744520261155834","title":"Proton-driven ATP synthesis and ion transport","description":"The top GO terms point to membrane-based energy production and ion movement (proton motive force-driven ATP synthesis, proton transmembrane transport, and sodium ion transport), suggesting a core theme of membrane energetics and transport; other terms appear less connected, possibly reflecting multifunctional proteins or annotation noise. ","confidence":"Medium","size":7,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0042777","count":1},{"id":"GO:0006814","count":1},{"id":"GO:1901207","count":1}]},{"hash":"1586055203720477254","title":"Chromatin remodeling and nucleosome dynamics","description":"The top GO terms cluster around nucleosome assembly/disassembly, histone acetylation, and other chromatin-related processes, indicating a chromatin remodeling/dynamics role. Occasional mentions of microtubule polymerization and cell growth reflect mitotic chromatin changes rather than a distinct non-chromatin function.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:2000035","count":1},{"id":"GO:0035041","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0007117","count":1},{"id":"GO:0031116","count":1}]},{"hash":"1301959318411740342","title":"Mitochondrial nucleotide metabolism and ubiquitin turnover","description":"This cluster centers on nucleotide metabolism (dCDP/CDP, CDP metabolic process, nucleobase interconversion) and mitochondrial DNA replication, with accompanying hints of proteostasis through ubiquitin-related pathways (K48-linked ubiquitination, ERAD). The presence of p53-related apoptotic regulation and growth suppression suggests a broader stress/quality-control role linked to mitochondria. While the terms are somewhat heterogeneous, the core theme of mitochondrial nucleotide metabolism plus proteostasis is coherent, giving a plausible, moderate-strength label.","confidence":"Medium","size":7,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006240","count":2},{"id":"GO:0003014","count":2},{"id":"GO:0006264","count":2},{"id":"GO:1902254","count":2},{"id":"GO:0055114","count":2}]},{"hash":"406846423341738612","title":"Chromatin Silencing and Cell Cycle","description":"The top GO terms show strong enrichment for heterochromatin formation and telomere silencing, along with DNA replication and APC/C-dependent cell-cycle processes. While a few outlier terms appear (translation, peroxisomal import, viral process), the dominant functions point to chromatin regulation intertwined with DNA replication and cell division, supporting this label.","confidence":"Medium","size":7,"edges":10,"triangles":5,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0030466","count":2},{"id":"GO:0031939","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0006412","count":2}]},{"hash":"1463611383507994004","title":"Germline RNA processing and genome maintenance","description":"The cluster shows a mix of RNA/protein synthesis-related terms (ribosome biogenesis, regulation of translational initiation, proteasome assembly, mRNA binding) together with DNA repair and genome surveillance (transcription-coupled nucleotide-excision repair, DNA damage recognition, NER) and germline development signals (meiosis I, germarium-derived cystoblast division). This points to a cohesive theme of gene expression control and genome maintenance in germline cells undergoing division and differentiation.","confidence":"Medium","size":7,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0035914","count":2},{"id":"GO:0006283","count":2},{"id":"GO:0000973","count":2}]},{"hash":"1225894357436658144","title":"Unknown","description":"The top GO terms cover disparate biological processes (rRNA maturation, ubiquitin/ERAD, spliceosome assembly, erythrocyte differentiation, mitochondrial fusion, spindle pole body duplication, gene expression regulation, and behavior). This lack of a unifying function suggests there isn't a clear common role for the cluster, so Unknown.","confidence":"","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002109","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0000245","count":1},{"id":"GO:0045648","count":1},{"id":"GO:0035520","count":1}]},{"hash":"1090291913331120156","title":"Ribosome Biogenesis and rRNA Processing","description":"The top GO terms cluster around ribosome assembly and rRNA maturation, including large subunit export from the nucleus, maturation of 5.8S and LSU rRNA, large subunit assembly, and small subunit biogenesis. These terms collectively indicate involvement in ribosome biogenesis and rRNA processing, with a few unrelated terms likely representing minor or secondary associations.  ","confidence":"High","size":7,"edges":17,"triangles":21,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":2},{"id":"GO:0000466","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0000463","count":1},{"id":"GO:1902626","count":1}]},{"hash":"1332306966859642782","title":"Unknown","description":"The GO terms are scattered across distinct processes (chloroplast and mitochondrial protein import/insertion) plus unrelated metabolic and regulatory pathways (nitrate assimilation, fatty acid/sterol metabolism, myelin maintenance), yielding no clear, cohesive function for the cluster. With only one edge and diverse terms, there isn\u2019t a single interpretable label.","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045037","count":1},{"id":"GO:0032094","count":1},{"id":"GO:0045039","count":1},{"id":"GO:0030150","count":1},{"id":"GO:0000002","count":1}]},{"hash":"428983206360197501","title":"Cell-cycle and proliferation regulation","description":"Despite several obsolete terms, the dominant non-obsolete GO terms point to regulation of the cell cycle and proliferation (positive regulation of the cell cycle, negative regulation of G0 to G1 transition, positive regulation of fibroblast proliferation) and a link to signaling through protein modifications like farnesylation. This suggests proteins in this cluster participate in proliferative signaling and cell-cycle control rather than a single unified biosynthetic pathway. The presence of a mix of relevant and unrelated terms makes the connection moderate but coherent around proliferation control.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051770","count":1},{"id":"GO:0018343","count":1},{"id":"GO:0034097","count":1},{"id":"GO:0048146","count":1},{"id":"GO:0051771","count":1}]},{"hash":"1491554637957064584","title":"Plant secondary metabolism and hormone biosynthesis","description":"The top GO terms point strongly to biosynthesis of diverse plant secondary metabolites (strigolactone, stilbene, alkaloids, antibiotics) and related developmental processes (secondary shoot formation), suggesting the cluster groups proteins involved in plant specialized metabolism and hormone signaling. While some terms (e.g., phosphatidylserine catabolic process, obsolete methionine biosynthesis) look tangential, the dominant signal is secondary metabolite production and related growth regulation. Overall, this label captures the central theme without overgeneralizing to unrelated pathways.","confidence":"Medium","size":7,"edges":10,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":5},{"id":"GO:0019380","count":3},{"id":"GO:0042619","count":3},{"id":"GO:0006660","count":3},{"id":"GO:1901601","count":3}]},{"hash":"1322901942820776578","title":"Vesicle trafficking and epithelial polarity","description":"The top GO terms cluster around membrane trafficking: protein transport, retrograde vesicle transport between the Golgi and ER, and phagosome maturation, with an additional term about establishing epithelial cell polarity. This points to a common theme of vesicle sorting and membrane organization that underpins protein trafficking and cell polarity. Some other terms relate to development or signaling, but the vesicle transport cluster appears to be the core function. ","confidence":"Medium","size":7,"edges":18,"triangles":21,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":2},{"id":"GO:0090382","count":1},{"id":"GO:0006890","count":1},{"id":"GO:0042176","count":1},{"id":"GO:0043304","count":1}]},{"hash":"1505685706519821061","title":"Intracellular vesicle trafficking and ubiquitination","description":"These proteins are enriched for GO terms related to intracellular vesicle transport at multiple stages (ER-to-Golgi, Golgi-to-plasma membrane, and retrograde Golgi-to-ER), which points to a core function in vesicle trafficking. The inclusion of protein ubiquitination and regulation of protein catabolic processes suggests coordination between cargo transport and protein modification/degradation. While terms like phagosome maturation, mast cell degranulation, and epithelial polarity hint broader vesicle-kinetics roles, the dominant pattern is intracellular vesicle trafficking and related protein regulation.","confidence":"High","size":7,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0090316","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0043001","count":2},{"id":"GO:0090382","count":1}]},{"hash":"1793589464971576902","title":"Plant mitochondrial and chloroplast biogenesis","description":"Key terms include inner mitochondrial membrane organization, mitochondrion inheritance, and regulation of mitochondrial DNA replication, plus chloroplast stroma protein import; together with plastid fatty acid synthesis, suggesting a focus on organelle biogenesis and maintenance in plants.","confidence":"Medium","size":7,"edges":11,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042761","count":2},{"id":"GO:0045037","count":1},{"id":"GO:0030433","count":1},{"id":"GO:1901585","count":1},{"id":"GO:0007007","count":1}]},{"hash":"1491998584437650802","title":"Unknown","description":"The GO terms indicate a diverse set of roles, from GPI anchor attachment to vacuolar and cell surface trafficking, plant development processes (stomatal patterning, vacuole organization) and animal signaling (ERBB regulation, renal system), plus mitochondrial tRNA aminoacylation and pH response. The lack of a unifying function or pathway for this cluster suggests no coherent theme linking these proteins.","confidence":"","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016255","count":1},{"id":"GO:0003014","count":1},{"id":"GO:1901185","count":1},{"id":"GO:0006624","count":1},{"id":"GO:0034394","count":1}]},{"hash":"1842843224665089385","title":"DNA damage response and ubiquitin signaling","description":"The terms point to ubiquitin-mediated regulation of genome maintenance: K63-linked ubiquitination, positive regulation of DNA repair, telomere maintenance via recombination, and cell division, suggesting a focus on DNA damage response and chromatin/ubiquitin signaling. Some unrelated terms may reflect annotation noise, but the core theme remains ubiquitin-dependent genome maintenance.","confidence":"Medium","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071455","count":6},{"id":"GO:0035458","count":6},{"id":"GO:0070534","count":6},{"id":"GO:0051569","count":6},{"id":"GO:0000722","count":6}]},{"hash":"2043929452126979945","title":"Protein maturation and trafficking","description":"This cluster contains GO terms tied to post-translational modification and targeting of proteins: GPI anchor attachment to proteins, CAAX-box protein processing, vesicle-mediated transport, and protein secretion. Together these imply involvement in maturation and trafficking through the secretory pathway. Some terms related to mitochondria or glycosylation are present but seem less representative of the core theme. Overall, the dominant pattern points to secretory pathway\u2013associated protein processing.","confidence":"Medium","size":6,"edges":7,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1904960","count":1},{"id":"GO:0008535","count":1},{"id":"GO:0033132","count":1},{"id":"GO:0018279","count":1},{"id":"GO:0071586","count":1}]},{"hash":"1223221680790431394","title":"Unknown","description":"The GO terms are scattered across basic gene expression processes (translation and Pol III transcription), phosphorylation and kinase regulation, and diverse development-related pathways (Wnt signaling, endothelial morphogenesis, liver regeneration, testosterone response). There isn\u2019t a single clear theme tying these functions together, so a concise, representative label isn\u2019t apparent.","confidence":"","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":1},{"id":"GO:0002184","count":1},{"id":"GO:0018107","count":1},{"id":"GO:0006359","count":1},{"id":"GO:0033574","count":1}]},{"hash":"314734347764996351","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0042147","count":2},{"id":"GO:0000717","count":1}]},{"hash":"1765246929631705072","title":"Mitochondrial Translation and Respiration","description":"The cluster is anchored by mitochondrial-specific processes: mitochondrial glycyl-tRNA and threonyl-tRNA aminoacylation, mitochondrial DNA metabolic process, and the respiratory electron transport chain, pointing to a set of proteins involved in mitochondrial protein synthesis and energy production. Some GO terms (embryonic development, intralumenal vesicle formation, histidine biosynthesis) are peripheral or less coherent with mitochondria, but the strongest shared theme centers on mitochondrial gene expression and respiration. ","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0015966","count":2},{"id":"GO:0070676","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0070150","count":1},{"id":"GO:0000105","count":1}]},{"hash":"894766712823386898","title":"Biotin/Lipoylation Signals","description":"The cluster prominently features lipoylation and lipoate biosynthesis terms, with associated biotin-related terms (biotin response and biotinylation), suggesting a biotin/lipoylation metabolic theme. However, several terms pertain to transcription regulation and vesicle trafficking, indicating the set is somewhat heterogeneous and the primary function is not strongly cohesive.","confidence":"Low","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009107","count":1},{"id":"GO:0018055","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0071110","count":1}]},{"hash":"1053290268942985089","title":"Nuclear transcription and genome maintenance.","description":"The top GO terms cluster around transcription by RNA polymerases I and II, transcription-coupled nucleotide-excision repair, and genome-related processes like telomere maintenance, plus nuclear architecture elements (pore complex assembly and Cajal body localization). While a few entries touch on immune signaling, the dominant theme is nuclear transcription regulation and genome integrity, justifying a label focused on nuclear transcription and genome maintenance.","confidence":"Medium","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006363","count":2},{"id":"GO:0006366","count":2},{"id":"GO:0006283","count":2},{"id":"GO:0046931","count":1},{"id":"GO:0048291","count":1}]},{"hash":"725876129033132879","title":"Translation and Translational Regulation","description":"The dominant GO terms map to core translation processes\u2014initiation, elongation, termination, and even frameshifting\u2014often with regulation of elongation and termination, indicating a cluster centered on the protein synthesis machinery and its control. A few non-translation terms (inflammatory signaling, Wnt signaling, amino acid metabolism) are present but secondary.","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006414","count":1},{"id":"GO:0045901","count":1},{"id":"GO:0006452","count":1},{"id":"GO:0006413","count":1}]},{"hash":"110536976604927505","title":"Mitochondrial inner membrane protein insertion","description":"The GO terms point to mitochondrial targeting and inner membrane protein insertion, suggesting these proteins may be part of the mitochondrial import/insertion machinery; the terms are obsolete, but the shared theme still centers on mitochondria.","confidence":"Medium","size":6,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0072321","count":1},{"id":"GO:0045039","count":1},{"id":"GO:0006626","count":1}]},{"hash":"1141712906328698972","title":"Plant secondary metabolite biosynthesis and shoot formation","description":"This cluster shows enrichment for several plant-specific secondary metabolite biosynthesis processes (strigolactone, stilbene, alkaloid, antibiotic biosynthesis) and a developmental process (secondary shoot formation), with translation appearing as a generic term. The dominant theme is plant specialized metabolism combined with shoot development, suggesting a cohesive, though diverse, functional group. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0019380","count":1},{"id":"GO:0042619","count":1},{"id":"GO:1901601","count":1},{"id":"GO:0010223","count":1}]},{"hash":"347930033653658655","title":"Unknown","description":"The GO terms are highly scattered: antibiotic response, chromatin/epigenetic regulation (including histone modification terms, many marked obsolete), transcription-related responses under stress, regulation of post-translational modifications (ADP-ribosylation, ubiquitination), and even a tissue-specific process (uterus morphogenesis). With zero edges and inconsistent annotations, there isn\u2019t a coherent, shared function linking these proteins, so a generic Unknown label is appropriate.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0006990","count":2},{"id":"GO:0031452","count":2},{"id":"GO:0061038","count":2},{"id":"GO:0061412","count":2}]},{"hash":"793573100585006667","title":"Unknown","description":"The GO terms are highly heterogeneous (root meristem regulation, mitochondrial translation, musculoskeletal and neuromuscular processes, buoyancy regulation, lipid metabolism) with only single-term representations, giving no coherent, shared functional theme for the cluster. Therefore there isn\u2019t a meaningful specific label beyond Unknown.","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0010082","count":1},{"id":"GO:0070131","count":1},{"id":"GO:0050881","count":1},{"id":"GO:0070584","count":1},{"id":"GO:0031413","count":1}]},{"hash":"1880713915271070604","title":"Ceramide and sphingolipid biosynthesis","description":"This cluster\u2019s terms are dominated by ceramide- and sphingolipid-related biosynthetic processes (ceramide biosynthetic process, sphingomyelin biosynthetic process, ceramide phosphoethanolamine biosynthetic process, and regulation of ceramide biosynthesis), with ethanolamine involvement reflecting headgroup formation. A pheromone/GPCR term is present but minor, so the main theme is sphingolipid metabolism.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019236","count":1},{"id":"GO:0007186","count":1},{"id":"GO:1905373","count":1},{"id":"GO:0060305","count":1},{"id":"GO:2000303","count":1}]},{"hash":"1606126232115230712","title":"Unknown","description":"No GO terms or functional hints are provided for this cluster (Top Terms are empty), and with only 5 proteins and sparse interactions there is no clear shared function to assign a label. ","confidence":"","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[]},{"hash":"1294260087943278360","title":"ER-Golgi trafficking and cell division","description":"The top terms cluster around vesicle transport between the ER and Golgi (both directions) and processes tied to cell division (mitotic spindle assembly, cell division, and proliferation), with a related emphasis on GTPase activity regulation. While some terms like ribosome biogenesis and brain development are present, the dominant signal points to proteins involved in ER-Golgi trafficking that intersect with cell cycle progression, justifying a label centered on trafficking and mitosis.","confidence":"Medium","size":5,"edges":7,"triangles":2,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006890","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0051301","count":2}]},{"hash":"1392282784275524776","title":"Proteostasis and Stress Response","description":"This cluster centers on protein quality control and cellular stress handling, with GO terms for redox homeostasis, heat response, and ubiquitin-dependent ERAD linking to proteostasis. Additional terms about nuclear export and signaling may reflect broader regulation or noise, but the core theme fits proteostasis under stress.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0030433","count":1},{"id":"GO:1901621","count":1},{"id":"GO:0009408","count":1},{"id":"GO:0046825","count":1}]},{"hash":"1367497235872405164","title":"Unknown","description":"The GO terms are highly diverse, including acetylation (N-terminal and polyamine), multiple biosynthetic pathways (mycothiol, ectoine, glucosamine, arginine), and even plant-specific regulation, with several terms obsolete. With only five proteins and no coherent shared function across these terms, there isn\u2019t a clear, representative label to assign.","confidence":"","size":5,"edges":7,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0018002","count":1},{"id":"GO:0006041","count":1},{"id":"GO:2000025","count":1},{"id":"GO:0017198","count":1},{"id":"GO:0060358","count":1}]},{"hash":"157880537445331087","title":"DNA replication and chromatin assembly","description":"The top GO terms cluster around nuclear DNA processes\u2014leading strand elongation, mitotic DNA replication checkpoint signaling, DNA repair, and CENP-A containing chromatin assembly\u2014suggesting a core theme of DNA replication and chromatin maintenance. Additional terms related to ribosomal large subunit assembly and transcription preinitiation complex assembly support cellular growth and chromatin context, while a few items on nitrogen regulation and mitochondrial inner membrane insertion appear peripheral. Overall, the cluster most plausibly reflects DNA replication, repair, and chromatin organization.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006808","count":2},{"id":"GO:0033314","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0034214","count":1}]},{"hash":"1306475732133368258","title":"Neuronal Development and Synaptic Signaling","description":"The top GO terms cluster around neuronal communication and development: calcium-dependent exocytosis and glutamatergic synaptic transmission point to synaptic activity, while retinal ganglion axon guidance and neural tube patterning indicate neural development. Face development and cell polarity notions can align with neural crest\u2013driven craniofacial development and polarity establishment. A couple terms are outliers (biofilm formation, obsolete regulatory terms), but the core theme is neural development and synaptic function.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045956","count":3},{"id":"GO:0035249","count":3},{"id":"GO:0060324","count":2},{"id":"GO:1901621","count":2},{"id":"GO:2000251","count":2}]},{"hash":"355070929695446435","title":"Chaperone-driven proteostasis and microtubule assembly","description":"The top GO terms converge on protein folding and chaperone-mediated protein complex assembly, plus cytoskeletal aspects like tubulin complex assembly and cortical microtubule organization, suggesting a cluster centered on proteostasis with a microtubule assembly component. A single term about transcription elongation is less aligned with the main theme, but the predominant signals support a proteostasis\u2013cytoskeleton functional group.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006457","count":1},{"id":"GO:0071629","count":1},{"id":"GO:0007021","count":1},{"id":"GO:0032968","count":1},{"id":"GO:0043622","count":1}]},{"hash":"1197242939688720808","title":"Splicing and Translation Regulation","description":"This cluster is dominated by GO terms related to RNA processing, especially regulation of alternative mRNA splicing via the spliceosome and splice site recognition, alongside terms about regulation and assembly of translation initiation (including eIF4F complex). While signaling terms (TNF/NF-kB, LPS response) appear, the strongest, more frequent signals point to coordinated control of mRNA processing and translation initiation, suggesting a group of proteins involved in post-transcriptional and translational regulation under stress or immune-related contexts.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":2},{"id":"GO:0006376","count":2},{"id":"GO:0042347","count":1},{"id":"GO:0042771","count":1},{"id":"GO:0034051","count":1}]},{"hash":"1293597749511821433","title":"Mitochondrial central metabolism","description":"This cluster is dominated by GO terms for core mitochondrial energy pathways: the TCA cycle, acetyl-CoA biosynthesis, and related succinyl-CoA metabolism, along with fatty acid oxidation and general carbohydrate metabolism. These together point to central carbon metabolism and energy production in mitochondria, with a few linker terms to amino acid processing that are consistent with connected metabolic networks. A couple of outliers (response to symbiotic fungus, cell cycle regulation) are less representative but do not overturn the main metabolic theme.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":2},{"id":"GO:0006085","count":2},{"id":"GO:0006104","count":2},{"id":"GO:0005975","count":1},{"id":"GO:0001561","count":1}]},{"hash":"925889605653929073","title":"Galactose-Linked Carbohydrate Metabolism","description":"This cluster centers on galactose-related carbohydrate metabolism, including galactose-driven glycolysis, galacturonate and galactitol pathways, and galactose-regulated transcription. While there are a few terms pointing to isoprenoid biosynthesis, the strongest and most consistent signal is galactose- and carbohydrate-related metabolism, justifying this label.","confidence":"High","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000435","count":1},{"id":"GO:0009086","count":1},{"id":"GO:0046835","count":1},{"id":"GO:0061623","count":1},{"id":"GO:0010142","count":1}]},{"hash":"1975484469150230675","title":"Mitochondrial and plastid gene expression","description":"The cluster contains GO terms tied to transcription and RNA processing in mitochondria (e.g., mitochondrial transcription, regulation, termination) and plastids (e.g., plastid rRNA transcription, chloroplast organization), as well as ribosome assembly in mitochondria. This points to a shared function in organelle gene expression and ribosome biogenesis across mitochondria and plastids.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1903108","count":1},{"id":"GO:0008380","count":1},{"id":"GO:0009658","count":1},{"id":"GO:0042794","count":1},{"id":"GO:0061668","count":1}]},{"hash":"875445006900335511","title":"Unknown","description":"The terms are mixed across apoptosis, metal/selenium tellurium responses, various biosynthetic processes (polyamine, ubiquinone, antibiotic), and multiple methylation activities (peptidyl-glutamine, peptidyl-arginine, rRNA). There is no clear, singular theme uniting these functions for a confident, specific label.","confidence":"","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":1},{"id":"GO:0046690","count":1},{"id":"GO:0006596","count":1},{"id":"GO:0009877","count":1},{"id":"GO:0001887","count":1}]},{"hash":"1132637016998138707","title":"Unknown","description":"Only a single GO term is present (GO:0009405 - obsolete pathogenesis) with one occurrence, and there are no edges or co-annotations to suggest a shared function among the four proteins. Because there is no coherent theme, the cluster is labeled Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009405","count":1}]},{"hash":"525683260969633955","title":"mRNA processing and translation initiation","description":"The cluster centers on post-transcriptional gene expression: regulation of translational initiation, eIF4F complex assembly, mRNA export, and splicing/polyadenylation processes. This pattern suggests a cohesive module for mRNA maturation and ribosome recruitment, i.e., post-transcriptional regulation of gene expression.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":2},{"id":"GO:1902625","count":2},{"id":"GO:0097010","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0034462","count":2}]},{"hash":"899235705380340968","title":"ER-Golgi-Vacuole vesicle trafficking","description":"Most terms describe intracellular vesicle trafficking centered on the ER\u2013Golgi\u2013vacuole axis (ER-to-Golgi transport, intra-Golgi vesicle transport, Golgi ribbon formation, Golgi-to-vacuole transport, and protein targeting to vacuole). Some terms extend to endosome-to-Golgi retrograde transport and macroautophagy, reinforcing a vesicle-trafficking theme; one outlier term (musculoskeletal movement) is likely noise.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006896","count":1},{"id":"GO:0090161","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0042144","count":1},{"id":"GO:0050882","count":1}]},{"hash":"1895403098376553141","title":"Mitotic spindle and kinetochore assembly","description":"The top GO terms cluster around mitosis\u2014spindle organization, kinetochore assembly, chromosome alignment, and spindle checkpoint activation\u2014pointing to proteins involved in kinetochore-microtubule interactions and spindle assembly during cell division.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007052","count":1},{"id":"GO:1903394","count":1},{"id":"GO:0051310","count":1},{"id":"GO:0090268","count":1},{"id":"GO:1905561","count":1}]},{"hash":"1609832830953476756","title":"Protein quality control under cellular stress","description":"This cluster centers on protein quality control and stress response. GO terms include ER unfolded protein response, cellular response to misfolded protein, protein unfolding, autophagosome maturation, and inclusion body assembly, reflecting cellular proteostasis mechanisms under stress. Additional terms for oxidative stress and stress granule disassembly reinforce a broader stress-response network that coordinates degradation and survival. An outlier term related to leading strand elongation is less connected to proteostasis. Overall, the cluster represents proteostasis and stress response pathways, especially ER stress and autophagy.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006272","count":4},{"id":"GO:0035617","count":4},{"id":"GO:1990171","count":4},{"id":"GO:0043335","count":4},{"id":"GO:0030968","count":4}]},{"hash":"1553957731650869615","title":"Unknown","description":"This cluster has a highly diverse set of GO terms (protein folding, interferon signaling, xenobiotic response, mismatch repair, development-related terms, and more) with little overlap, suggesting no single coherent function ties the proteins together. Some terms are obsolete or tissue-specific, further weakening a clear functional theme.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006457","count":1},{"id":"GO:0060338","count":1},{"id":"GO:0033160","count":1},{"id":"GO:0001890","count":1},{"id":"GO:0032092","count":1}]},{"hash":"434707261526123376","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000480","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0000472","count":3},{"id":"GO:0006268","count":2},{"id":"GO:0006351","count":2}]},{"hash":"101732759079251526","title":"Glycolysis and TCA Cycle Core","description":"The proteins map to central carbon metabolism, with strong signals for glycolytic process, glucose metabolic process, pentose-phosphate shunt, regulation of pyruvate decarboxylation to acetyl-CoA, and the TCA cycle, suggesting a cluster of enzymes coordinating energy production and carbon flux. Some unrelated GO terms (e.g., certain developmental processes) may reflect annotation noise, but the core pattern points to core metabolic pathways.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006096","count":2},{"id":"GO:0072747","count":1},{"id":"GO:0006006","count":1},{"id":"GO:0010510","count":1},{"id":"GO:0021794","count":1}]},{"hash":"1975858188038815808","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0060546","count":2},{"id":"GO:0007250","count":2},{"id":"GO:0070534","count":2},{"id":"GO:0051092","count":2}]},{"hash":"1051496590786850603","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006283","count":1},{"id":"GO:0000467","count":1},{"id":"GO:0072715","count":1},{"id":"GO:0090394","count":1},{"id":"GO:0070870","count":1}]},{"hash":"2031723034541835266","title":"Translation Machinery","description":"The cluster is dominated by GO terms related to translation, including translation itself and cytoplasmic translation, with a note on regulation of translational fidelity. A couple of outliers (mitochondrial rRNA import and globoside biosynthesis) appear but do not override the primary signal of protein synthesis activity.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006450","count":1},{"id":"GO:0035928","count":1},{"id":"GO:0001576","count":1},{"id":"GO:0002181","count":1}]},{"hash":"2187441117499423654","title":"Fatty acid metabolism and biosynthesis","description":"The cluster shows multiple GO terms tied to fatty acid transport and fatty acid biosynthetic/metabolic processes, indicating proteins that participate in lipid metabolism. While terms like seed germination and phenylpropanoid metabolism appear, the dominant signal is lipid-related pathways.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001579","count":1},{"id":"GO:0019427","count":1},{"id":"GO:0090410","count":1},{"id":"GO:0008218","count":1},{"id":"GO:0001676","count":1}]},{"hash":"182621326076658618","title":"Unknown","description":"The terms cover a diverse mix of morphogenesis in several tissues, Golgi and protein handling processes, metabolism, and DNA damage\u2013related pathways, with no single shared function or pathway linking all proteins. In addition, there is no interaction structure (edges/triangles) to define a cohesive group, so a specific functional label cannot be inferred.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007472","count":1},{"id":"GO:0007030","count":1},{"id":"GO:0050774","count":1},{"id":"GO:0016333","count":1},{"id":"GO:0006457","count":1}]},{"hash":"577794711333225344","title":"Ribosome biogenesis and translation","description":"The top GO terms cluster around translation processes and ribosome assembly\u2014selenocysteine incorporation, tRNA modification, translational termination, and cytoplasmic translation regulation\u2014together with ribosomal subunit biogenesis and export\u2014pointing to proteins involved in ribosome function and assembly, with some secondary links to stress or antibiotic responses.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001514","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0006400","count":1},{"id":"GO:2000767","count":1},{"id":"GO:0006415","count":1}]},{"hash":"1168160878506456361","title":"Immune signaling and ER protein processing","description":"The terms cluster around immune system activity (innate signaling, T cell cytokine production, T cell apoptosis) and ER-associated protein handling (retention in ER lumen, protein transport, GPI anchor biosynthesis). This suggests a group of proteins involved in immune signaling that also relies on ER-based processing and trafficking. The link is plausible but the small size and mix of terms lead to moderate confidence.","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010204","count":1},{"id":"GO:0070231","count":1},{"id":"GO:0006621","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0002369","count":1}]},{"hash":"1001514001296872258","title":"Neural development and GABA signaling","description":"The GO terms clustered around neural development, including forebrain astrocyte development, negative regulation of astrocyte differentiation and neuroblast proliferation, and gamma-aminobutyric acid secretion associated with neurotransmission. These points suggest a shared role in nervous system development and GABAergic signaling, even though several terms (eye morphogenesis, placenta/adrenal development) appear unrelated and may reflect broader developmental annotations. Overall, the dominant theme is neural development and GABA-related communication.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009268","count":1},{"id":"GO:0048593","count":1},{"id":"GO:0061534","count":1},{"id":"GO:0048712","count":1},{"id":"GO:0001890","count":1}]},{"hash":"1139884419447681849","title":"Bacterial transporters and stress-response proteins","description":"The top GO terms cluster around membrane-associated transporters (carbohydrate, methionine, thiamine transport) and export processes (peptide pheromone export, bacteriocin immunity), with additional links to stress responses (SOS response, detoxification of cadmium) and membrane potential changes. This suggests a cohesive theme of bacterial transport functions complemented by stress-detection and defense mechanisms, justifying a label focused on transporters coupled to stress responses.","confidence":"Medium","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0098849","count":2},{"id":"GO:0000770","count":1},{"id":"GO:0008643","count":1},{"id":"GO:0030153","count":1},{"id":"GO:0015821","count":1}]},{"hash":"629196230690844468","title":"Sterol transport and cholesterol metabolism","description":"The top GO terms center on sterol/cholesterol transport and handling (cholesterol transport, intracellular sterol transport, ER-to-Golgi ceramide transport, sterol import, regulation of cholesterol metabolic process, and regulation of plasma membrane sterol distribution), with bile acid metabolism also related. This cohesive set points to a shared function in sterol movement and regulation rather than unrelated processes, making \"Sterol transport and cholesterol metabolism\" an intuitive label for the cluster.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090181","count":1},{"id":"GO:0035621","count":1},{"id":"GO:0032366","count":1},{"id":"GO:0035376","count":1},{"id":"GO:0097036","count":1}]},{"hash":"43599225015134008","title":"Meiosis and DNA recombination","description":"The GO terms are dominated by meiotic processes (joint molecule formation, recombinase assembly, sister chromatid cohesion, meiosis I) and DNA repair/telomere maintenance, with signals of DNA damage response (camptothecin/SOS). This points to a functional group of proteins coordinating meiosis with DNA repair and genome stability.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0072757","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0007066","count":2},{"id":"GO:0000722","count":2},{"id":"GO:0009432","count":2}]},{"hash":"85665921127995570","title":"ER quality control and secretory trafficking","description":"The cluster highlights ER-related processes: ubiquitin-dependent ERAD pathway, ER-to-Golgi vesicle transport, and regulation of ER stress\u2013induced apoptotic signaling, which together point to ER quality control and secretory pathway function. Some terms (ribosome biogenesis, spindle pole body duplication, erythrocyte differentiation) seem peripheral or broadly annotated, likely reflecting noise or secondary associations rather than core cluster function. Overall, the dominant theme is ER processing and trafficking with partial peripheral signals.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0070262","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0002109","count":1}]},{"hash":"1029048254888880837","title":"Unknown","description":"There are no GO terms available for this cluster, so no shared function can be inferred. With only 3 proteins and limited connectivity, a coherent theme cannot be determined.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"1515130060705746760","title":"Ubiquitin-Proteasome Mediated Protein Degradation","description":"The top terms cluster around ubiquitin-dependent processes: SCF complex assembly, K11- and K48-linked ubiquitination, ubiquitin-dependent protein catabolic process, and ubiquitin-dependent ERAD, all pointing to proteostasis through targeted protein degradation. Although other terms touch on DNA repair or growth regulation, the dominant theme is proteolysis mediated by ubiquitin pathways.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000717","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0046621","count":2},{"id":"GO:0000715","count":2},{"id":"GO:0070979","count":2}]},{"hash":"2292863198809778308","title":"RNA processing and translation initiation regulation","description":"Proteins in this cluster show GO terms centered on RNA metabolism and translation control, including regulation of translational initiation and eIF4F complex assembly, as well as spliceosome-associated mRNA splicing and export. The recurring themes suggest a small module coordinating RNA processing with initiation of translation.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":2},{"id":"GO:1902625","count":2},{"id":"GO:0097010","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0034462","count":2}]},{"hash":"1206745896347970331","title":"Amino acid and central carbon metabolism","description":"The GO terms are dominated by amino acid biosynthesis (glutamate/glutamine, phenylalanine) and central carbon metabolism (TCA cycle, acetyl-CoA related). A few obsolete terms and outliers (bioluminescence, fatty acid transport) suggest annotation noise, but the core signal points to metabolic processes centered on amino acid and core energy metabolism. ","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006537","count":1},{"id":"GO:0072350","count":1},{"id":"GO:0006541","count":1},{"id":"GO:0019552","count":1},{"id":"GO:0009094","count":1}]},{"hash":"1294331380009776964","title":"Mitochondrial tRNA Aminoacylation","description":"This cluster is dominated by mitochondrial tRNA aminoacylation terms across multiple amino acids (serine, glycine, threonine, histidine, selenocysteine), indicating components of the mitochondrial translation machinery. The inclusion of mitochondrial DNA metabolism and respiratory chain terms aligns with a broader mitochondrial function context. An outlier term related to embryonic development likely reflects annotation noise rather than a core function of the cluster.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070158","count":1},{"id":"GO:0070150","count":1},{"id":"GO:0097056","count":1},{"id":"GO:0022904","count":1},{"id":"GO:0001701","count":1}]},{"hash":"577745315463800540","title":"Central carbon metabolism","description":"The terms span gluconeogenesis, the TCA cycle, pyruvate to acetyl-CoA, and acetyl-CoA\u2013derived biosynthesis (malonyl-CoA, fatty acid synthesis), plus related amino acid catabolic inputs and nucleotide metabolism. Together they indicate core metabolic fluxes powering energy production and biosynthesis, rather than a single specialized function, so this label captures the cluster's theme.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006094","count":1},{"id":"GO:0006103","count":1},{"id":"GO:0033512","count":1},{"id":"GO:0006086","count":1},{"id":"GO:0042759","count":1}]},{"hash":"1101101822460637467","title":"N-terminal acetylation","description":"The top terms are dominated by N-terminal acetylation, including N-terminal peptidyl-glutamic acid acetylation and N-terminal protein amino acid acetylation, suggesting the cluster centers on N-terminal modification. The other GO terms appear sporadic or obsolete, indicating additional background processes rather than a single cohesive function.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0018002","count":1},{"id":"GO:0006041","count":1},{"id":"GO:2000025","count":1},{"id":"GO:0017198","count":1},{"id":"GO:0060358","count":1}]},{"hash":"1161813711246226829","title":"Base Excision Repair","description":"This cluster's top GO term is base-excision repair, suggesting DNA repair involvement. With only three proteins and no reported interactions, the evidence for a cohesive pathway is limited, but the label reflects the clearest shared function.","confidence":"Low","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006284","count":1}]},{"hash":"2185127243634160574","title":"Unknown","description":"The GO terms for this cluster are highly heterogeneous, covering immune signaling (mast cell cytokine production, Fc-epsilon receptor\u2013related activation), metabolism (glyceraldehyde-3-phosphate biosynthesis, glycerol catabolic process), and plant/ development themes (chloroplast organization, root development, semicircular canal morphogenesis). There is no clear, single biological process or pathway tying these terms together across the involved proteins, and many terms appear only incidentally. Thus a cohesive, representative function cannot be identified.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032765","count":1},{"id":"GO:0009444","count":1},{"id":"GO:0060005","count":1},{"id":"GO:0048752","count":1},{"id":"GO:0038097","count":1}]},{"hash":"2109857856288524302","title":"Sulfur amino acid and cofactor biosynthesis","description":"This cluster's top GO terms center on biosynthetic processes for sulfur-containing molecules: cysteine, methionine (obsolete), glutathione, hydrogen sulfide, and related cofactors like FAD, plus sulfate assimilation. The convergence on these sulfur-related pathways suggests a functional grouping around sulfur metabolism and synthesis of sulfur-containing metabolites. A few terms (cell division, SRP-dependent targeting, and nuclear import) are less directly tied to sulfur metabolism, likely reflecting background or shared cellular machinery rather than a core function of these proteins.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006747","count":1},{"id":"GO:0006750","count":1},{"id":"GO:0019379","count":1},{"id":"GO:0009086","count":1},{"id":"GO:0070814","count":1}]},{"hash":"711540695200966153","title":"Unknown","description":"No shared GO terms or network connections are observed among these proteins (no edges or terms), so no coherent function can be inferred. Therefore, label is Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1253906336214192157","title":"Mitochondrial DNA damage response and apoptosis regulation","description":"The terms cluster around mitochondrial function and DNA damage signaling: assembly of respiratory chain components, mitochondrial targeting, regulation of cytochrome c release, and p53-mediated intrinsic apoptotic signaling, indicating a mitochondrial stress response that links respiration with apoptosis control following DNA damage.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":1},{"id":"GO:0030330","count":1},{"id":"GO:0006626","count":1},{"id":"GO:2001140","count":1},{"id":"GO:0090201","count":1}]},{"hash":"2008848149300036536","title":"Triglyceride catabolism and lipid remodeling","description":"This cluster is dominated by GO terms related to triglyceride catabolic processes, triglyceride mobilization, and remodeling of phospholipids (phosphatidylcholine and phosphatidylethanolamine), suggesting a core theme of lipid catabolism and membrane lipid turnover. A few terms (e.g., CNS neuron development, GMP catabolic) are ancillary and do not outweigh the lipid-centric signal. ","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000480","count":1},{"id":"GO:0034638","count":1},{"id":"GO:0036153","count":1},{"id":"GO:0010898","count":1},{"id":"GO:0046338","count":1}]}]