[{"hash":"1815623069511205592","title":"Neural development and brain patterning","description":"This cluster is dominated by GO terms for neural development and neuronal fate specification (spinal cord motor neurons, oligodendrocyte lineage, GABAergic interneuron differentiation in the cortex, and midbrain-hindbrain boundary morphogenesis), plus subpallium specification, indicating a group of proteins involved in brain development and neuronal lineage decisions. A few terms about transcription by RNA polymerase II and some non-neural tissue development (pancreas, osteoblasts) may reflect broader regulatory roles or annotation noise, but the central theme is neural development.","confidence":"High","size":29,"edges":399,"triangles":3478,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":18},{"id":"GO:0045668","count":12},{"id":"GO:0031018","count":12},{"id":"GO:0060766","count":12},{"id":"GO:0021520","count":12}]},{"hash":"1421365587318660940","title":"Ubiquitin-Dependent Developmental Regulation","description":"The top GO terms point to ubiquitin-related processes (ERAD, K48-linked ubiquitination, autoubiquitination) and to developmental biology (CNS development, planar polarity, cranial skeleton morphogenesis, growth regulation), with ERK signaling as a possible link. This suggests a functional cluster where ubiquitin-mediated proteostasis and signaling govern developmental patterning and organ growth, with peroxisome protein import as a secondary facet. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0001736","count":2},{"id":"GO:0048701","count":2},{"id":"GO:0007417","count":2},{"id":"GO:0070374","count":2}]},{"hash":"77869558375221851","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":273,"triangles":1587,"max_degree":25,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0042766","count":4},{"id":"GO:0016973","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0000916","count":3},{"id":"GO:0000147","count":3}]},{"hash":"1846475288458433663","title":"Ribosome Biogenesis and Translation","description":"The cluster overwhelmingly centers on ribosome-related processes and translation: multiple entries for ribosome biogenesis, maturation of SSU-rRNA, ribosomal subunit assembly, tRNA processing, and translational initiation/termination, plus the overall translation GO:0006412. This suggests the proteins function in assembling ribosomes and carrying out protein synthesis. A few terms about response to antibiotic and virus may reflect stress responses but do not override the core ribosome/translation theme.","confidence":"High","size":29,"edges":370,"triangles":2949,"max_degree":28,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":17},{"id":"GO:0046677","count":6},{"id":"GO:0042254","count":5},{"id":"GO:0008033","count":4},{"id":"GO:0009615","count":3}]},{"hash":"2183834395120840989","title":"mRNA processing and translation regulation","description":"This cluster centers on post-transcriptional gene expression steps: regulatory ncRNA-mediated gene silencing, spliceosome-driven mRNA splicing, mRNA export, and regulation of translation initiation. The presence of preinitiation complex formation, translation reinitiation, and splice site recognition terms ties splicing to downstream translation control, suggesting a coherent functional module coordinating mRNA maturation and protein synthesis.","confidence":"High","size":29,"edges":136,"triangles":321,"max_degree":22,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":12},{"id":"GO:0048026","count":12},{"id":"GO:0006406","count":11},{"id":"GO:0001731","count":10},{"id":"GO:1900363","count":10}]},{"hash":"1221400547936184380","title":"Immune and Developmental Signaling Network","description":"Top GO terms point to diverse signaling roles, including innate immune response, integrin- and tyrosine kinase\u2013mediated signaling, and processes in bone development and coagulation, plus regulatory aspects of translation and mRNA export and neuronal plasticity. This suggests a cluster of proteins involved in broad cell signaling coordinating immune, developmental, and neuronal functions.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0007229","count":2},{"id":"GO:0007596","count":2}]},{"hash":"1289078473853826258","title":"Iron-sulfur cluster biogenesis and redox regulation","description":"The cluster is dominated by terms related to iron-sulfur cluster assembly/maturation and redox homeostasis, suggesting a core function in Fe-S biogenesis and oxidative balance. While there are developmental terms present (e.g., mesoderm formation, Hedgehog pathway regulation), the Fe-S and redox terms are the most prominent and representative of the cluster's central theme.","confidence":"High","size":29,"edges":108,"triangles":230,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0097428","count":3},{"id":"GO:0045454","count":3},{"id":"GO:2001246","count":3},{"id":"GO:0036151","count":3},{"id":"GO:0006260","count":2}]},{"hash":"2089717955583445545","title":"Cardiac signaling and circadian regulation","description":"The top GO terms cluster around cardiovascular function (heart contraction; cardiac muscle contraction) and related signaling (peptidyl-tyrosine autophosphorylation; S-nitrosylation), along with circadian regulation of sleep/wake cycles and hormone pathways (angiotensin metabolism; hormone catabolic process). This suggests a coherent theme of cardiovascular signaling intertwined with hormonal and circadian regulation, with a few peripheral terms contributing noise. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060047","count":4},{"id":"GO:1900086","count":4},{"id":"GO:0045938","count":3},{"id":"GO:0060452","count":3},{"id":"GO:0032800","count":3}]},{"hash":"181032642529740291","title":"Inflammatory signaling with transcriptional regulation and apoptosis","description":"The cluster centers on immune and stress signaling linked to transcriptional control and cell fate: defense response to Gram-positive bacteria, apoptotic processes, and regulation of transcription (including NF-kappaB). Additional terms point to broader signaling and tissue remodeling (peptidyl-threonine phosphorylation, angiogenesis, metallopeptidase activity) and even neuronal signaling, suggesting a cohesive theme of inflammatory signaling driving gene expression changes, with some peripheral related processes. ","confidence":"Medium","size":29,"edges":10,"triangles":4,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":9},{"id":"GO:0050830","count":8},{"id":"GO:0045766","count":8},{"id":"GO:0006351","count":8},{"id":"GO:0051092","count":8}]},{"hash":"870977992536343181","title":"Neural and sensory organ development","description":"The proteins in this cluster are strongly associated with developmental and morphogenetic processes in neural and sensory tissues, including retina development, embryonic eye morphogenesis, cochlea morphogenesis, habenula development, and spinal cord motor neuron fate specification, suggesting a common theme of nervous system and sensory organ development (with additional notes on broader developmental programs). ","confidence":"Medium","size":29,"edges":392,"triangles":3307,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":19},{"id":"GO:0060041","count":17},{"id":"GO:0048048","count":17},{"id":"GO:0002087","count":16},{"id":"GO:2000288","count":16}]},{"hash":"700998460403371684","title":"mRNA processing and translation initiation regulation","description":"Based on the dominant GO terms, this cluster centers on post-transcriptional RNA processing and control of protein synthesis. The terms cover mRNA polyadenylation, spliceosome-mediated splicing, splice site recognition, and formation/reinitiation of the translation preinitiation complex, including IRES-dependent viral translation initiation, indicating proteins involved in transcript maturation and regulation of translation. A single defense-related term is present but the strongest signal is clearly in RNA processing and translation control.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":8},{"id":"GO:0001731","count":7},{"id":"GO:0002188","count":7},{"id":"GO:0045292","count":6},{"id":"GO:0075525","count":5}]},{"hash":"2297346372792598687","title":"Cell signaling and growth regulation","description":"This cluster centers on GO terms related to regulation of signaling pathways (GTPase activity, serine/threonine kinase activity, autophosphorylation, TORC1 signaling) alongside processes like cell cycle, hypoxia response, development, and mRNA transport. The common theme is regulatory signaling and growth control rather than a single specific pathway, justifying a broad label.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":8},{"id":"GO:0007338","count":7},{"id":"GO:0071902","count":7},{"id":"GO:0051028","count":7},{"id":"GO:0031954","count":7}]},{"hash":"687395861038741838","title":"Actin dynamics and cell adhesion signaling","description":"This cluster centers on actin cytoskeleton remodeling and adhesion-related signaling, with GO terms for actin filament branching and polymerization, ruffle assembly, leading-process extension in neuronal migration, and integrin/PDGF receptor signaling. The combination suggests a cohesive theme of actin-driven cell movement and cell\u2013cell/matrix interactions, even though the network is sparse.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048008","count":3},{"id":"GO:0007229","count":3},{"id":"GO:0022407","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0002051","count":2}]},{"hash":"2297078850442363931","title":"Developmental signaling and transcription","description":"This cluster's terms converge on developmental regulation and transcription, with multicellular and forebrain development alongside DNA-templated transcription; it is complemented by signaling activities (GPCR signaling, GTPase regulation) that connect signaling to gene expression. A few outliers (defense response, ER stress\u2013related apoptosis) exist but do not override the main theme.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0050731","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0050830","count":4}]},{"hash":"1198726407518424352","title":"Neural development and signaling","description":"Several top GO terms point to nervous system processes (visual perception, axonogenesis, axon regeneration), suggesting a neural theme. But there is also a mix of non-neural processes (mitotic cell cycle, nuclear protein export, insulin and growth hormone signaling, smooth muscle contraction, apoptotic regulation), indicating a noisy, mixed cluster without a single cohesive function. This label captures the strongest signal but remains tentative due to the diverse terms.","confidence":"Low","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0045766","count":8},{"id":"GO:0046827","count":8},{"id":"GO:0046626","count":7}]},{"hash":"353150467213850940","title":"Mitotic regulation and ER stress\u2013driven apoptosis","description":"The cluster\u2019s top GO terms cluster around mitotic cell cycle, cell division, and apoptosis, including APC-dependent catabolic processes and intrinsic apoptotic signaling in response to ER stress, plus ubiquitination-related pathways (K11-linked ubiquitination and ubiquitin-dependent ERAD). Although a few terms touch on neuronal signaling and heart development, the dominant theme ties cell-cycle control with protein quality control and programmed cell death under ER stress, suggesting a coherent module of mitosis-linked proteostasis and apoptosis.","confidence":"Medium","size":28,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0030433","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0060291","count":3}]},{"hash":"1614444991859073617","title":"Epigenetic Transcriptional Regulation and Chromatin Modification","description":"The cluster centers on epigenetic control of gene expression, including DNA methylation\u2013dependent heterochromatin formation, epigenetic programming of gene expression, and repression of transcription by RNA polymerase II. Ubiquitination pathways (K48- and K63-linked) suggest chromatin signaling and coordinated protein turnover related to these regulatory processes, while developmental terms like blastocyst formation and meiotic gene conversion point to epigenetic regulation during development. A less central term about amino acid starvation may reflect broader stress-linked regulatory connections but does not override the main theme.","confidence":"High","size":28,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034198","count":4},{"id":"GO:0090309","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0001825","count":4},{"id":"GO:0006378","count":3}]},{"hash":"712377581391322789","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0090307","count":3}]},{"hash":"2061618557914850310","title":"Ribosome biogenesis and translation initiation","description":"The proteins cluster around ribosome assembly and translation initiation processes (ribosome biogenesis, translation, initiation, preinitiation complex formation) and also connect to RNA processing steps like mRNA splicing and export, indicating a cohesive RNA processing/translation machinery module.","confidence":"High","size":28,"edges":2,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0006406","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0001731","count":3},{"id":"GO:1900363","count":3}]},{"hash":"1448739614330053991","title":"Innate immune response and coagulation","description":"The top GO terms strongly point to immune and clotting processes: fibrinolysis, complement activation (lectin pathway), defense response to Gram-positive bacteria, cellular response to interleukin-1, and blood coagulation. Together they suggest a core theme of innate immunity and hemostasis across the cluster. The other metabolic terms appear ancillary or noisy annotations, and the absence of edges supports a diffuse set of functions rather than a tightly connected pathway. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042730","count":3},{"id":"GO:0001867","count":3},{"id":"GO:0050830","count":2},{"id":"GO:0033611","count":2},{"id":"GO:0043427","count":2}]},{"hash":"584857166409808953","title":"Unknown","description":"GO terms span transcription, replication, hormone and growth factor responses, ER stress\u2013related apoptosis, ion transport, cytoskeleton remodeling, and broad developmental processes, with no clear single function tying all proteins together, indicating a heterogeneous cluster.","confidence":"","size":28,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0006260","count":4},{"id":"GO:0071374","count":4},{"id":"GO:0035924","count":4},{"id":"GO:2001275","count":4}]},{"hash":"207356043520136937","title":"Developmental transcriptional regulation and morphogenesis","description":"The GO terms emphasize transcriptional control (negative regulation of RNA polymerase II transcription) alongside signaling and morphogenetic processes (SMAD phosphorylation, EMT in endocardial cushion formation, neural tube closure, osteoblast differentiation, atrial cardiac muscle morphogenesis), suggesting a group of proteins involved in regulating gene expression during development and tissue shaping, especially in heart and neural contexts.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031953","count":2},{"id":"GO:1903026","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0001649","count":2},{"id":"GO:0060389","count":2}]},{"hash":"158409462665848191","title":"Immune and metal stress responses with ciliogenesis","description":"The cluster combines innate immune and defense-related GO terms (innate immune response, defense response to virus, lipopolysaccharide metabolic process) with responses to metal ions (cadmium, lead). It also includes cilia-related processes (non-motile cilium assembly, protein localization to photoreceptor outer segment) and centrosome maintenance, suggesting a theme where cellular stress responses interface with ciliogenesis and organelle/organ identity maintenance. Despite no edges, the mix points toward a coordinated response linking immune/metabolic stress to ciliary and cellular organization functions.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0071276","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0010288","count":2}]},{"hash":"549980745729331803","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000480","count":5},{"id":"GO:0000472","count":5},{"id":"GO:0042254","count":4},{"id":"GO:0000447","count":4},{"id":"GO:0000462","count":3}]},{"hash":"110967051037713431","title":"Cytoskeleton remodeling and cell polarity signaling","description":"The top GO terms cluster around intracellular signal transduction linked to actin cytoskeleton dynamics (actin filament bundle assembly, cell migration) and epithelial cell polarity establishment, with supporting themes of vesicle trafficking (lysosome localization) and regulation of small GTPases. This points to a cohesive theme of coordinated signaling that drives cytoskeletal remodeling and polarity maintenance, despite a minority term touching B cell receptor signaling. ","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0051017","count":3},{"id":"GO:0090162","count":3},{"id":"GO:0050853","count":3}]},{"hash":"1871640639000469834","title":"Fatty acid oxidation and BCAA catabolism","description":"The top GO terms point to beta-oxidation and breakdown of fatty acids (long-, medium-, and acyl-CoA oxidase\u2013mediated processes) along with branched-chain amino acid catabolism (valine and leucine). This suggests a cohesive cluster centered on lipid energy metabolism and amino acid degradation, with related signals like steroid biosynthesis and cold response reflecting broader metabolic adaptation. The presence of liver development hints at a liver-associated metabolic context. Overall, the terms cohere around fatty acid oxidation and BCAA catabolism as the core function.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0009409","count":3},{"id":"GO:0001889","count":3},{"id":"GO:0033540","count":2},{"id":"GO:0006694","count":2}]},{"hash":"1899394315779018691","title":"Developmental growth and transcriptional regulation","description":"This cluster centers on tissue development and organismal growth (glomerular basement membrane development, biomineral tissue development, multicellular organism growth) and gene expression control (DNA-templated transcription, negative regulation of transcription by RNA polymerase II), with supporting terms for cell cycle, mitosis, and oligodendrocyte differentiation, plus related ECM/coagulation processes. The combination points to a broad developmental and regulatory program rather than a single narrow function, justifying this label. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030194","count":3},{"id":"GO:0032836","count":3},{"id":"GO:0048714","count":3},{"id":"GO:0031214","count":3},{"id":"GO:0000278","count":3}]},{"hash":"944342634152067763","title":"Ubiquitin-Dependent Proteolysis and Signaling","description":"The top GO terms cluster around ubiquitin-dependent protein catabolic processes (ERAD, K48-linked ubiquitination) and regulation of stress signaling (JNK cascade, TNF signaling), indicating a cohesive group focused on ubiquitin-proteasome\u2013mediated degradation and its regulatory signaling roles.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0030433","count":13},{"id":"GO:0051865","count":12},{"id":"GO:0046328","count":11},{"id":"GO:1903265","count":10}]},{"hash":"970052865651966894","title":"Neural development and axon guidance","description":"The cluster is enriched for neural development terms such as brain development, dorsal root ganglion development, sensory system development, and retinal ganglion cell axon guidance, plus neurohypophysis development. While there are a couple of broader terms (endothelial barrier establishment, Rho signaling), the recurring neural-associated terms point to a cohesive theme around neural differentiation and axon pathfinding.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090557","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0007420","count":1},{"id":"GO:2001054","count":1},{"id":"GO:1990791","count":1}]},{"hash":"590904418952218801","title":"Diverse signaling and trafficking processes","description":"The top GO terms point to regulation of signaling pathways (MAP kinase activity, GTPase activity), transcription, axon guidance, and ER-to-Golgi transport, suggesting a broad role in cellular signaling and intracellular trafficking. Some terms (nucleotide salvage, mismatch repair regulation, cardiac contraction) seem peripheral to this core theme, indicating a mix of functions without a tightly cohesive single pathway.","confidence":"Low","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043407","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0048846","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0044211","count":1}]},{"hash":"1952656927093262635","title":"Unknown","description":"The GO terms are highly diverse, spanning B cell chemotaxis, Notch signaling in heart development, sensory pain detection, cardiac atrial morphogenesis, venous endothelial differentiation, and multiple lipid metabolic pathways plus CNS myelin maintenance. There is no clear, single biological process or pathway that unifies these terms for this cluster, and the lack of edges further suggests no cohesive functional module. ","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035754","count":2},{"id":"GO:0003270","count":2},{"id":"GO:0050968","count":2},{"id":"GO:0003213","count":2},{"id":"GO:0060843","count":2}]},{"hash":"1823704190872082650","title":"Ubiquitin-Dependent Neuronal Apoptosis Regulation","description":"This cluster centers on ubiquitin-related regulation of apoptosis, with GO terms for ubiquitin-dependent protein catabolic process, autoubiquitination, and K63-linked ubiquitination, plus regulation of neuron apoptotic processes. The presence of cytokine-response terms (interleukin-4, TNF) suggests inflammatory signaling context, but the recurring theme tying these proteins is ubiquitin-driven control of neuronal cell death. Therefore, this label captures the core function of the cluster.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071353","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0043525","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0060669","count":2}]},{"hash":"1357534646484344478","title":"Plant transcription and chloroplast transport","description":"Based on the GO terms, the cluster centers on gene expression processes (DNA-templated transcription and mRNA splicing) and plastid-related activity (protein import into chloroplast stroma, ABA-related biosynthetic processes, stomatal movement). These together suggest a plant-focused theme around transcriptional regulation coupled with plastid/function-related transport and metabolism. Some terms (e.g., neuron projection development) appear as outliers, possibly due to cross-species annotation, but the core signal supports the label.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0009688","count":1}]},{"hash":"2200991438786222138","title":"Unknown","description":"The top GO terms span proteolysis, innate immune response, germ cell apoptosis, autophagy regulation, cell cycle signaling, and epigenetic modification, with no single shared function or pathway tying the proteins together. The network has no edges, suggesting no cohesive interaction pattern, so a single interpretable theme is not evident.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030163","count":2},{"id":"GO:0035234","count":2},{"id":"GO:0006508","count":2},{"id":"GO:1904924","count":2},{"id":"GO:0045087","count":2}]},{"hash":"917194974892534648","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":51,"triangles":52,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0007338","count":3},{"id":"GO:0048025","count":3},{"id":"GO:1901407","count":3},{"id":"GO:0007507","count":2}]},{"hash":"2025966228522082446","title":"Dendritic Spine Formation and Synaptic Signaling","description":"The terms center on neuronal synapses\u2014dendritic spine morphogenesis, protein localization to the synapse, and receptor clustering\u2014along with Rho-mediated signaling and nitric oxide\u2013based retrograde signaling, which together point to synapse formation, organization, and communication. The inclusion of vocalization behavior suggests neural circuit activity underlying behavior, supporting a cohesive synaptic function theme.","confidence":"High","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":6},{"id":"GO:0070433","count":6},{"id":"GO:0007266","count":5},{"id":"GO:0035418","count":5},{"id":"GO:0008285","count":5}]},{"hash":"1061926026813190838","title":"Mitotic Cell Cycle and Division Machinery","description":"The cluster is dominated by GO terms tied to mitosis and cell division (mitotic cell cycle, cell division, exit from mitosis, division septum assembly), suggesting proteins involved in progression through mitosis and cytokinesis. Additional terms like polarity maintenance and regulation of signaling hint at coordination of division with cellular architecture and signaling, but the core theme remains mitotic progression and division machinery.","confidence":"High","size":27,"edges":37,"triangles":17,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0046827","count":5},{"id":"GO:0000917","count":4},{"id":"GO:0030011","count":4},{"id":"GO:0002181","count":4}]},{"hash":"42943920945264980","title":"Embryonic Development and Organogenesis","description":"The cluster\u2019s top GO terms center on development across multiple tissues and stages\u2014embryonic development, kidney and olfactory bulb development, myoblast fusion, planar polarity, enamel formation (amelogenesis), and neural signaling\u2014suggesting a shared theme of tissue formation and patterning during development, with a possible outlier in complement activation.","confidence":"Medium","size":27,"edges":82,"triangles":66,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":3},{"id":"GO:0006378","count":2},{"id":"GO:0007520","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0001822","count":2}]},{"hash":"1810881748789060855","title":"Cell migration and adhesion signaling","description":"This cluster is enriched for terms tied to cell movement and adhesion: stress fiber and podosome assembly, GTPase activity regulation, PI3K signaling (including insulin receptor pathway), substrate spreading, and migration. While a bone development term appears, the dominant theme is signaling that regulates cytoskeletal dynamics and motility.","confidence":"High","size":27,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001878","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0010923","count":2},{"id":"GO:0008286","count":2},{"id":"GO:0051496","count":2}]},{"hash":"2145660066606347197","title":"GTPase-driven migration and polarity","description":"This cluster is centered on small GTPase signaling, regulation of GTPase activity, podosome assembly, and epithelial cell polarity, all pointing to coordinated cytoskeletal remodeling and cell movement. PDGF signaling and related pathways also support migratory behavior, with apoptosis and bone development appearing as secondary associations. Confidence: High","confidence":"","size":27,"edges":4,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0071803","count":5},{"id":"GO:0090162","count":5},{"id":"GO:0007264","count":5},{"id":"GO:0016477","count":5}]},{"hash":"2065512998861149366","title":"Circadian neural signaling and ion transport","description":"The terms cluster around circadian sleep regulation, startle response, and neuronal excitability, with emphasis on ion transport (Na+, K+, Ca2+), action potentials, and neurotransmitter signaling (serotonin, histamine) as well as responses to ethanol. This points to a theme of neural signaling modulated by circadian rhythms and sensory stimuli, rather than a single enzymatic pathway. An occasional outlier like acrosome reaction reflects Ca2+-dependent exocytosis but does not dominate the overall pattern. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045188","count":4},{"id":"GO:0001964","count":4},{"id":"GO:0098703","count":4},{"id":"GO:0035725","count":4},{"id":"GO:0071805","count":4}]},{"hash":"1455039933408095243","title":"Embryonic development and organ morphogenesis","description":"The top GO terms strongly point to embryogenesis and tissue morphogenesis, including heart-related epithelial\u2013mesenchymal transitions, left/right patterning, placenta and trophoblast differentiation, and cartilage and pancreatic development. A few transport-related terms are present but appear peripheral to the core developmental theme. Overall, the cluster seems to group proteins involved in developmental processes and morphogenesis rather than a single specialized pathway.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0060972","count":2}]},{"hash":"944362299409255702","title":"Neural development and axon guidance","description":"The cluster centers on nervous system development, axon guidance, Roundabout (ROBO) signaling, and regulation of synaptic vesicle exocytosis, indicating proteins involved in neurite outgrowth, pathfinding, and synaptic transmission. The strongest signals come from GO:0007399 (nervous system development), GO:0007411 (axon guidance), GO:2000300 (regulation of synaptic vesicle exocytosis), and GO:0035385 (Roundabout signaling pathway). While a few non-neural terms appear, they are less represented compared to the neural development/axonal signaling signals.","confidence":"High","size":27,"edges":265,"triangles":1587,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":16},{"id":"GO:0043552","count":15},{"id":"GO:0050852","count":15},{"id":"GO:0007286","count":15},{"id":"GO:0035385","count":15}]},{"hash":"91812230869794255","title":"Innate Immune Signaling and Inflammation","description":"This cluster is dominated by GO terms tied to innate immunity and inflammatory signaling, including innate immune response, complement activation (classical pathway), Kit signaling, and Fc-epsilon receptor signaling, as well as regulation of NF-kappaB activity and cytokine production in inflammation. While a few terms (neurogenesis and GI epithelium maintenance) are less directly connected, the shared theme across the majority of terms points to immune signaling and inflammatory processes as the core function of this protein group.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":2},{"id":"GO:0038109","count":2},{"id":"GO:0038095","count":2},{"id":"GO:1900016","count":2},{"id":"GO:0022008","count":2}]},{"hash":"1023003569379788000","title":"Mitotic spindle and cell cycle progression","description":"The cluster is dominated by GO terms tied to cell cycle and mitosis, including cell cycle, cell division, spindle assembly, and mitotic metaphase chromosome alignment, as well as cytokinesis-related processes. Additional terms like ribosome biogenesis and regulation of GTPase activity likely reflect broader proliferative signaling contexts, but the core theme centers on mitotic progression and cell division.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0061087","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0016055","count":3}]},{"hash":"539876706193201810","title":"RNA splicing and post-transcriptional regulation","description":"The cluster is rich in GO terms tied to RNA processing and regulation after transcription: cis/spliceosome-mediated splicing, alternative splicing, mRNA modification and stabilization, and translation initiation components. This points to a cohesive role in post-transcriptional RNA metabolism and gene-expression control, rather than metabolic pathways. The blastocyst formation term appears as a less central outlier.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001825","count":3},{"id":"GO:0001731","count":2},{"id":"GO:0006376","count":2},{"id":"GO:0075525","count":2},{"id":"GO:1900363","count":2}]},{"hash":"350797624125582850","title":"Proteoglycan biosynthesis and tissue development","description":"The top GO terms cluster around proteoglycan biosynthesis (chondroitin sulfate and heparan sulfate) and several tissue development processes (distal tubule morphogenesis, skeletal muscle tissue and fiber development, germinal center formation). While immune signaling and ubiquitination terms are present, the shared theme appears to be extracellular matrix proteoglycans contributing to tissue morphogenesis and development, suggesting the proteins in this cluster are linked to proteoglycan production and ECM-related developmental roles.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":3},{"id":"GO:0015015","count":3},{"id":"GO:0072156","count":2},{"id":"GO:2000312","count":2},{"id":"GO:0050853","count":2}]},{"hash":"970267110090624812","title":"Transcriptional regulators of immune and developmental processes","description":"The presence of GO terms for DNA-templated transcription and transcription by RNA polymerase II suggests a core role in transcriptional regulation. The cluster also includes immune-related processes (positive regulation of MHC class II biosynthetic process; T-helper 2 cell differentiation; cellular response to interleukin-4) and developmental/metabolic contexts (ventricular cardiac muscle tissue morphogenesis; ovulation from ovarian follicle; glucose homeostasis; cellular response to calcium). This pattern points to proteins that coordinate transcriptional control across immune signaling and developmental physiology, rather than a single narrow function. Confidence: Medium","confidence":"","size":27,"edges":348,"triangles":2853,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0006366","count":8},{"id":"GO:0045348","count":7},{"id":"GO:0035470","count":7},{"id":"GO:0055010","count":6}]},{"hash":"602916200576921638","title":"Inflammatory and cardiovascular development signaling","description":"Most prominent terms relate to immune/stress responses (lipopolysaccharide, xenobiotic, yeast), inflammatory signaling (JNK cascade, NF-kappaB), calcium signaling, and developmental processes (Wnt signaling, heart development) as well as coagulation. The cluster likely comprises proteins that participate in broad signal transduction coordinating inflammation, stress responses, and cardiovascular development.","confidence":"Medium","size":27,"edges":11,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0001878","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0016055","count":2}]},{"hash":"1058821727107898449","title":"Neural development and axon guidance","description":"The top GO terms are dominated by neuronal development and axon guidance, including brain development, dorsal root ganglion development, sensory system development, and retinal ganglion cell axon guidance, which together strongly point to neural development as the cluster\u2019s core theme. Other terms like sarcomere organization and xenobiotic transmembrane transport are present but less central, suggesting that while the cluster has broader cellular roles, its most representative function centers on neural development and axon pathfinding.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0007420","count":1},{"id":"GO:2001054","count":1},{"id":"GO:1990791","count":1}]},{"hash":"2301190949243249035","title":"Metanephric nephron development","description":"These proteins show strong associations with metanephric kidney development, especially ascending thin limb and distal convoluted tubule formation, suggesting nephron development as the core theme of this cluster. A few terms pertain to translation initiation or immune processes, but the two standout kidney-related terms dominate the functional signal, supporting a label focused on metanephric nephron development.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072218","count":2},{"id":"GO:0072221","count":2},{"id":"GO:0075525","count":1},{"id":"GO:0001731","count":1},{"id":"GO:0006413","count":1}]},{"hash":"554321556080831396","title":"Plant peptide and nitrate transport with ER stress","description":"This cluster is dominated by transmembrane transport terms for peptides (dipeptide/oligopeptide transport) and nitrates (nitrate transmembrane transport, nitrate assimilation), plus ER-related processes (unfolded protein response, positive regulation of protein exit from ER) and plant hormone signaling (auxin, gibberellin). The combination suggests a cohesive theme around peptide/nitrate transport and ER quality control in plants, with links to hormone-mediated growth responses and stress.","confidence":"Medium","size":27,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070863","count":2},{"id":"GO:0030968","count":1},{"id":"GO:0010167","count":1},{"id":"GO:0042938","count":1},{"id":"GO:0009635","count":1}]},{"hash":"1003299958107640123","title":"Neuronal calcium signaling and synaptic plasticity","description":"This cluster is dominated by GO terms related to neural signaling and calcium dynamics, including regulation of neuronal synaptic plasticity, axonogenesis, and excitatory postsynaptic potential, as well as calcium release regulation (release of sequestered Ca2+ into cytosol and ryanodine receptor activity). While a few terms touch on non-neural processes (kidney development and cardiac hypertrophy), the strongest and most frequent terms describe neuronal development and calcium-dependent signaling at synapses, justifying a label centered on neuronal calcium signaling and synaptic plasticity.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097274","count":5},{"id":"GO:0048168","count":4},{"id":"GO:0007409","count":4},{"id":"GO:0051281","count":4},{"id":"GO:0060315","count":4}]},{"hash":"1953935273955041618","title":"Multi-tissue developmental morphogenesis","description":"The top GO terms cluster around development and morphogenesis across multiple tissues (neural, brain, eye, muscle, kidney, nails, etc.), indicating a general theme of embryonic tissue formation rather than a single pathway. This supports labeling as multi-tissue developmental morphogenesis.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048699","count":2},{"id":"GO:0045214","count":2},{"id":"GO:0007420","count":1},{"id":"GO:0043010","count":1},{"id":"GO:0051451","count":1}]},{"hash":"178750156026883545","title":"Immune Signaling and Cytoskeletal Remodeling","description":"The cluster is enriched for immune-related processes (innate and adaptive immune response, regulation of JNK cascade, NF-kappaB activity) and cytoskeletal dynamics (actin filament branching, GTPase regulation, cell-cell adhesion, migration). PDGF receptor signaling and developmental cues like osteoblast fate and glial migration suggest coordinated signaling that influences cytoskeletal remodeling and cell movement. Overall, the proteins appear to link immune signaling with cytoskeletal regulation and motility, though a few terms are tangential. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0002250","count":3},{"id":"GO:0048008","count":3},{"id":"GO:0051092","count":2}]},{"hash":"679448048649352564","title":"Actin Dynamics and Cytoskeleton Organization","description":"This cluster is defined by strong representation of actin-related processes: actin nucleation, actin filament network formation, and actomyosin contractile ring assembly, plus regulation of cell shape and substrate-dependent cell migration. The presence of centrosome localization ties into cytoskeletal organization, supporting a cohesive theme of actin-driven remodeling and morphological control, with a few developmental or signaling terms as minor outliers. ","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060292","count":4},{"id":"GO:0045010","count":4},{"id":"GO:0051660","count":4},{"id":"GO:0051639","count":4},{"id":"GO:0006929","count":3}]},{"hash":"2227378100832836643","title":"Neural sensory perception and dopaminergic signaling","description":"The cluster is enriched for nervous-system terms: sensory perception of pain (11), visual perception and visual learning (8 each), and dopaminergic synaptic transmission (8), plus a behavioral response to cocaine and ERK signaling. Together these indicate a common theme of neuronal signaling and sensory processing. While some terms relate to development (multicellular organism development, heart development) and immune chemotaxis, these appear less central than the neural terms, suggesting the main function is neural signaling and sensory information processing.","confidence":"High","size":26,"edges":44,"triangles":17,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019233","count":11},{"id":"GO:0007275","count":8},{"id":"GO:0071380","count":8},{"id":"GO:0048148","count":8},{"id":"GO:0001963","count":8}]},{"hash":"765908320269968301","title":"Neural, skeletal, and vascular development with ECM adhesion","description":"The dominant terms point to developmental processes across tissues (forebrain, aorta, ossification) and cell-matrix adhesion, with supporting signals like calcium transport. This suggests a cluster centered on tissue development and ECM-mediated signaling across neural, skeletal, and vascular systems.","confidence":"Medium","size":26,"edges":4,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":9},{"id":"GO:0007160","count":7},{"id":"GO:0019233","count":7},{"id":"GO:0071372","count":6},{"id":"GO:0030900","count":6}]},{"hash":"101185690430031457","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":35,"triangles":11,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:2000616","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0043516","count":2},{"id":"GO:0071035","count":1},{"id":"GO:0071031","count":1}]},{"hash":"1003638431126198591","title":"Glycan biosynthesis and glycoprotein modification","description":"The top GO terms cluster around carbohydrate production and glycosylation, including arabinogalactan protein metabolism, mucilage biosynthesis, poly-N-acetyllactosamine biosynthesis, O-linked glycosylation via hydroxyproline, and Lewis a epitope biosynthesis. This points to a cohesive theme of glycans and glycosylation processes shaping extracellular components and protein modification, rather than a single signaling or structural pathway. The absence of network edges doesn\u2019t negate this theme, but the diversity of organisms and contexts among the terms lowers the certainty somewhat.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":4},{"id":"GO:0010405","count":3},{"id":"GO:0080147","count":3},{"id":"GO:0010493","count":3},{"id":"GO:0042248","count":3}]},{"hash":"1394498120352852116","title":"Embryonic organ morphogenesis and transcription regulation","description":"These proteins cluster around embryonic development and organ morphogenesis: eye development (embryonic and camera-type), heart development, placenta development, prostate gland morphogenesis, and habenula development. The mix of organ-specific morphogenesis terms suggests a general developmental program rather than a single tissue pathway. The included GO terms for RNA polymerase II transcription and its negative regulation imply regulation of gene expression during development, supporting a coordinating transcriptional control role in this cluster.","confidence":"High","size":26,"edges":238,"triangles":1064,"max_degree":25,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0048048","count":9},{"id":"GO:0006366","count":8},{"id":"GO:0003148","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0060527","count":7}]},{"hash":"2021959962933746859","title":"Coagulation and Fibrinolysis with ECM Remodeling","description":"This cluster is enriched for terms related to blood coagulation, fibrinolysis, plasminogen activation, and extracellular matrix disassembly, suggesting a core theme of hemostasis and matrix remodeling during tissue repair. Some terms such as DNA-templated transcription and bile acid metabolic process are less directly connected, but the dominant signal centers on proteolytic cascades and tissue remodeling.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051919","count":3},{"id":"GO:0042730","count":3},{"id":"GO:1902947","count":3},{"id":"GO:0031639","count":3},{"id":"GO:0048771","count":3}]},{"hash":"509539574549479241","title":"Spliceosome-mediated mRNA processing and post-transcriptional regulation","description":"The cluster is dominated by GO terms related to mRNA maturation and regulation, including splicing via the spliceosome (cis and alternative), polyadenylation, mRNA stabilization, and regulation of translation initiation and mRNA tail length, plus regulatory ncRNA-mediated gene silencing. This points to a cohesive role in post-transcriptional processing and control of mRNA fate under stress, rather than a single protein function.","confidence":"High","size":26,"edges":131,"triangles":543,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":14},{"id":"GO:0006378","count":13},{"id":"GO:0031047","count":13},{"id":"GO:0010610","count":13},{"id":"GO:0048026","count":13}]},{"hash":"1219272398966510147","title":"RNA processing and splicing","description":"The strongest signals in this cluster are spliceosomal snRNP assembly and RNA processing, suggesting a core RNA maturation/splicing function. Deadenylation (poly(A) tail shortening) also falls under RNA processing, reinforcing this theme. The other GO terms (stress/immune responses, development) are more diverse and could reflect multifunctional annotations or peripheral connections, but the dominant pattern points to RNA processing/splicing machinery.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000387","count":2},{"id":"GO:0006396","count":2},{"id":"GO:0007399","count":1},{"id":"GO:0010310","count":1},{"id":"GO:0009697","count":1}]},{"hash":"1059953830166831877","title":"Unknown","description":"This cluster's top GO terms span hormone processing, sensory perception, signaling cascades (cGMP, JNK), ion transport, and immune response, showing a broad and heterogeneous set of functions with no single cohesive theme. Therefore, a generic Unknown label is most appropriate.","confidence":"","size":26,"edges":14,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0010815","count":4},{"id":"GO:0030070","count":4},{"id":"GO:0007608","count":3},{"id":"GO:0071321","count":3},{"id":"GO:0046827","count":3}]},{"hash":"644285905788367257","title":"Translation initiation control and RNA processing","description":"This cluster is enriched for GO terms tied to the start of protein synthesis (formation of the translation preinitiation complex, translation reinitiation, IRES-dependent initiation) and to regulation of translation initiation, along with RNA processing and export steps (mRNA stability in response to stress, splicing regulation, mRNA export from the nucleus). The combination points to a functional module coordinating translation control with RNA metabolism, including viral interactions that modulate initiation. Hence the label Translation initiation control and RNA processing captures the core theme.","confidence":"High","size":26,"edges":189,"triangles":724,"max_degree":24,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":10},{"id":"GO:0075525","count":10},{"id":"GO:0031047","count":10},{"id":"GO:0006446","count":10},{"id":"GO:0075522","count":10}]},{"hash":"1873329332514320079","title":"Ion and nutrient transmembrane transporters","description":"The GO terms show strong enrichment for transmembrane transport of ions and diverse substrates (potassium, sodium, nitrate, phosphate; arabinose, fucose, vitamins, xenobiotics), indicating a cluster of membrane transport proteins that mediate uptake and efflux across membranes.","confidence":"High","size":26,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006855","count":21},{"id":"GO:0035461","count":21},{"id":"GO:0071805","count":19},{"id":"GO:0042891","count":18},{"id":"GO:0035435","count":17}]},{"hash":"635700002417442699","title":"Embryonic development and organ morphogenesis","description":"This cluster centers on developmental processes across multiple tissues, including heart/endocardial cushion formation, cartilage morphogenesis, left/right patterning, pancreatic cell development, placenta-related differentiation, and trophoblast differentiation. While there are also notes on regulation of differentiation and GTPase activity, the unifying theme is developmental differentiation and morphogenesis across organ systems, rather than a single pathway. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043666","count":1},{"id":"GO:0000082","count":1},{"id":"GO:0003198","count":1},{"id":"GO:0035270","count":1},{"id":"GO:0060806","count":1}]},{"hash":"1303466652814489856","title":"TLR/NF-\u03baB inflammatory signaling","description":"The top GO terms cluster around Toll-like receptor signaling (including MyD88-independent TLR signaling and TLR6), NF-\u03baB activation (I-\u03baB phosphorylation), and downstream interferon production, plus related receptor signaling such as thrombin-activated receptors and tyrosine kinase pathways. This pattern indicates a cohesive theme of innate immune receptor signaling and inflammatory responses, with a single outlier term (sensory perception of sound) that does not alter the overall interpretation.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070493","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0007169","count":1},{"id":"GO:0061290","count":1}]},{"hash":"1000687306934700215","title":"Neural development and axon guidance","description":"Enrichment centers on neural development and axon guidance: semaphorin-plexin signaling, branchiomotor neuron axon guidance, trigeminal nerve structural organization, sympathetic neuron projection guidance, and ventral trunk neural crest migration. The presence of myelination ties to later neural maturation, supporting a theme of nerve growth and circuit establishment, though ossification terms may reflect broader developmental roles. Overall, the cluster appears to function in guiding nerve growth and neural connectivity.","confidence":"High","size":26,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":4},{"id":"GO:0043931","count":4},{"id":"GO:0045880","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0021785","count":3}]},{"hash":"2046777806841898157","title":"Unknown","description":"The terms are scattered across lipid uptake/endocytosis, development (left/right symmetry, sporulation), and reproductive/neural signaling (sperm capacitation, enkephalin processing, cytokine production), with no clear shared function or network activity to tie them into a cohesive cluster. Given the lack of connections (Edges 0) and the diverse GO terms, a precise functional label isn\u2019t supported.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905596","count":1},{"id":"GO:1905601","count":1},{"id":"GO:0007368","count":1},{"id":"GO:0045714","count":1},{"id":"GO:0042089","count":1}]},{"hash":"1100546484066875989","title":"RNA Pol II Transcription Regulators","description":"Top terms are dominated by both negative and positive regulation of transcription by RNA polymerase II, suggesting the cluster mainly comprises transcriptional regulators. The presence of midbrain development and various physiological processes (angiogenesis, fertilization, locomotory behavior, blood pressure regulation, coagulation, and complement pathways) implies these regulators also participate in development and immune/vascular functions. Overall, the core theme is transcriptional control by RNA Pol II, with broader developmental and physiological roles.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0030901","count":12},{"id":"GO:0006958","count":10},{"id":"GO:0045944","count":9},{"id":"GO:0007338","count":9}]},{"hash":"1995530163518028434","title":"Mitochondrial Energy Metabolism and Stress Signaling","description":"Based on the Top Terms, the cluster is enriched for mitochondrial function (electron transport chain; regulation of membrane potential) and stress/inflammatory responses (prostaglandin E stimulus, xenobiotic response, temperature response, neutrophil chemotaxis). Metabolic themes such as diet-induced thermogenesis and ERK signaling further suggest energy metabolism coupled to cellular stress signaling; some terms like visual learning and pain perception are peripheral and do not define the core cluster. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042391","count":5},{"id":"GO:0071380","count":5},{"id":"GO:0042493","count":5},{"id":"GO:0002024","count":5},{"id":"GO:0008542","count":5}]},{"hash":"611311486645740900","title":"Cell-surface signaling and adhesion","description":"The top GO terms cluster around cell surface receptor signaling, integrin-mediated signaling, and regulation of cell motility, with mentions of VEGF signaling and junction assembly. This suggests proteins together function in extracellular signal reception and modulation of cell adhesion/movement, with some lysosomal localization possibly reflecting trafficking rather than core function. While some terms are obsolete, the dominant theme is signaling at the cell surface linked to adhesion and motility.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0061462","count":2},{"id":"GO:2000680","count":2},{"id":"GO:0071404","count":2},{"id":"GO:0007166","count":2}]},{"hash":"1891296455258206748","title":"Centrosome-Cilia Biogenesis and Mitotic Regulation","description":"The GO terms cluster around centrosome and centriole biology (centriole replication/elongation, centrosome separation, astral microtubule nucleation, spindle pole organization) and cilium assembly (motile and non-motile). This points to a shared function in centrosome/cilium biogenesis and their roles in mitotic processes. A single term about complement activation appears incidental and does not define the main theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":2},{"id":"GO:0035186","count":1},{"id":"GO:1905515","count":1},{"id":"GO:0061511","count":1},{"id":"GO:0044458","count":1}]},{"hash":"433657742514797364","title":"Bacterial cell wall glycosylation and polysaccharide biosynthesis","description":"The top GO terms point to O-linked glycosylation of proteins (via GalNAc, serine, threonine) together with cell wall-related processes such as teichoic acid biosynthesis and cell wall organization, plus various polysaccharide biosynthesis pathways (hyaluronan, cellulose, UDP-glucose metabolism). This pattern suggests a cohesive function in building and modifying the bacterial cell wall and its glycoprotein components, i.e., glycosylation and polysaccharide biosynthesis relevant to the cell wall.","confidence":"High","size":25,"edges":20,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0016266","count":9},{"id":"GO:0071555","count":9},{"id":"GO:0018243","count":9},{"id":"GO:0030213","count":9},{"id":"GO:0002378","count":9}]},{"hash":"3856941786815532","title":"Synaptic and cytoskeletal regulation","description":"Based on the GO terms, the proteins cluster around actin cytoskeleton organization, signaling pathways (Rho, JNK, Wnt), and synaptic plasticity (long-term synaptic depression), with related protein localization at adherens junctions and membrane regions. This suggests a theme of coordinated cytoskeletal dynamics and cell-adhesion signaling affecting neural connectivity and junctional integrity, rather than a single isolated function.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0035750","count":2},{"id":"GO:0060292","count":2},{"id":"GO:0030036","count":2},{"id":"GO:0030111","count":2}]},{"hash":"987284711539999969","title":"Proteostasis and Nuclear Quality Control","description":"The terms cluster around ER protein folding, ubiquitin-proteasome\u2013mediated quality control in the nucleus, and regulation of protein export, pointing to a cohesive proteostasis and nuclear quality-control program; a few terms appear peripheral to this theme (DNA replication, hormone response).","confidence":"Medium","size":25,"edges":300,"triangles":2300,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0071630","count":3},{"id":"GO:0090084","count":3},{"id":"GO:0071374","count":3},{"id":"GO:0034975","count":3}]},{"hash":"1780381307836624878","title":"Mesenchymal Differentiation and Heart and Osteoblast Development","description":"The top GO terms cluster around differentiation of mesenchymal lineages, notably osteoblast differentiation and heart development (endocardial cushion morphogenesis), along with broader transcriptional regulation and hypoxia-responsive processes. This suggests a cohesive set of proteins involved in mesenchymal lineage specification and associated developmental programs, with some ancillary stress-related processes like DNA repair and ERAD appearing less central but present. Confidence in this thematic link is High.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0071456","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0001649","count":2}]},{"hash":"961091871836804174","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around brain and neural development (brain development, cochlea morphogenesis, globus pallidus development) and synaptic activity (positive regulation of excitatory postsynaptic potential), with regulation of Wnt signaling linking to developmental pathways; a few terms are non-neural, but the neural development/synaptic theme best explains the cluster.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903244","count":3},{"id":"GO:0043029","count":3},{"id":"GO:0021759","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0035609","count":2}]},{"hash":"459181441346721942","title":"Unknown","description":"The top GO terms span muscle response, apoptosis regulation, general development (including kidney development), metabolic response to glucose, coagulation and complement activation, and neural plasticity/memory. This broad and diverse mix lacks a single cohesive functional theme, so a specific label isn\u2019t clear.","confidence":"","size":25,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0014850","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0071333","count":3},{"id":"GO:0007596","count":3}]},{"hash":"198764404292030560","title":"Unknown","description":"The top GO terms span highly diverse processes\u2014metabolism (stilbene catabolism, phospholipid dephosphorylation, nitrogen utilization), transport (intracellular cholesterol transport), signaling (integrin activation), development (maternal axis specification), immune modulation (immunoglobulin production), and neuromuscular/posture control\u2014with no clear single function tying the proteins together, and there are obsolete terms among them. The lack of a cohesive functional theme and no observed interactions suggest these proteins do not share a common, interpretable role as a cluster.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046272","count":2},{"id":"GO:0097755","count":2},{"id":"GO:0046839","count":2},{"id":"GO:0019740","count":2},{"id":"GO:0050884","count":2}]},{"hash":"386542881003197612","title":"Steroid and lipid metabolism","description":"The cluster\u2019s top GO terms cluster around biosynthesis and catabolism of steroids (testosterone, glucocorticoids, steroid metabolism) and lipids (very long-chain fatty acids, sphinganine), with related retinal metabolism and other lipid-associated processes. Although a few terms are plant/fungal-specific (tropane alkaloid biosynthesis, sporulation), the dominant theme is steroid and lipid metabolic pathways, suggesting a cohesive lipid/steroid metabolism cluster.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0061370","count":2},{"id":"GO:0042761","count":2},{"id":"GO:0006706","count":2},{"id":"GO:0006666","count":2}]},{"hash":"638637271001619656","title":"Metal-stress\u2013related epithelial signaling","description":"This cluster centers on metal stress responses (sodium arsenite, cadmium ion) alongside epithelial-related processes such as keratinocyte differentiation and cell-matrix adhesion, with supporting signals from Hippo and Wnt pathways and apoptotic/DNA repair regulation. Together, these terms suggest a coordinated response to metal-induced stress in epithelial cells, integrating stress signaling with growth, differentiation, and adhesion. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1903936","count":5},{"id":"GO:0071276","count":5},{"id":"GO:0006351","count":5},{"id":"GO:2001033","count":5},{"id":"GO:0035329","count":4}]},{"hash":"1936553175258953381","title":"Unknown","description":"The top GO terms cover heart development, Hedgehog/Rho signaling, neural tube closure, telomerase and telomere maintenance, mRNA export/decay, and G-quadruplex DNA, which do not converge on a single clear function or pathway for the cluster.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0007266","count":3},{"id":"GO:0001843","count":2},{"id":"GO:0007224","count":2},{"id":"GO:1905324","count":2}]},{"hash":"1397826860460238633","title":"Unknown","description":"The terms span extracellular matrix/cuticle formation, basement membrane development, immune defense, reproduction, and signaling, with no single dominant function tying them together. This diverse mix makes a cohesive, specific label difficult, so Unknown is appropriate.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0018996","count":6},{"id":"GO:0048632","count":6},{"id":"GO:0001867","count":5},{"id":"GO:0032836","count":5},{"id":"GO:2000360","count":5}]},{"hash":"624871052560801277","title":"Signaling and Cytoskeletal Dynamics","description":"The top GO terms cluster around signaling pathways (GPCR signaling; immune signaling), cell polarity and shape, mechanotransduction, and actin cytoskeleton remodeling, with related transport and autophagy/mitotic processes, suggesting a cohesive theme of signal-driven regulation of cytoskeleton and membrane dynamics.","confidence":"Medium","size":25,"edges":21,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000060","count":6},{"id":"GO:0071963","count":6},{"id":"GO:2000785","count":6},{"id":"GO:0042088","count":6},{"id":"GO:0071806","count":6}]},{"hash":"2108401944002282825","title":"Axon Guidance in Neural Development","description":"The top GO terms cluster around several neuron axon guidance processes (retinal ganglion, commissural, and branchiomotor neuron axon guidance), suggesting proteins involved in directing growing axons during neural development. Supporting terms about growth factor signaling (HGF, TGF-\u03b2 pathways) and membrane localization point to receptors/ligands mediating guidance decisions. Overall, the shared theme is neural development through axon pathfinding cues. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060325","count":2},{"id":"GO:0070858","count":1},{"id":"GO:0090648","count":1},{"id":"GO:0035729","count":1},{"id":"GO:0030511","count":1}]},{"hash":"1600046029344143949","title":"Lipid remodeling and cholesterol homeostasis","description":"These terms cluster around lipid remodeling and cholesterol handling (LDL particle remodeling, negative regulation of cholesterol efflux, lysophospholipid transport), with adipose/brown fat differentiation and related signaling (ERK cascade) and vitamin D responses. Immune terms are present but secondary, suggesting the dominant theme is lipid remodeling and cholesterol homeostasis with associated signaling pathways.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034374","count":3},{"id":"GO:0050873","count":2},{"id":"GO:0033280","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0036149","count":2}]},{"hash":"977201215508418082","title":"Ubiquitination and proteolysis","description":"The top GO terms show a strong emphasis on ubiquitin-dependent protein degradation (including autoubiquitination and various ubiquitin linkages), with additional links to ERAD and histone ubiquitination, plus signaling pathways like TNF, NF-kappaB, and JNK. This points to a cohesive cluster centered on ubiquitin-mediated modification and proteolysis, sometimes influencing signaling cascades.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0051865","count":6},{"id":"GO:2000620","count":5},{"id":"GO:0007250","count":5},{"id":"GO:0046328","count":5}]},{"hash":"1079188203045496031","title":"Transcription regulation and Golgi-ER transport","description":"The Top Terms show DNA-templated transcription, histone deacetylation, and transcription regulation, together with intracellular transport terms including retrograde vesicle transport from Golgi to ER and general intracellular protein transport. This suggests a cluster centered on controlling gene expression and coordinating protein trafficking between organelles, rather than a single tissue-specific function. Some development terms appear incidental noise, but the core theme is transcription control paired with Golgi\u2013ER trafficking.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0072520","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0006886","count":2},{"id":"GO:0060013","count":2}]},{"hash":"2000279682318399860","title":"Mitochondrial dynamics and apoptotic processes","description":"The cluster prominently features mitochondrial fission and intracellular distribution of mitochondria, alongside multiple apoptotic processes, pointing to a theme around how mitochondrial dynamics influence cell fate and turnover. Other terms present (cell cycle, nervous system development, vacuolar targeting, copper homeostasis) are broader or ancillary and do not define a single cohesive pathway, but the mitochondria/apoptosis axis is the strongest shared signal.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033028","count":2},{"id":"GO:0090162","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0097284","count":2},{"id":"GO:2000171","count":2}]},{"hash":"2038724901789549781","title":"Neural development and cell-cycle control","description":"The prominent terms point to brain development (forebrain development, visual learning) and regulation of growth/division (negative regulation of cell proliferation, CDK activity, apoptosis), with supporting mentions of Wnt signaling modulation, cell migration, and kinetochore localization. This suggests a cohesive theme around neural development coupled with control of cell cycle and growth.","confidence":"Medium","size":24,"edges":21,"triangles":7,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016477","count":8},{"id":"GO:0090090","count":8},{"id":"GO:0043065","count":8},{"id":"GO:0008285","count":8},{"id":"GO:0008542","count":7}]},{"hash":"1954263001642987917","title":"Broad Substrate Membrane Transporters","description":"GO terms indicate transmembrane transport for a diverse set of substrates (nitrate, phosphate, potassium, glucose, arabinose, galactose, sialic acid, xenobiotics, etc.), pointing to a cluster of membrane transporter proteins with broad substrate specificity. The unifying theme is transport across membranes rather than catalytic enzymes or signaling roles. This supports naming the cluster as Broad Substrate Membrane Transporters.","confidence":"High","size":24,"edges":28,"triangles":0,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":4},{"id":"GO:0035435","count":4},{"id":"GO:0071805","count":4},{"id":"GO:1904659","count":3},{"id":"GO:0006855","count":3}]},{"hash":"2057814768042078165","title":"Steroid hormone synthesis and vitamin signaling","description":"The top terms cluster around production and metabolism of steroids (progesterone, testosterone) and vitamin-related signaling (response to vitamin D, retinoic acid biosynthesis), with supporting terms like prostaglandin biosynthesis and developmental processes (gonad development, retina vasculature). This suggests a cohesive theme of hormone/vitamin\u2013mediated development and signaling, with some stress-related responses included.","confidence":"Medium","size":24,"edges":22,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":5},{"id":"GO:0001516","count":5},{"id":"GO:0035902","count":5},{"id":"GO:0008585","count":5},{"id":"GO:0061298","count":5}]},{"hash":"271376381236028744","title":"Coagulation, complement activation, and fibrinolysis","description":"The proteins in this cluster are enriched for GO terms tied to blood coagulation (blood coagulation, Factor XII activation), complement activation (complement activation, lectin pathway), and fibrinolysis (plasminogen activation, positive regulation of fibrinolysis). This points to a cohesive theme of hemostasis and innate immune processing with coagulation intersecting complement and fibrinolytic pathways. Additional signals for lipopolysaccharide response and phagocytosis recognition suggest concurrent inflammatory/immune activity, with a secondary note of angiogenesis regulation reflecting broader vascular responses. Overall, the dominant pattern centers on coagulation with supportive roles for complement and fibrinolysis.","confidence":"High","size":24,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0072218","count":3},{"id":"GO:0006910","count":2}]},{"hash":"2077124318084375985","title":"TLR3/7/9 Innate Immune Signaling Cluster","description":"The cluster is dominated by Toll-like receptor signaling terms (TLR3, TLR7, TLR9), pointing to a core innate immune signaling function. While there are other linked terms (xenobiotic transport, Ras and insulin signaling, cell migration, and spliceosome-related processes), the strongest shared annotation across the proteins is TLR-mediated signaling, suggesting an innate immune response focus with possible ancillary roles.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034138","count":2},{"id":"GO:0034154","count":2},{"id":"GO:0034162","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0046580","count":2}]},{"hash":"2141155979271801603","title":"Glycolysis and TCA metabolism with redox homeostasis","description":"The top terms are glycolytic process and the tricarboxylic acid cycle, indicating a central carbon metabolism focus. Several redox-related terms\u2014cellular redox homeostasis, cellular oxidant detoxification, and cellular response to oxidative stress\u2014suggest a coordinated metabolic and oxidative stress-management theme. A single neural crest migration term appears incidental. ","confidence":"Medium","size":24,"edges":44,"triangles":23,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0006099","count":2},{"id":"GO:0006096","count":2},{"id":"GO:0003147","count":1},{"id":"GO:0098869","count":1}]},{"hash":"1851308976474393320","title":"Neuronal Axon Guidance and Planar Polarity Signaling","description":"This cluster is dominated by terms related to guiding growing axons in various neuron types (serotonergic, dopaminergic, commissural) and by planar cell polarity pathways that influence axon pathfinding. The inclusion of neural crest differentiation and BMP signaling modulation supports broader neural development themes, while the electron transport chain and bone differentiation terms appear as less central noise.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036515","count":3},{"id":"GO:1904938","count":3},{"id":"GO:0036514","count":3},{"id":"GO:0048105","count":3},{"id":"GO:0014033","count":2}]},{"hash":"46248558456716447","title":"ER-Golgi Secretory Trafficking","description":"The top GO terms cluster around the core secretory pathway\u2014ER-to-Golgi vesicle transport, Golgi ribbon formation, protein exit from the ER, and ER lumen retention\u2014with Wnt secretion also tied to regulated trafficking. The presence of neuronal contexts like synaptic transmission and sensory perception of sound can reflect secretory vesicle usage in neurons, reinforcing a cohesive theme of vesicular trafficking and processing in both general and neural contexts.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0090161","count":2},{"id":"GO:0007268","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0001893","count":1}]},{"hash":"788310376003649309","title":"Unknown","description":"The GO terms here are highly diverse (endosome size, glutamatergic transmission, histone methylation, Rho signaling, transcription regulation, receptor recycling, Toll signaling, elastin breakdown, and neutrophil killing) with no obvious shared function or pathway. The cluster also shows no edges or interactions, suggesting no cohesive biological theme tying these proteins together. Hence, a concise Unknown label is appropriate.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051036","count":1},{"id":"GO:0035249","count":1},{"id":"GO:0034968","count":1},{"id":"GO:0060316","count":1},{"id":"GO:0035023","count":1}]},{"hash":"1635542295114005251","title":"Unknown","description":"The protein set shows a mix of nuclear processes (DNA replication, mitotic cell cycle, transcription) alongside neuronal (axon extension, excitatory postsynaptic potential, dopamine response) and immune (T cell receptor signaling) terms. This broad, heterogeneous combination does not point to a single cohesive function or pathway, so a specific label is not justifiable. ","confidence":"","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":22},{"id":"GO:0000278","count":21},{"id":"GO:0007275","count":20},{"id":"GO:0045773","count":20},{"id":"GO:0006351","count":20}]},{"hash":"143203193462311159","title":"Innate Immunity and Coagulation Activation","description":"This cluster is dominated by innate immune and coagulation-related terms: complement activation, defense against Gram-positive bacteria, Toll signaling, blood coagulation, and plasminogen activation, plus elastin catabolic remodeling. A few transcription regulation and developmental terms appear as background context, but the strongest common theme ties innate immune signaling to coagulation and extracellular matrix remodeling.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0045944","count":9},{"id":"GO:0007596","count":9},{"id":"GO:0006958","count":9},{"id":"GO:0031639","count":8}]},{"hash":"351723867052233495","title":"Embryonic Organ and Neural Development","description":"The top GO terms indicate broad developmental processes across multiple organs and neural structures (forebrain, cerebellum, heart, thyroid, placenta, inner ear) plus axon guidance, suggesting a coordinated role in embryonic organogenesis and neural development rather than a single specific function.","confidence":"High","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008045","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0030878","count":7},{"id":"GO:0021549","count":7},{"id":"GO:0007275","count":7}]},{"hash":"695328757967407400","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035469","count":1},{"id":"GO:0070121","count":1},{"id":"GO:0035563","count":1},{"id":"GO:0006461","count":1},{"id":"GO:0044458","count":1}]},{"hash":"1259333041655472320","title":"Neural development and axon guidance","description":"This cluster centers on neuronal development and axon guidance processes, including commissural and branchiomotor neuron axon guidance, otic placode and sympathetic ganglion development, and semaphorin-plexin signaling. There are also transcription-related terms and receptor tyrosine kinase signaling present, but the predominant theme is neural development and axon guidance, suggesting a coherent functional grouping around neuronal wiring and development.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042795","count":1},{"id":"GO:0006367","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0007171","count":1},{"id":"GO:0071679","count":1}]},{"hash":"1803852862290942154","title":"Transcription Machinery and Ribosome Biogenesis","description":"The top GO terms cluster around transcription by RNA polymerases I, II, and III, transcription regulation/elongation/termination, and ribosome biogenesis, suggesting a module centered on transcriptional machinery and ribosome production. A couple of outlier terms (adult somatic muscle development and MyD88-TLR4 signaling) are less coherent with this theme, so the overall label focuses on the core transcription and ribosome assembly functions. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007527","count":2},{"id":"GO:0035660","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0006354","count":1},{"id":"GO:0070893","count":1}]},{"hash":"494114638493281823","title":"Rho GTPase\u2013driven actin cytoskeleton remodeling","description":"The cluster\u2019s top GO terms cluster around actin cytoskeleton organization and activation/regulation of Rho family GTPases, plus signaling that controls cytoskeletal dynamics and cell spreading; translation and neural development terms are present but secondary, supporting a primary theme of Rho-mediated cytoskeleton remodeling (likely with neuronal context). ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0030036","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0090630","count":2},{"id":"GO:0035023","count":2}]},{"hash":"1628029322638889422","title":"Ubiquitin-regulated NF-kappaB and JNK signaling","description":"The cluster\u2019s top GO terms point to ubiquitin-dependent processes (autoubiquitination, proteasomal catabolism, and ubiquitin tagging) alongside regulation of key signaling pathways (JNK cascade and NF-kappaB activation/transcription). This combination suggests a cohesive theme of ubiquitin-mediated control of NF-kappaB and JNK signaling, affecting transcriptional regulation. Some older/obsolete terms appear, but the core pattern centers on ubiquitin-dependent regulation of these pathways.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0046328","count":4},{"id":"GO:0051865","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0051092","count":3}]},{"hash":"947142344326356732","title":"Golgi trafficking and inheritance","description":"Enrichment is dominated by Golgi-related terms: Golgi localization (3), Golgi inheritance (2), and vesicle transport to/from the Golgi (anterograde and retrograde; 2 counts each). This suggests the cluster comprises proteins involved in Golgi-associated vesicle trafficking and Golgi partitioning/inheritance; a few other terms like pigmentation and cerebellar maturation are less central. ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051645","count":3},{"id":"GO:0045214","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0048490","count":2},{"id":"GO:0043473","count":2}]},{"hash":"332590016111330468","title":"Transcription Regulators and Growth Signaling","description":"The cluster's GO terms center on DNA-templated transcription, multiple signaling pathways (cAMP response, growth hormone receptor signaling, integrin signaling), and developmental processes (axon fasciculation, branching morphogenesis) as well as growth control. Together these terms point to a group of proteins that regulate gene expression and modulate signaling networks during development and tissue remodeling, rather than a single specific pathway. Hence the label reflects transcriptional regulators and growth/signaling roles.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0071320","count":2},{"id":"GO:0007172","count":2},{"id":"GO:0060396","count":2},{"id":"GO:0071226","count":2}]},{"hash":"2119126525381574416","title":"Unknown","description":"The GO terms span immune signaling, tRNA processing/modification, and diverse developmental processes (muscle, heart, fin, and lung development) with no clear shared function or connections among proteins, so there is no coherent thematic label.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:0008033","count":1},{"id":"GO:0061587","count":1},{"id":"GO:0034265","count":1},{"id":"GO:0043547","count":1}]},{"hash":"1091234193889750626","title":"Bacterial growth, sporulation, and redox metabolism","description":"The top GO terms are dominated by bacterial life-cycle and metabolic processes: FtsZ-dependent cytokinesis, sporulation, nitrate assimilation, antibiotic biosynthesis, protein heterooligomerization, and cellular oxidant detoxification, with additional redox-related oxidation-reduction notes. While a couple terms (platelet activation, viral process) may be unrelated annotations, the overall pattern points to bacterial growth, development, and redox metabolism.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0017000","count":2},{"id":"GO:0030168","count":2},{"id":"GO:0016032","count":2},{"id":"GO:0051291","count":2}]},{"hash":"195104147303648781","title":"Neuronal synaptic signaling and sensory perception","description":"Most terms point to neuronal communication: synaptic vesicle endocytosis, ionotropic glutamate receptor signaling, synaptic plasticity, olfactory learning, umami taste perception, prepulse inhibition, and intracellular signaling. A minority terms (osteoclast proliferation, cell competition) are unrelated, so the overall theme centers on neural signaling and sensory processing.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035212","count":1},{"id":"GO:0048488","count":1},{"id":"GO:0050917","count":1},{"id":"GO:0048169","count":1},{"id":"GO:0008355","count":1}]},{"hash":"1607044215941280196","title":"DNA Replication and Transcription Regulation","description":"The top GO terms point to nuclear genome processes: DNA-templated transcription, DNA replication, and regulation of DNA topoisomerase activity, supported by phosphorylation-related signaling. Additional terms related to stress responses (cellular response to gamma radiation and amyloid-beta) align with a DNA damage response context, while a few biosynthetic terms (heme/chlorophyll biosynthesis) are less central and may reflect broader metabolic annotations. Overall, the dominant theme is transcription and DNA replication/regulation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033138","count":2},{"id":"GO:0071480","count":2},{"id":"GO:0006351","count":2},{"id":"GO:2000373","count":2},{"id":"GO:0006783","count":1}]},{"hash":"178652212726152144","title":"Embryonic organ morphogenesis","description":"These proteins collectively map to multiple embryonic development and tissue morphogenesis processes (eye, hindlimb, heart, placenta, male gonad, prostate glandular acinus, habenula, etc.), suggesting a cohesive role in coordinating organogenesis. The mix of morphogenesis terms plus a regulatory term (negative regulation of transcription by RNA polymerase II) implies involvement in developmental gene regulation. Overall, the cluster appears to represent broad embryonic morphogenesis programs rather than a single tissue-specific function.","confidence":"Medium","size":23,"edges":7,"triangles":1,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048048","count":9},{"id":"GO:0000122","count":8},{"id":"GO:0035116","count":7},{"id":"GO:0003148","count":7},{"id":"GO:0008584","count":7}]},{"hash":"2287689706822465106","title":"Developmental signaling and cell fate regulation","description":"The top GO terms point to broad developmental roles: multicellular organism development, glial and oocyte-related cell fate specification, and cell migration, along with regulation of signaling pathways (notably Wnt) and apoptosis/proliferation. While there are some tissue-specific terms (heart rate regulation, ventricular action potential, pain perception), the common thread appears to be control of developmental processes and cell fate through signaling and migration. Hence the label reflects a module of developmental regulation and signaling rather than a single tissue-specific function.","confidence":"Medium","size":23,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0043065","count":9},{"id":"GO:0008285","count":7},{"id":"GO:0016477","count":7},{"id":"GO:0090090","count":7},{"id":"GO:0030720","count":6}]},{"hash":"1250012982543956415","title":"TLR-NF-kB Innate Immunity","description":"The top GO terms point to toll-like receptor signaling and NF-kB pathway activation (I-kappaB phosphorylation), interferon production, and TLR6 signaling, suggesting a cluster centered on innate immune recognition and response. A couple of terms about cilium assembly and trophoblast differentiation appear, but the dominant theme is innate immune signaling via TLRs.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":2},{"id":"GO:0060271","count":2},{"id":"GO:0007169","count":1},{"id":"GO:1905289","count":1},{"id":"GO:0061290","count":1}]},{"hash":"54896044834745115","title":"Cysteine biosynthesis and sulfur metabolism","description":"The top GO terms cluster around cysteine biosynthesis via transsulfuration, hydrogen sulfide production, and related sulfur-containing amino acid pathways (with supporting signals for threonine biosynthesis), indicating a core focus on sulfur metabolism. Some unrelated terms (fatty acid biosynthesis, cyanide metabolism, morphine response) may reflect broader metabolic context or annotations, but the dominant theme is sulfur amino acid biosynthesis.","confidence":"High","size":23,"edges":211,"triangles":1094,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019343","count":7},{"id":"GO:0042866","count":7},{"id":"GO:0019346","count":7},{"id":"GO:0070814","count":7},{"id":"GO:0055114","count":6}]},{"hash":"1265849479583128507","title":"Immune receptor signaling and NF-kappaB regulation","description":"The cluster is dominated by immune signaling terms, including T cell receptor signaling and Fc-epsilon receptor signaling, indicating activation of adaptive/allergic-type immune responses. Coupled with NF-kappaB\u2013related terms (canonical NF-kappaB signaling, NF-kappaB transcription factor activity) and apoptosis/proliferation processes, this suggests a coherent module of immune activation, survival, and proliferative signaling. Some cell-cycle terms may reflect activation-associated proliferation or cross-annotation, but the core theme centers on immune receptor signaling and NF-kappaB\u2013driven outcomes.","confidence":"Medium","size":23,"edges":30,"triangles":26,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":7},{"id":"GO:0000086","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0038095","count":6},{"id":"GO:0043123","count":6}]},{"hash":"1325324743864408922","title":"Actin Dynamics and Membrane Trafficking in Phagocytosis","description":"This cluster centers on actin cytoskeleton remodeling, membrane domain organization, and vesicle trafficking linked to phagocytosis and cell migration, as reflected by terms like phagocytosis signaling, actin filament regulation, pigment/granule transport, and membrane repair. Some terms (DNA replication, glomerular filtration) are less connected but do not override the dominant theme. ","confidence":"Medium","size":23,"edges":57,"triangles":0,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:1903923","count":3},{"id":"GO:1903919","count":3},{"id":"GO:0046663","count":3},{"id":"GO:0051904","count":3}]},{"hash":"1647544512565161668","title":"Cytoskeletal dynamics and cell migration regulation","description":"The cluster is dominated by terms related to cell migration and cytoskeletal remodeling (cell migration, positive regulation of pseudopodium assembly) and signaling controls (positive regulation of GTPase activity, negative regulation of canonical Wnt signaling) that influence proliferation and apoptosis, suggesting a core theme of movement and cytoskeletal dynamics governed by signaling pathways. Additional terms on calcium regulation and oxidant detoxification reflect associated cellular stress and signaling contexts but do not override the migration-centric core.","confidence":"High","size":23,"edges":10,"triangles":7,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016477","count":5},{"id":"GO:0043065","count":5},{"id":"GO:0090090","count":5},{"id":"GO:0008285","count":5},{"id":"GO:0098869","count":4}]},{"hash":"224448833744545963","title":"Embryonic development and morphogenesis","description":"Enriched for embryonic development and morphogenesis, including left-right patterning, cartilage formation, placental and endocrine lineage differentiation, and EMT-related processes, suggesting a developmental tissue morphogenesis theme. Some terms (mRNA splicing, adenine transport) are more general cellular functions but do not override the main pattern.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":3},{"id":"GO:0006919","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0060536","count":2}]},{"hash":"2212248363510156318","title":"Developmental Growth and Transcriptional Regulation","description":"Developmental growth is clearly reflected by midbrain development, post-embryonic development, and multicellular organism growth terms. The presence of negative regulation of transcription by RNA polymerase II suggests a regulatory layer controlling gene expression during development. Some terms related to immune signaling and extracellular remodeling appear peripherally, indicating additional signaling and structural remodeling connections, but the dominant theme centers on development and transcriptional control.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030901","count":10},{"id":"GO:0000122","count":10},{"id":"GO:0009791","count":9},{"id":"GO:0035264","count":9},{"id":"GO:0045752","count":8}]},{"hash":"2211904739198386100","title":"Embryonic morphogenesis and patterning (mesoderm)","description":"This cluster centers on developmental processes across multiple tissues, including mesoderm development, kidney morphogenesis, hair follicle morphogenesis, and left-right pattern formation, with several terms indicating endocardial cushion EMT and placenta-related differentiation. Together these indicate a cohesive theme of embryonic tissue morphogenesis and patterning, with some ancillary cellular processes (DNA replication, unfolded protein response, proteoglycan biosynthesis) that support development.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0060993","count":2},{"id":"GO:0015012","count":2},{"id":"GO:0034620","count":2}]},{"hash":"1940346400551469868","title":"Spliceosome-Mediated mRNA Processing and Regulation","description":"The cluster is dominated by GO terms related to mRNA splicing (cis splicing, splice site recognition, spliceosome-mediated regulation) and post-transcriptional control (mRNA stability during stress) plus translation initiation complex formation, indicating a cohesive role in RNA processing and regulation of gene expression at the post-transcriptional level, with some ncRNA-mediated silencing involvement.","confidence":"High","size":23,"edges":48,"triangles":7,"max_degree":16,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":6},{"id":"GO:0048026","count":5},{"id":"GO:0045292","count":4},{"id":"GO:0010610","count":4},{"id":"GO:0048025","count":4}]},{"hash":"2243025929611065054","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034446","count":2},{"id":"GO:0010976","count":2},{"id":"GO:0006897","count":2},{"id":"GO:1990314","count":2},{"id":"GO:0042403","count":2}]},{"hash":"1847087131567050034","title":"Unknown","description":"The top GO terms span transcriptional regulation, multiple developmental processes (midbrain and digestive system), and diverse immune and extracellular matrix activities (Toll signaling, complement activation, neutrophil killing, elastin catabolism, fibrinolysis), plus metabolic response and proliferation regulation. There isn\u2019t a single unifying function or pathway clearly tying these terms together, and the cluster shows no internal edges, suggesting heterogeneity rather than a cohesive module. Therefore, a precise, representative label cannot be confidently assigned.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0030901","count":10},{"id":"GO:0055123","count":8},{"id":"GO:0045752","count":7},{"id":"GO:0060309","count":7}]},{"hash":"2116948606900764594","title":"Diverse developmental and signaling processes","description":"The top GO terms cover development across tissues (skeletal muscle, nervous system, distal tubule morphogenesis), signaling contexts (B cell receptor signaling), and related regulatory and cellular processes, indicating a broad, heterogeneous set rather than a single cohesive function. Thus the label reflects a general theme of development and signaling across contexts rather than a specific pathway.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":4},{"id":"GO:0019046","count":3},{"id":"GO:0072156","count":3},{"id":"GO:2000312","count":3},{"id":"GO:0035853","count":3}]},{"hash":"540315438161429631","title":"Germ cell development and stress-responsive transcription","description":"The terms strongly point to germ cell development (male gonad development, spermatogenesis) with supporting signals of transcriptional regulation (DNA-templated transcription) and chromatin modification (histone methylation) as well as protein regulation (ubiquitination). The presence of cellular stress responses (cadmium, hydrogen peroxide, ER stress) suggests this cluster reflects how germ cell development is coupled with stress-induced changes in gene expression, rather than a single, narrow pathway. Confidence: Medium","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":3},{"id":"GO:0008584","count":2},{"id":"GO:0007283","count":2},{"id":"GO:0070301","count":2},{"id":"GO:0070979","count":2}]},{"hash":"1261746352414394666","title":"Reproductive Development Signaling","description":"The top GO terms span both reproductive processes (negative regulation of sperm binding to zona pellucida; prevention of polyspermy; response to follicle-stimulating hormone) and developmental events (maternal specification of dorsal/ventral axis; embryonic morphogenesis; nematode cuticle molting; pharyngeal pumping; TGF-beta receptor complex assembly). This suggests the cluster captures general regulators of development and reproduction rather than a single pathway, hence a broad label that emphasizes signaling in these contexts.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000360","count":2},{"id":"GO:0060468","count":2},{"id":"GO:0006508","count":1},{"id":"GO:0018996","count":1},{"id":"GO:0007313","count":1}]},{"hash":"1054314819081785161","title":"Blood Coagulation and Fibrinolysis Regulation","description":"Based on the GO terms, the proteins cluster around hemostasis, with direct enrichment for blood coagulation and positive regulation of fibrinolysis, complemented by signals related to hypoxia response and growth factor signaling (HGF). While there are additional regulatory terms (e.g., IL-6 production, extrinsic apoptotic signaling) that hint at broader inflammatory and survival contexts, the core theme is coagulation/fibrinolysis regulation and associated vascular signaling.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":2},{"id":"GO:0033137","count":1},{"id":"GO:0032715","count":1},{"id":"GO:0060665","count":1},{"id":"GO:0035729","count":1}]},{"hash":"1625335745669574727","title":"Wnt signaling and innate immunity","description":"Dominant GO term is Wnt signaling, supported by development-related terms (midbrain development, angiogenesis) and innate immune functions (complement activation, defense against fungus, neutrophil killing). This pattern suggests proteins that participate in developmental signaling with roles in tissue remodeling and immune responses. The themes are broad but center on signaling linked to development and immune defense.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":8},{"id":"GO:0000122","count":7},{"id":"GO:0030901","count":6},{"id":"GO:0006958","count":6},{"id":"GO:0001867","count":6}]},{"hash":"2165172613043418162","title":"Interferon-Driven Antiviral Innate Response","description":"This cluster is dominated by GO terms related to innate immune signaling and antiviral defense, including cellular response to type I interferon, cellular response to exogenous dsRNA, and innate immune response, suggesting a core function in interferon-mediated antiviral responses. Some terms about cell division and sex differentiation appear but are less central to the cluster\u2019s main theme. Confidence: Medium","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071357","count":2},{"id":"GO:0046661","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0007091","count":2}]},{"hash":"1296519260281069106","title":"Neuronal Synapse Regulation and Sensory Perception","description":"The top GO terms cluster around synaptic function (positive regulation of synapse assembly, regulation of synaptic activity, neurotransmitter secretion) and sensory perception (detection of touch, pain, temperature) with related environmental responsiveness (pH, ionic transport). A few terms are peripheral (tracheal system clearance, baroreceptor-related regulation), but the dominant signal points to neural signaling and sensory modulation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":2},{"id":"GO:0060025","count":1},{"id":"GO:0035002","count":1},{"id":"GO:0035725","count":1},{"id":"GO:0071467","count":1}]},{"hash":"763299637166287587","title":"Hormone and vitamin metabolism","description":"The cluster shows strong enrichment for metabolic processes of vitamins A (retinal/retinol) and ascorbic acid, along with biosynthesis of steroids (progesterone, testosterone) and signaling hormones (thyroid hormone, norepinephrine). Added emphasis on water balance (renal water homeostasis, response to water deprivation) and male gonad development further points to coordinated endocrine regulation of metabolism and reproduction. Overall, the proteins likely participate in hormone- and vitamin-related metabolic pathways rather than a single isolated function.","confidence":"High","size":22,"edges":103,"triangles":335,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0042574","count":13},{"id":"GO:0042572","count":13},{"id":"GO:0009414","count":11},{"id":"GO:0042448","count":7},{"id":"GO:0019853","count":7}]},{"hash":"1797589640679755535","title":"RNA processing and translation initiation","description":"These proteins cluster around RNA maturation and export (mRNA splicing, export, tRNA processing, rRNA maturation) and the initiation/reinitiation steps of translation (preinitiation complex formation, regulation of initiation, IRES-dependent initiation, and reinitiation), including viral translation contexts. The shared theme is RNA processing coupled with translation initiation control.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0045292","count":5},{"id":"GO:0006406","count":4},{"id":"GO:0008033","count":4},{"id":"GO:0030490","count":4},{"id":"GO:0001731","count":4}]},{"hash":"678298105820430208","title":"Cerebellar development and signaling","description":"This cluster is dominated by cerebellar-related development terms (Bergmann glial cell differentiation; cerebellar cortex formation) and key signaling pathways (insulin receptor signaling; T cell receptor signaling), with additional links to cell cycle regulation and axon regeneration. The shared theme appears to be proteins involved in neural development and broader signal transduction processes, with cerebellar development as a prominent cue.","confidence":"Medium","size":22,"edges":175,"triangles":865,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034501","count":14},{"id":"GO:0045736","count":14},{"id":"GO:2001275","count":12},{"id":"GO:0008286","count":12},{"id":"GO:0060020","count":12}]},{"hash":"1900390474442543741","title":"Cytokine signaling and immune chemotaxis","description":"This cluster shows strong representation of immune-related GO terms: IL-4 production, B cell tolerance regulation, type IV hypersensitivity, and chemotaxis, along with responses to VEGF and prostaglandin (inflammatory mediators). These suggest coordinated cytokine signaling and leukocyte migration, i.e., immune activation and chemotaxis. Some terms (cold acclimation, centrosome separation) are less related and may reflect broader cellular processes, but the predominant theme is immune/inflammatory signaling.","confidence":"Medium","size":22,"edges":178,"triangles":782,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001402","count":21},{"id":"GO:0035924","count":21},{"id":"GO:0071380","count":21},{"id":"GO:0001806","count":21},{"id":"GO:1905050","count":21}]},{"hash":"1309752299028339920","title":"Antiviral defense via ubiquitin signaling","description":"The cluster centers on defense against viruses and on ubiquitin-mediated regulation of signaling pathways, including K48-linked ubiquitination and autoubiquitination, as well as NF-kappaB and JNK activation. Glucose metabolism and some obsolete terms appear as noise but do not overshadow the antiviral-ubiquitination theme.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":3},{"id":"GO:0006006","count":2},{"id":"GO:0031030","count":2},{"id":"GO:0070936","count":2},{"id":"GO:2000620","count":2}]},{"hash":"2037191068509832429","title":"Development and Stress-Response Signaling","description":"An integration of apoptotic processes and ER-stress\u2013related signaling with developmental pathways (multicellular and skeletal system development), plus transcriptional regulation and cellular stress responses (cadmium, glucose limitation, bacterial defense), suggesting a network linking development with stress-induced apoptosis and gene expression programs.","confidence":"Medium","size":22,"edges":6,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0006349","count":4},{"id":"GO:0001501","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0050830","count":4}]},{"hash":"2065574317681280818","title":"Developmental Signaling and Neural Development","description":"The terms span neural development (long-term synaptic potentiation, neural tube patterning), cardiac/mesoderm development (heart development, mesoderm formation), and broad signaling/regulatory processes (parathyroid hormone response, B cell receptor signaling, negative regulation of kinase activity, proteostasis). This suggests a cluster of proteins involved in development with regulatory signaling roles, rather than a single narrow function.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060291","count":4},{"id":"GO:0006260","count":3},{"id":"GO:0071374","count":3},{"id":"GO:0006469","count":3},{"id":"GO:1901621","count":3}]},{"hash":"1494415329064652620","title":"Yeast Nutrient Transport and Growth Signaling","description":"This cluster centers on membrane transport of nutrients and ions (glucose, myo-inositol, pantothenate, biotin, sodium export), suggesting a theme of nutrient uptake and ion homeostasis. The presence of growth-related terms (pseudohyphal growth) and stress-related responses (unfolded protein response) alongside DNA replication hints at a growth-regulation context in a yeast system, tying the transport activities to growth and stress signaling.","confidence":"Medium","size":22,"edges":11,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0007124","count":2},{"id":"GO:0008292","count":1},{"id":"GO:0015798","count":1}]},{"hash":"935913368384887491","title":"Neuronal Development and Signaling","description":"The cluster shows enrichment for nervous system development terms, including nervous system and hippocampus development, sensory perception of sound, and neurotrophin receptor signaling, pointing to neuronal differentiation and signaling as a core theme. It also includes hippo signaling and heart development terms, plus apoptosis, suggesting broader developmental and cell fate regulatory connections that can intersect with neural pathways.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0021766","count":2},{"id":"GO:0035329","count":2},{"id":"GO:0048011","count":2}]},{"hash":"1029247584959018180","title":"Eye and neural development transcriptional regulation","description":"This cluster centers on transcription by RNA polymerase II and its negative regulation, indicating transcriptional control as a core function. It also shows strong signals for eye development and neural tissue morphogenesis (camera-type eye development, embryonic eye morphogenesis, retina development, dorsal spinal cord, midbrain, pituitary), suggesting proteins that regulate gene expression during eye and neural development and related organogenesis.","confidence":"High","size":22,"edges":65,"triangles":21,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":10},{"id":"GO:0000122","count":8},{"id":"GO:0043010","count":7},{"id":"GO:0060441","count":7},{"id":"GO:0031018","count":7}]},{"hash":"2206691820996986732","title":"Cardiometabolic Development and Insulin Signaling","description":"This cluster combines developmental programs (heart development, placenta development, multicellular organism development) with metabolic signaling (insulin receptor signaling, fat cell differentiation). The inclusion of DNA-templated transcription and cell cycle checkpoint terms supports coordinated gene expression during organogenesis and tissue differentiation, while Wnt signaling regulation and neutrophil clearance suggest broader regulatory interactions. Overall, it points to a developmental program with integrated insulin-responsive metabolic regulation, particularly in cardiometabolic tissues.","confidence":"High","size":22,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0007275","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0001890","count":6},{"id":"GO:2001275","count":6}]},{"hash":"132597815630788054","title":"Neuronal synaptic signaling and junction organization","description":"This cluster\u2019s top GO terms center on neuronal communication and junction integrity, including exocytosis, long-term synaptic depression, and retrograde trans-synaptic signaling by nitric oxide, along with paranodal junction maintenance and zonula adherens assembly. Together these suggest a cohesive theme of synaptic signaling and maintenance of neuronal cell junctions, with additional but less defining processes like autophagy and general transport present. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030263","count":2},{"id":"GO:0030242","count":1},{"id":"GO:0006810","count":1},{"id":"GO:0050826","count":1},{"id":"GO:0035750","count":1}]},{"hash":"1372932095319810279","title":"SRP-dependent protein targeting and neuronal transport","description":"The cluster is dominated by GO terms for SRP-dependent cotranslational targeting to membranes, plus microtubule-based movement and intracellular transport. The presence of neuron projection morphogenesis and nervous system development suggests this transport and targeting activity is relevant in neural contexts, linking nascent protein targeting to membrane with subsequent intracellular trafficking in neurons. Some terms related to viral transport reflect general transport machinery, not contradicting the core theme. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006614","count":1},{"id":"GO:0006617","count":1},{"id":"GO:0006616","count":1},{"id":"GO:0000278","count":1},{"id":"GO:0048812","count":1}]},{"hash":"1560704132539631548","title":"Angiogenesis and placental vascular development","description":"This cluster shows multiple terms tied to blood vessel formation and placental vascular development (positive regulation of angiogenesis, placenta blood vessel development, placental branching morphogenesis), with supporting cardiovascular context (blood pressure regulation by natriuretic peptide). While immune and neural regulation terms are present, the strongest signal centers on vascular/placental development.","confidence":"Medium","size":22,"edges":17,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:2000312","count":2},{"id":"GO:0045766","count":2},{"id":"GO:0003050","count":2},{"id":"GO:0048168","count":2},{"id":"GO:0060672","count":2}]},{"hash":"1721179465809716252","title":"Synaptic Assembly and Neuronal Signaling","description":"The cluster\u2019s terms center on synapse maintenance and assembly, motor learning, and neuronal signaling via GPCR pathways and potassium transport, suggesting roles in synaptic formation/plasticity and related signaling. A few terms (angiogenesis, macrophage regulation) are less directly tied to neural synapses but do not negate the core theme.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016525","count":4},{"id":"GO:0010573","count":3},{"id":"GO:0099558","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0061743","count":3}]},{"hash":"2254733099941153049","title":"Embryonic organ development and innate immune signaling","description":"This cluster combines organ morphogenesis terms (cartilage condensation, metanephric development) with innate immune processes (complement activation lectin pathway, leukocyte tethering/rolling, basophil activation, phagocytosis recognition) and immune sensing. The co-occurrence suggests proteins involved in tissue remodeling during development that also engage immune signaling and cell\u2013cell interactions essential for organ formation and immune cell dynamics. Overall, the label captures both developmental and innate immune functions represented in the set.","confidence":"Medium","size":22,"edges":19,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001502","count":5},{"id":"GO:0071226","count":5},{"id":"GO:0001867","count":5},{"id":"GO:0072218","count":5},{"id":"GO:2000502","count":4}]},{"hash":"294482217093924526","title":"Unknown","description":"This cluster shows a mix of GO terms across immune defense (defense response to Gram-positive bacteria; complement activation), gene regulation (DNA-templated transcription; histone methylation), RNA processing (mRNA transport), protein activity regulation (GTPase and serine/threonine kinase activity), and developmental processes (growth, fertilization). With no connecting pathway or cohesive function and no edges, there isn\u2019t a single interpretable theme linking these proteins, so a precise label cannot be assigned.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050830","count":6},{"id":"GO:0006351","count":4},{"id":"GO:0001867","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1172190068541738202","title":"Synaptic vesicle trafficking and endocytosis","description":"Reasoning: The dominant GO terms cluster around vesicle transport and membrane dynamics in neurons, including anterograde synaptic vesicle transport, endocytosis, and intralumenal vesicle formation. The presence of GTPase activity regulation and plasma membrane tubulation supports roles in trafficking and membrane remodeling, consistent with a cohesive functional module in synaptic vesicle cycling. Some outliers (e.g., NF-kappaB related regulation and lymph node development) appear less central to the cluster\u2019s core function.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048490","count":2},{"id":"GO:1902187","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0097320","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1247933072711926121","title":"Cerebellar glutamatergic signaling and cGMP","description":"This cluster centers on neuronal signaling components: glutamatergic synaptic transmission and excitatory postsynaptic potentials, cerebellar cortex development, and signaling pathways involving receptor guanylyl cyclase and cGMP biosynthesis. The convergence of these GO terms suggests a module focused on cerebellar glutamatergic synapses and cGMP-mediated signaling, with some ancillary terms reflecting broader neuronal signaling and development.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071361","count":2},{"id":"GO:0035556","count":2},{"id":"GO:1900194","count":2},{"id":"GO:0007168","count":2},{"id":"GO:0097011","count":2}]},{"hash":"1216095421002423978","title":"Innate Immunity: Complement and Coagulation","description":"The cluster is dominated by GO terms for complement activation (lectin and classical pathways) and coagulation (blood coagulation and its positive regulation), with supporting terms like neutrophil-mediated killing of bacteria. This points to innate immune defense coupled with hemostatic/tissue remodeling processes, making \u201cInnate Immunity: Complement and Coagulation\u201d a concise, representative label. Some developmental terms appear, but they are less central to the main theme here.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":8},{"id":"GO:0000122","count":7},{"id":"GO:0030574","count":7},{"id":"GO:0030901","count":7},{"id":"GO:0007596","count":7}]},{"hash":"1507926252728268048","title":"Cell Cycle and Nuclear Transport","description":"This cluster is characterized by mitosis-related terms (sister chromatid cohesion and segregation, spindle regulation) alongside nuclear transport themes (nuclear pore localization and viral mRNA export), with additional signals pointing to ciliary transport and differentiation processes. The dominant pattern suggests proteins involved in coordinating cell division with nuclear/ciliary transport pathways, justifying a label centered on cell cycle and nuclear transport functions. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046784","count":3},{"id":"GO:0007064","count":3},{"id":"GO:0008284","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0035721","count":2}]},{"hash":"166853431122502713","title":"Coagulation and endothelial barrier regulation","description":"The cluster shows strong representation of blood coagulation, fibrinolysis, acute-phase response, and regulation of endothelial barrier establishment, indicating a vascular/hemostasis\u2013focused module. A spliceosome-related term appears among the top terms but does not define the overall theme, which remains coagulation and endothelial regulation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0031214","count":3},{"id":"GO:0042730","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0007596","count":2}]},{"hash":"1862091535099470551","title":"Developmental Processes and RNA Processing","description":"The top GO terms cluster around development: osteoblast differentiation, skeletal system development, multicellular organism development, neuron projection development, and related processes, plus signs of cell proliferation and fertilization. A smaller set relates to RNA processing and translation initiation (mRNA splicing via spliceosome, translation reinitiation, formation of translation preinitiation complex). The combination suggests a cluster centered on developmental differentiation with concurrent regulation of gene expression at RNA/protein levels, hence the label.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001649","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0000973","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0001501","count":2}]},{"hash":"2252053069854965085","title":"Unknown","description":"The top GO terms span apoptosis regulation, hormone signaling (FSH, GnRH), development (heart/kidney structures), mating and behavioral responses, calcium regulation, and immune cytokine production, with no clear shared process or pathway. There are no edges or cohesive connections among terms, suggesting no single representative function for the cluster.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001236","count":1},{"id":"GO:0032354","count":1},{"id":"GO:0007181","count":1},{"id":"GO:0048149","count":1},{"id":"GO:0072221","count":1}]},{"hash":"2209603291897553461","title":"Glycosylation-driven cell-wall polysaccharide biosynthesis","description":"The top GO terms point to arabinogalactan protein metabolism, multiple glycosylation pathways (O-linked hydroxyproline glycosylation, poly-N-acetyllactosamine, Lewis A epitope biosynthesis), and mucilage/seed coat polysaccharide biosynthesis, all central to cell-wall glycoprotein formation. This suggests a shared function in glycan processing and assembly of extracellular matrix components, typical of plant cell-wall biosynthesis and surface-related development. Some developmental terms (root hair development, follicle cell adhesion) further support a role for cell-surface glycoproteins in morphogenesis, reinforcing the glycosylation/cell-wall focus of this cluster.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":5},{"id":"GO:0080147","count":4},{"id":"GO:0010405","count":4},{"id":"GO:0010493","count":4},{"id":"GO:0042248","count":4}]},{"hash":"124399215118282054","title":"Neural and inner ear development via MAPK signaling","description":"This cluster's top GO terms revolve around nervous system development, inner ear development, and synapse assembly, with consistent involvement of ERK/MAPK signaling (including positive regulation of ERK cascade). The presence of excitatory postsynaptic potential and response to cocaine supports a neural signaling and synaptic connectivity theme, particularly in auditory structures (labyrinthine layer) and related developmental processes. Overall, the shared emphasis on neural/ear development and MAPK pathway regulation best explains the cluster.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007399","count":7},{"id":"GO:0048839","count":7},{"id":"GO:0051965","count":7},{"id":"GO:0000187","count":7},{"id":"GO:0042220","count":7}]},{"hash":"973475644851400108","title":"Nervous system development and axon guidance","description":"This cluster is dominated by neural-development related GO terms, including axon guidance (semaphorin-plexin signaling), axonal fasciculation, and trigeminal nerve organization, along with melanocyte migration and myoblast fusion, which are processes associated with neural crest\u2013derived tissues and muscle-nerve interactions. ECM and signaling terms (collagen fibril organization, ERK cascade regulation) support development and tissue patterning. Some terms like molting cuticle are outliers, but the core pattern points to nervous system development and axon pathfinding.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018996","count":3},{"id":"GO:0007413","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0036151","count":3},{"id":"GO:0050830","count":3}]},{"hash":"53736724339984928","title":"Cardiovascular Coagulation and Angiogenesis","description":"The top GO terms point to blood coagulation, fibrinolysis, acute-phase/inflammatory responses, and positive regulation of angiogenesis, along with heart-related processes such as left ventricular morphogenesis and collagen biosynthesis, indicating a cohesive cardiovascular/coagulation-angiogenesis remodeling theme.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":3},{"id":"GO:0006953","count":3},{"id":"GO:0042730","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0032930","count":2}]},{"hash":"125717073950295418","title":"Organogenesis and Developmental Signaling","description":"These proteins cluster around developmental events spanning nervous system, brain, heart, and kidney formation, with several entries tied to established signaling pathways such as Smoothened/Hedgehog and small GTPase\u2013mediated signaling. Additional terms like epithelial cell polarity and calcium-dependent exocytosis point to morphogenetic processes tied to tissue organization. PI biosynthesis regulation may reflect membrane signaling dynamics that support development. Collectively, the terms suggest a module involved in organogenesis through developmental signaling rather than a single tissue-specific function.","confidence":"Medium","size":21,"edges":112,"triangles":266,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":14},{"id":"GO:0001822","count":13},{"id":"GO:0007224","count":13},{"id":"GO:0007507","count":12},{"id":"GO:0045956","count":11}]},{"hash":"131497375275128729","title":"Chromatin regulation and transcription control","description":"The top GO terms converge on chromatin dynamics (nucleosome assembly, histone methylation) and transcriptional control (negative regulation of RNA Pol II), suggesting a core function in chromatin-based gene regulation. The other terms reflect downstream or context-dependent processes (xenobiotic response, sterol metabolism, Rho signaling, heart development, T cell activation) that can be influenced by chromatin state, but do not override the central theme. Confidence in this label is Medium.","confidence":"","size":21,"edges":13,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0016126","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0006334","count":2},{"id":"GO:0080182","count":2}]},{"hash":"1840224111597813733","title":"Immune cytokine signaling and inflammatory response","description":"The cluster shows strong enrichment for immune-related terms: IL-4 production, positive regulation of B cell tolerance induction, type IV hypersensitivity, chemotaxis, and responses to VEGF and prostaglandin E, all pointing to cytokine-driven immune and inflammatory signaling. While a few terms (cold acclimation, filamentous growth signaling) are less directly connected, the dominant pattern centers on immune activation and inflammatory pathways, including chemotaxis and endothelial/vascular signaling. ","confidence":"Medium","size":21,"edges":112,"triangles":208,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001402","count":21},{"id":"GO:0035924","count":21},{"id":"GO:0071380","count":21},{"id":"GO:0001806","count":21},{"id":"GO:1905050","count":21}]},{"hash":"83743196711025220","title":"RNA silencing and processing machinery","description":"This cluster is dominated by terms for ncRNA-mediated silencing, miRNA/siRNA processing, and various RNA-processing steps (tRNA processing, splicing, translation initiation, and transcriptional regulation by RNA Pol II), suggesting a core role in RNA metabolism and gene expression control. Some unrelated terms (glucose transport, complement activation) may reflect secondary associations or multifunctional proteins.","confidence":"High","size":21,"edges":37,"triangles":2,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0035196","count":2},{"id":"GO:0030422","count":2},{"id":"GO:1904659","count":2},{"id":"GO:0042787","count":2}]},{"hash":"1900678431338063977","title":"Ubiquitin-Proteasome\u2013Mediated ER and Nuclear QC","description":"This cluster is dominated by GO terms related to protein quality control and processing via the ubiquitin-proteasome system, including ubiquitin-dependent ERAD, ER protein folding, and nuclear QC/export regulation. These terms point to a shared function in handling misfolded or regulated proteins in the endoplasmic reticulum and nucleus. Some terms (complement activation, growth, DNA replication) are less directly connected but do not overturn the core QC theme, suggesting a mixed set with central emphasis on protein homeostasis.","confidence":"Medium","size":21,"edges":42,"triangles":1,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0035264","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0071630","count":2}]},{"hash":"782137110331225114","title":"Multi-tissue development and differentiation","description":"The cluster includes GO terms for tissue morphogenesis and differentiation across bone, muscle, brain, inner ear, kidney, umbilical cord, and cardiac vessels, plus circadian and gene-expression regulation. This points to broad developmental programs shaping multiple lineages rather than a single pathway.","confidence":"Medium","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0045668","count":18},{"id":"GO:0060766","count":18},{"id":"GO:0021555","count":17},{"id":"GO:0032922","count":17},{"id":"GO:0036304","count":17}]},{"hash":"1648210130584771201","title":"Multi-substrate membrane transporters","description":"The top GO terms are all about transmembrane transport of diverse substrates (phosphate, nitrate, arabinose, sialic acid, sodium, vitamins, xenobiotics, etc.), indicating a cluster of membrane transporter proteins with broad or varied substrate specificity.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":1},{"id":"GO:0006004","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0015706","count":1},{"id":"GO:0006855","count":1}]},{"hash":"710491596874424693","title":"Skeletal Development and Wound Repair","description":"The terms cluster around cartilage/bone morphogenesis (growth plate chondrocyte morphogenesis, endochondral bone morphogenesis), tendon development, wound healing, and related cell adhesion/migration processes, pointing to skeletal tissue development and tissue repair. Some terms like lipoprotein clearance or granulocyte differentiation regulation appear less central and may reflect broader tissue homeostasis.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042060","count":2},{"id":"GO:0031104","count":1},{"id":"GO:0035989","count":1},{"id":"GO:0007155","count":1},{"id":"GO:0003429","count":1}]},{"hash":"768857816775054504","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":47,"triangles":22,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0031104","count":3},{"id":"GO:0048632","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0060528","count":3}]},{"hash":"1483259051652882838","title":"Membrane-targeting and ER translocation","description":"The top GO terms are dominated by processes related to directing proteins to membranes and the endoplasmic reticulum, including SRP-dependent cotranslational targeting, post-translational membrane targeting, and ER-to-cytosol retrograde transport, as well as ER-associated quality control. Although a few terms touch on development or signaling, the shared theme across most entries is membrane/ER protein targeting and trafficking, making this a coherent cluster label.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000060","count":1},{"id":"GO:0006616","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0031204","count":1},{"id":"GO:0030433","count":1}]},{"hash":"671821620020010668","title":"Innate host response to infection and stress","description":"The cluster shows enrichment in responses to pathogens and infection-related stimuli (response to antibiotic, LPS, viral process, symbiont entry into host cell) alongside stress and tissue responses (hypoxia, oxidative detoxification, angiogenesis in wound healing) and PI3K/AKT signaling. This combination suggests proteins functioning together in coordinating innate immune responses with cellular stress and vascular remodeling during infection or injury.","confidence":"Medium","size":21,"edges":14,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0016032","count":2},{"id":"GO:0045602","count":2},{"id":"GO:0007568","count":2}]},{"hash":"572438043272345092","title":"Angiogenesis and tissue morphogenesis with coagulation","description":"The terms show a strong emphasis on angiogenesis, growth and tissue morphogenesis (midbrain/pancreas development, biomineral tissue development), plus coagulation and fibrinolysis (plasminogen activation, blood coagulation, fibrinolysis) and even complement activation. This points to a developmental program involving vascular remodeling and extracellular matrix dynamics, with coagulation/immune components, hence the label.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":8},{"id":"GO:0000122","count":8},{"id":"GO:0035264","count":8},{"id":"GO:0030901","count":8},{"id":"GO:0061113","count":8}]},{"hash":"514647794193124050","title":"Unknown","description":"The Top Terms show a mix of tRNA modification processes (tRNA wobble thiolation; tRNA seleno-modification), a post-translational modification (protein urmylation), redox homeostasis, defense against Gram-positive bacteria, epithelial differentiation, and mitotic cell cycle terms. This broad and heterogeneous set provides no single cohesive function or pathway to bind the cluster, and some terms are obsolete, so a specific, representative label cannot be confidently assigned.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048681","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0000087","count":1},{"id":"GO:0002143","count":1}]},{"hash":"113165483811901453","title":"Vacuolar transport and metal stress response","description":"The top GO terms point to vacuolar trafficking (Golgi to vacuole transport; protein targeting to vacuole) and metal/stress-related processes (cellular response to cadmium ion; iron ion homeostasis; hypoxia). While there are transcription-related terms, the strongest signal centers on intracellular transport to the vacuole and metal-stress responses, suggesting a cluster focused on vacuolar logistics under stress conditions.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903026","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0045214","count":2},{"id":"GO:0043524","count":2},{"id":"GO:0006896","count":2}]},{"hash":"1641255293539446565","title":"Cardiovascular development and coagulation","description":"This cluster centers on terms related to heart/vasculature formation (dorsal aorta morphogenesis, endocardial cushion formation, Notch signaling regulation) and hemostasis (blood coagulation, fibrinogen regulation, fibrinolysis), suggesting a cohesive theme of cardiovascular development coupled with coagulation pathways. Some redox/detox terms appear but are secondary to the primary cardiovascular/coagulation signals.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0098869","count":5},{"id":"GO:0009750","count":4},{"id":"GO:0045746","count":4},{"id":"GO:0035912","count":4}]},{"hash":"1582839408593647047","title":"Ubiquitin-Dependent Protein Degradation","description":"The top GO terms cluster around ubiquitin-mediated protein turnover, including ubiquitin-dependent protein catabolic process, ERAD, autoubiquitination, and polyubiquitination; a few other terms reflect broader regulatory roles of ubiquitination (e.g., TNF signaling, synaptic vesicle endocytosis), but the dominant theme remains protein ubiquitination and degradation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0030433","count":3},{"id":"GO:1903265","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0000209","count":3}]},{"hash":"1487568376734772624","title":"Transcription Regulation and Differentiation Signals","description":"The cluster centers on transcription by RNA polymerase II and regulation of signaling pathways (e.g., Rho), with multiple differentiation-related terms across various tissues (face morphogenesis, smooth muscle, plasmatocyte and dendritic cell differentiation) and immune/trophic signaling (TNF, HGF, PGRP). This suggests a broad role in gene regulation coupled to developmental and differentiation cues, rather than a single specific pathway.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0060325","count":1},{"id":"GO:0071356","count":1},{"id":"GO:0051092","count":1}]},{"hash":"1569926108789953063","title":"Neuronal differentiation and synapse assembly","description":"This cluster centers on neural development: neuron differentiation (pyramidal neuron differentiation), neurogenesis, anterior/posterior axon guidance, and positive regulation of synapse assembly, plus lens fiber differentiation indicating ocular neural tissue development. The combination points to processes governing neural differentiation and the formation of synaptic connections, with cell adhesion supporting connectivity.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0070306","count":5},{"id":"GO:0043552","count":5},{"id":"GO:0007155","count":4},{"id":"GO:0021859","count":4},{"id":"GO:0033564","count":4}]},{"hash":"648839116654399964","title":"Developmental signaling and cell adhesion","description":"The top GO terms point to developmental processes (forebrain, skeletal system, skin, multicellular growth) coupled with signaling pathways (TGF-\u03b2 response, integrin signaling, B cell receptor signaling, GTPase activity, tyrosine phosphorylation) and adhesion dynamics (substrate adhesion-dependent spreading). This suggests a cohesive theme where proteins coordinate signaling and adhesion to regulate development, rather than a single narrow function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0007229","count":3},{"id":"GO:0043588","count":3}]},{"hash":"1093306956824293809","title":"Immune activation and leukocyte migration","description":"The top GO terms cluster around immune response and cell movement, including T-helper 1 cell activation/differentiation, neutrophil clearance, endothelial chemotaxis, and regulation of extrinsic apoptotic pathways (Fas signaling). A transcriptional regulation term (positive regulation of DNA binding) fits activation programs, while a few terms about motile cilium assembly or cuticle/molting may reflect annotation noise or broader motility. Overall, the cluster appears to reflect immune activation and leukocyte trafficking.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035767","count":2},{"id":"GO:0018996","count":2},{"id":"GO:2000312","count":2},{"id":"GO:0044458","count":1},{"id":"GO:0097350","count":1}]},{"hash":"396520076573207021","title":"RNA processing and actin cytoskeleton assembly","description":"The top GO terms cluster around mRNA processing, transcription, and deadenylation, together with actin-based structural terms like actin crosslink formation, actin filament network formation, and terminal web assembly, suggesting a cluster centered on RNA metabolism that is linked to cytoskeletal organization. Processing-body assembly regulation and deadenylation imply post-transcriptional control, while terminal web and actin terms point to structural dynamics; a plausible theme is coordination between RNA processing and cytoskeleton in epithelial-like contexts. The ethanol behavioral term and ubiquitin-related term are less central to the core function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000289","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006397","count":3},{"id":"GO:0051764","count":2},{"id":"GO:1902896","count":2}]},{"hash":"1758631188444643153","title":"mRNA decay and transcription elongation control","description":"The cluster is dominated by GO terms related to mRNA turnover (deadenylation, decapping, deadenylation-dependent decay, poly(A) tail shortening) and to transcription elongation by RNA polymerase II, including regulatory effects on elongation and translation. Although a few terms touch on estrogen signaling and trophectoderm differentiation, the common thread is RNA metabolism and transcriptional regulation, suggesting proteins that coordinate mRNA stability with transcriptional activity.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000290","count":1},{"id":"GO:0017148","count":1},{"id":"GO:0031087","count":1},{"id":"GO:0032968","count":1},{"id":"GO:0033147","count":1}]},{"hash":"63336386313838586","title":"Embryonic Development and Tissue Differentiation","description":"These terms span several embryonic tissues (heart, placenta, pancreas, cartilage, lens) and morphogenetic processes (EMT, patterning, differentiation), indicating a shared theme of embryonic development and tissue differentiation rather than a single tissue-specific function.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0060972","count":2}]},{"hash":"536180844023596334","title":"Plant cell wall glycoprotein glycosylation and epidermal development","description":"The top GO terms converge on plant-specific glycosylation and cell surface biology: arabinogalactan protein metabolism, hydroxyproline O-glycosylation, various glycan biosynthetic processes (Lewis A, poly-N-acetyllactosamine), mucilage/seedscoat development, and root hair cell formation. This points to a cohesive module of plant cell wall glycoproteins (AGPs) coordinating glycosylation and epidermal differentiation. Some terms are from other organisms, but the dominant signal is plant glycoprotein glycosylation coupled to cell wall\u2013associated development.","confidence":"High","size":20,"edges":74,"triangles":95,"max_degree":16,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0075015","count":8},{"id":"GO:0080147","count":6},{"id":"GO:0010405","count":6},{"id":"GO:0010493","count":6},{"id":"GO:0042248","count":6}]},{"hash":"1983260403073259626","title":"Translation Initiation and Ribosome Assembly","description":"This cluster's GO terms are dominated by translation-related processes: formation of translation preinitiation complex, cytosolic ribosome assembly, and positive regulation of EIF4F complex assembly, pointing to components of the protein synthesis machinery. A few terms touch neural/glial development (astrocyte and oligodendrocyte development) and presynaptic assembly, which may reflect multifunctional proteins rather than a single neural-specific function. Overall, the strongest shared signal centers on translation initiation and ribosome assembly, with other terms representing broader cellular roles.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":1},{"id":"GO:0010801","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0042256","count":1},{"id":"GO:1905606","count":1}]},{"hash":"655148306355394107","title":"Lymphocyte development and immune signaling","description":"The top GO terms point to immune system development and lymphocyte maturation (NK T cell differentiation, B cell affinity maturation, hemopoiesis), cytokine responses (interleukin-4 production, interleukin-7 response), and related cell migration, suggesting a cohesive theme around immune cell development and signaling. Some proliferation-related terms (telomere maintenance, CDK activity regulation) may reflect immune cell division but do not outweigh the immune emphasis.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001275","count":4},{"id":"GO:0016477","count":3},{"id":"GO:0032633","count":3},{"id":"GO:0001865","count":3},{"id":"GO:0030097","count":3}]},{"hash":"792779337414847790","title":"Unknown","description":"The terms span mitotic cell cycle, multicellular development, Schwann cell development, axonogenesis, visual perception, and other developmental or neural processes, but there is no consistent single function or shared pathway, and the cluster has no edges, so a coherent theme cannot be established. Therefore Unknown.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":14},{"id":"GO:0007275","count":13},{"id":"GO:0014044","count":13},{"id":"GO:0007601","count":13},{"id":"GO:0007409","count":13}]},{"hash":"1510968494945853413","title":"Proteostasis and nuclear-cytoplasmic quality control","description":"This cluster centers on protein quality control and maturation: ER folding, ubiquitin-proteasome\u2013mediated quality control in the nucleus, and regulation of protein export, suggesting a cohesive proteostasis module. A few terms (e.g., DNA replication, stress responses) appear less central and may reflect broader cellular maintenance rather than a single pathway.","confidence":"Medium","size":20,"edges":22,"triangles":0,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0071630","count":3},{"id":"GO:0090084","count":3},{"id":"GO:0071374","count":3},{"id":"GO:0034975","count":3}]},{"hash":"1909223463006341243","title":"Cardiac development and calcium signaling","description":"The cluster is dominated by terms related to heart development and cardiac muscle function, including outflow tract morphogenesis, left ventricular and atrial muscle morphogenesis, regulation of cardiac muscle cell action potentials, and calcium handling via release from the sarcoplasmic reticulum. The presence of Purkinje signaling and adaptations to stress (hypertrophy) further supports a theme centered on cardiac structure, electrical activity, and calcium-dependent contraction, with caffeine response aligning to calcium signaling in cardiac cells. A minority term about ossification is less central but may reflect broader developmental processes; overall the data point to heart development and excitation\u2013contraction coupling.","confidence":"High","size":20,"edges":19,"triangles":6,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:1903244","count":5},{"id":"GO:0043931","count":4},{"id":"GO:0097050","count":4},{"id":"GO:0071313","count":4}]},{"hash":"1898170770711650352","title":"mRNA splicing and transcription regulation","description":"This cluster shows strong signals for RNA processing and transcription control, with GO terms for DNA-templated transcription, mRNA splicing via the spliceosome, and regulation of alternative splicing, plus components related to translation initiation. A few viral-related terms are present but the core theme centers on RNA maturation and transcriptional regulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0039702","count":2},{"id":"GO:0001731","count":1},{"id":"GO:0006376","count":1}]},{"hash":"820741181670650733","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":10,"triangles":2,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045944","count":4},{"id":"GO:0000466","count":4},{"id":"GO:0000398","count":4},{"id":"GO:0042273","count":4},{"id":"GO:0000462","count":4}]},{"hash":"330675516166477938","title":"Unknown","description":"The terms span a mix of carbohydrate biosynthesis (lactose, cellulose, L-arabinose), protein glycosylation (O-linked via serine), secretion of extracellular matrix components, and immune or tissue remodeling processes (immunoglobulin production, wound healing, mammary gland involution). There isn\u2019t a single coherent biological theme linking these proteins, so a concise, representative label is not clear.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0005989","count":2},{"id":"GO:0075015","count":1},{"id":"GO:0070278","count":1},{"id":"GO:0018242","count":1},{"id":"GO:0036108","count":1}]},{"hash":"1247132998991438828","title":"Neurovascular development and synapse regulation","description":"The top GO terms cluster around neural and vascular development, including angiogenesis, cerebral cortex layer formation, and positive regulation of synapse assembly, with negative regulation of angiogenesis also present. These points suggest a shared theme of coordinating blood vessel formation with neural development and synaptic organization, potentially modulated by signaling pathways (GPCR signaling) and hormonal regulation (corticosterone). Some terms are more peripheral (surfactant homeostasis, sucrose response) but do not outweigh the central neurovascular/neural development pattern.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0021819","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0071329","count":3},{"id":"GO:0043031","count":3}]},{"hash":"765517379771785492","title":"TNF signaling and ubiquitin-mediated proteolysis","description":"Based on enrichment for ubiquitin-dependent proteolysis and components of TNF-mediated signaling, including NF-kappaB activation, JNK regulation, and histone ubiquitination, this cluster appears to center on inflammatory signaling coupled with ubiquitin-driven protein turnover.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:1903265","count":7},{"id":"GO:0042787","count":6},{"id":"GO:0030433","count":6},{"id":"GO:2000620","count":5},{"id":"GO:0007250","count":5}]},{"hash":"1327772654726684451","title":"RNA Processing and Translation Machinery","description":"The most represented terms center on translation initiation and ribosome biogenesis, with additional RNA processing functions such as mRNA splicing and tRNA modification. This suggests the proteins cluster around RNA metabolism and assembly of the protein synthesis machinery, making a label like Translation Initiation and RNA Processing appropriate.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0007049","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0000398","count":3}]},{"hash":"1557638936313442551","title":"Meiosis and cell cycle regulation","description":"These proteins show strong emphasis on cell division, meiosis, and cell-cycle control\u2014terms include female meiotic nuclear division, regulation of meiotic cell cycle in oocytes, mitotic sister chromatid separation, CDK activity regulation, and protein complex assembly\u2014suggesting a cohesive cluster of regulators of meiosis/mitosis rather than a specific downstream pathway. Confidence is High. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0045737","count":2},{"id":"GO:0050790","count":2},{"id":"GO:0042176","count":2},{"id":"GO:0007143","count":2}]},{"hash":"758556597179433151","title":"Mucosal lipid remodeling and innate immunity","description":"The GO terms cluster around lipid remodeling and metabolism (phosphatidylinositol and phosphatidylcholine remodeling, lipid catabolic processes, lysophospholipid transport, LDL particle remodeling) alongside innate immune functions in mucosa (innate immune response in mucosa, antibacterial humoral response). Leukotriene biosynthesis also links lipid mediators to inflammatory signaling, supporting a theme of lipid-driven mucosal immunity. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090370","count":4},{"id":"GO:0036149","count":3},{"id":"GO:0034374","count":3},{"id":"GO:0019731","count":3},{"id":"GO:0002227","count":3}]},{"hash":"1521954734342008025","title":"Proteoglycan and glycosaminoglycan biosynthesis and metabolism","description":"This cluster is dominated by GO terms for proteoglycan and glycosaminoglycan biosynthesis and metabolic processes (heparan sulfate, chondroitin/dermatan sulfate), indicating a cohesive theme around extracellular matrix glycan synthesis. Some developmental terms like chondrocyte development and ureteric bud formation echo ECM-related signaling and tissue patterning, further supporting a proteoglycan/ ECM-focused group. Overall, the proteins likely function in constructing and remodeling proteoglycan-rich matrices.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":6},{"id":"GO:0015015","count":6},{"id":"GO:0060676","count":4},{"id":"GO:0002063","count":4},{"id":"GO:0015014","count":4}]},{"hash":"657948208266817084","title":"Ciliogenesis and mitochondrial function in cochlea","description":"The strongest signals are cilium-related (cilium assembly, localization to cilium) and cochlea development, paired with mitochondrial processes (calcium homeostasis, intermembrane space import, cristae formation). This suggests a shared theme of ciliary formation together with mitochondrial dynamics in cochlear cells, possibly underpinning sensory signaling (excitatory postsynaptic potential). Some cell-cycle terms appear tangential but don\u2019t dominate the cluster\u2019s theme. Overall, a label focusing on ciliary and mitochondrial roles in the cochlea best fits the data.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0090102","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0060271","count":2},{"id":"GO:0061512","count":2}]},{"hash":"899836709426828762","title":"Osteogenesis and cytoskeletal dynamics","description":"The top GO terms are dominated by osteoblast fate commitment and bone development, indicating a primary focus on osteogenesis. Additional terms point to actin cytoskeleton remodeling (microspike and actin filament bundle assembly) and regulation of GTPase activity, suggesting coordinated cytoskeletal dynamics during bone formation. While there are a few broader development terms (adipose, uterus) and cell fusion signals, the strongest pattern centers on bone development paired with cytoskeletal remodeling.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002051","count":4},{"id":"GO:0060348","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0060378","count":3},{"id":"GO:0030035","count":3}]},{"hash":"1021078948539878385","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":4},{"id":"GO:0015015","count":4},{"id":"GO:0006044","count":3},{"id":"GO:0016310","count":3},{"id":"GO:0042403","count":2}]},{"hash":"1046202956982869025","title":"Embryonic development and placental morphogenesis","description":"The GO terms are dominated by embryogenesis-related processes (embryonic development, left/right patterning, EMT in heart development) and placental/trophoblast formation (placental morphogenesis, trophoblast giant cell differentiation), with supporting processes like cartilage and pancreatic development and autophagy. This points to a cohesive theme of early development and placental organogenesis, with smaller roles for general cellular processes. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0003198","count":3},{"id":"GO:0035270","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0060972","count":3}]},{"hash":"322390378207862897","title":"Neural Development and Axon Guidance","description":"Several top GO terms cluster around neural development and axon guidance, including commissural neuron axon guidance, branchiomotor neuron axon guidance, otic placode development, sympathetic ganglion development, and semaphorin-plexin signaling in axon guidance. Activation of transmembrane receptor protein tyrosine kinase activity provides a signaling context that can influence neural patterning. A few terms (complement activation, molting cycle) appear as unrelated annotations, but the dominant theme is neural development and axon pathfinding.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007171","count":1},{"id":"GO:0071679","count":1},{"id":"GO:0061549","count":1},{"id":"GO:0018996","count":1},{"id":"GO:0021785","count":1}]},{"hash":"1881094022138311840","title":"Mucosal lipid remodeling and innate immunity","description":"GO term convergence on lipid remodeling/metabolism, cholesterol regulation, and lipid mediators, alongside innate/mucosal immune responses, suggests a cohesive module where lipid signaling drives mucosal innate defense and inflammation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036149","count":2},{"id":"GO:0034374","count":2},{"id":"GO:0019731","count":2},{"id":"GO:0002227","count":2},{"id":"GO:0051977","count":2}]},{"hash":"458454805805867405","title":"Nucleotide Metabolism and tRNA Editing","description":"Based on the top GO terms, the cluster is enriched for nucleotide metabolism and RNA editing. Terms include UMP salvage, uridine biosynthetic process, deoxycytidine catabolic process, cytosine and guanine metabolism, and tRNA wobble adenosine to inosine editing. While there are a few outliers (riboflavin biosynthesis, prostaglandin biosynthesis, antibiotic response), the dominant signal points to nucleotide turnover and RNA modification, suggesting a cohesive theme around nucleotide metabolism and tRNA editing.","confidence":"Medium","size":19,"edges":27,"triangles":9,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":3},{"id":"GO:0044206","count":2},{"id":"GO:0009972","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0046109","count":2}]},{"hash":"1821402400689579316","title":"Unknown","description":"The terms cover extracellular matrix biosynthesis, fertilization-related zona pellucida interactions, SMAD signaling, various immune cell processes (NK regulation, leukocyte rolling, basophil activation, phagocytosis, lectin pathway), and kidney morphogenesis. There isn\u2019t a single cohesive function that ties these together, so a specific, representative label isn\u2019t reliable.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018146","count":2},{"id":"GO:0007341","count":2},{"id":"GO:0060395","count":2},{"id":"GO:2000502","count":2},{"id":"GO:0060355","count":2}]},{"hash":"1185554667606432313","title":"Nuclear chromatin dynamics and RNA processing","description":"The terms cluster around chromatin remodeling (nucleosome assembly/disassembly, histone acetylation regulation) and RNA processing (spliceosomal snRNP assembly and spliceosome catalysis), with a few related processes like protein transport and microtubule regulation. This points to a nucleus-centered program coordinating chromatin state and RNA splicing, hence the combined label.","confidence":"Medium","size":19,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007155","count":2},{"id":"GO:0000387","count":1},{"id":"GO:0000349","count":1},{"id":"GO:2000617","count":1},{"id":"GO:2000035","count":1}]},{"hash":"818856034596607076","title":"Neuronal adhesion, migration, and synapse assembly","description":"This cluster is dominated by GO terms tied to neural connectivity: cell\u2013cell adhesion (homophilic and heterophilic), synapse assembly, paranodal junctions, juxtaparanode axon localization, and neuron/interneuron migration (including olfactory bulb chemorepulsion). These indicate proteins that mediate adhesion, guidance, and organization of synapses and axon domains in the nervous system. Bone-related terms are present but appear incidental rather than central. Overall, the theme is neural adhesion, guidance, and synapse formation.","confidence":"High","size":19,"edges":18,"triangles":3,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":7},{"id":"GO:0051965","count":7},{"id":"GO:0007157","count":6},{"id":"GO:0043931","count":5},{"id":"GO:0001501","count":5}]},{"hash":"2119176592382999824","title":"Epigenetic Regulation of Gene Expression","description":"The top GO terms cluster around histone methylation and chromatin organization, with regulation of transcription and helicase activity, pointing to epigenetic control of gene expression as a unifying theme. A few terms reference developmental processes like synapse assembly and atrial septum morphogenesis, which may reflect broader tissue-specific roles of chromatin regulators.","confidence":"Medium","size":19,"edges":21,"triangles":3,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0051096","count":3},{"id":"GO:0007416","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0003290","count":2},{"id":"GO:1903758","count":2}]},{"hash":"958486435474990510","title":"DNA repair and ubiquitin-mediated protein turnover","description":"The cluster centers on genome maintenance features (DNA double-strand break processing, synaptonemal complex organization) and on protein quality control via ubiquitination and degradation pathways (N-end rule, K27-linked ubiquitination, ubiquitin-protein transferase activity), with related signals for organelle targeting and stress-induced apoptosis, suggesting a cohesive theme of DNA damage response coupled with ubiquitin-dependent turnover.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0006344","count":19},{"id":"GO:0051443","count":19},{"id":"GO:0000729","count":19},{"id":"GO:0071596","count":19},{"id":"GO:1903955","count":19}]},{"hash":"598898205163620978","title":"Diverse Transmembrane Transporters","description":"This cluster shows a common theme of transmembrane transport across many different substrates (phosphate ion, nitrate, arabinose, sialic acid, vitamins, xenobiotics, sodium ions, etc.), indicating a set of membrane transport proteins with broad or varied substrate specificity rather than a single pathway. The label emphasizes the shared function of transporting diverse molecules across membranes.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":2},{"id":"GO:0006004","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0015706","count":2},{"id":"GO:0006855","count":2}]},{"hash":"1763473074598865163","title":"Steroid and Lipid Biosynthesis","description":"The top GO terms cluster around lipid and steroid biosynthesis\u2014estrogen and testosterone production, mycolic acid and sphingolipid biosynthesis, and poly-hydroxybutyrate biosynthesis\u2014along with related lipid metabolic processes. This points to a coherent function group focused on lipid and steroid metabolism, despite a few outliers (regulation of transcription, antibiotic biosynthesis). ","confidence":"High","size":19,"edges":59,"triangles":128,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":8},{"id":"GO:0055114","count":6},{"id":"GO:0071768","count":5},{"id":"GO:0006355","count":5},{"id":"GO:0030148","count":5}]},{"hash":"1676009245164326060","title":"mRNA splicing and translation initiation regulation","description":"This cluster centers on RNA processing and translation control, with multiple GO terms for spliceosome-mediated mRNA splicing, splicing site recognition, translation initiation and reinitiation, and polyadenylation. The pattern indicates a shared function in mRNA maturation and coordinated regulation of early translation.","confidence":"High","size":19,"edges":44,"triangles":57,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":7},{"id":"GO:0048026","count":7},{"id":"GO:1901407","count":7},{"id":"GO:0006378","count":7},{"id":"GO:0001731","count":6}]},{"hash":"1991687580125053291","title":"Bone and Heart Development","description":"The GO terms are dominated by osteoblast differentiation and bone mineralization, with multiple cardiovascular development terms (coronary vasculature development, heart trabecula formation, and heart development-related Wnt signaling). This suggests the proteins collectively relate to developmental programs in skeletal and cardiac tissues, rather than a single specific pathway.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045669","count":2},{"id":"GO:0030501","count":2},{"id":"GO:1900006","count":1},{"id":"GO:0001649","count":1},{"id":"GO:0060976","count":1}]},{"hash":"825021699312788503","title":"Unknown","description":"The terms are highly diverse, spanning light-response and plant development, hormone signaling, immune-related processes, and sperm motility, with no clear shared function that unifies the cluster. There isn\u2019t a cohesive theme to assign a specific, representative label.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010099","count":1},{"id":"GO:1904667","count":1},{"id":"GO:0080022","count":1},{"id":"GO:0055121","count":1},{"id":"GO:0071435","count":1}]},{"hash":"999458232874190476","title":"Redox Homeostasis and Metabolic Processing","description":"Top GO terms cluster around redox biology (oxidation-reduction, cellular oxidant detoxification, redox homeostasis) with several metabolic processes (retinol, fructose, galactose) and stress-related responses (lipopolysaccharide). This pattern suggests a functional cluster coordinating redox balance with diverse metabolism rather than a single pathway.","confidence":"Medium","size":19,"edges":67,"triangles":105,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0032496","count":4},{"id":"GO:0042572","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0046370","count":3}]},{"hash":"1512098138811134466","title":"RNA Polymerase Complex Assembly","description":"The top GO terms strongly point to assembly of RNA polymerase complexes (I, II, III) and related core complex assembly, plus transcription elongation regulation, suggesting a shared function in assembling the transcription machinery. While a few terms touch on unrelated processes (protein folding, tubulin complex assembly), the dominant signal is RNA polymerase complex assembly.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0032968","count":1},{"id":"GO:1990115","count":1},{"id":"GO:1990113","count":1},{"id":"GO:1990114","count":1}]},{"hash":"706095029751015589","title":"Vascular Development and Coagulation Regulation","description":"The GO terms are dominated by blood coagulation processes (complement activation lectin pathway, fibrinolysis, coagulation regulation) and endothelial/vascular biology (endothelial chemotaxis, VEGF signaling, integrin-mediated adhesion, and angiogenesis regulation), with ossification hinting at bone vascularization context. Together they point to a coherent theme of blood vessel formation and its regulation, rather than a unrelated function cluster.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":3},{"id":"GO:0030194","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0016525","count":3},{"id":"GO:2001027","count":3}]},{"hash":"584830830172239691","title":"Ubiquitin-Dependent Degradation and Signaling Regulators","description":"The proteins are strongly linked to ubiquitin-mediated proteolysis (including autoubiquitination) and histone ubiquitination, with linked roles in chromatin regulation and inflammatory signaling (NF-\u03baB and JNK pathways), indicating a cohesive module of ubiquitination machinery and signaling regulators.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0051865","count":8},{"id":"GO:0036205","count":8},{"id":"GO:0085020","count":8},{"id":"GO:1903265","count":8}]},{"hash":"1819787098187222591","title":"Rho GTPase\u2013driven actin remodeling","description":"The top GO terms cluster around Rho and Rac GTPase signaling and actin cytoskeleton organization, indicating a cohesive theme of cytoskeletal dynamics governed by small GTPases. While a few peripheral terms touch on stress responses or protein quality control, the dominant signal is Rho/Rac-mediated actin remodeling, justifying this label.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0030433","count":2},{"id":"GO:1903608","count":2},{"id":"GO:0051607","count":2}]},{"hash":"450864086691408791","title":"Wnt/Ephrin Signaling in Development and Immunity","description":"Proteins in this cluster are enriched for Wnt signaling and regulation of ephrin signaling, alongside differentiation terms for immune (follicular dendritic cell) and neural (cerebellar granule cell) lineages, with supporting immune regulation and nociception terms. The strongest common theme appears to be developmental signaling coordinating immune and neural differentiation, rather than a single, narrow function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":4},{"id":"GO:1901187","count":3},{"id":"GO:0002268","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0033028","count":3}]},{"hash":"380401388113812684","title":"Unknown","description":"The top terms cover immune complement activation, collagen/cuticle processes, sensory perception, interferon production, sperm development, nematode molting and feeding, and p53-mediated apoptosis. There is no single cohesive function or pathway tying these terms together, so no specific cluster label is appropriate beyond Unknown.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":2},{"id":"GO:0030574","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0050910","count":1},{"id":"GO:0032608","count":1}]},{"hash":"1351433863354138232","title":"Embryonic morphogenesis and tissue remodeling","description":"The top GO terms point to developmental tissue patterning and morphogenesis, including epithelial-to-mesenchymal transitions, cartilage condensation, myoblast differentiation, branching and vascular morphogenesis, collagen organization, and cell adhesion. Together these indicate roles in embryonic tissue formation and remodeling rather than a single signaling pathway.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051918","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0001502","count":3},{"id":"GO:0045445","count":3},{"id":"GO:0060665","count":3}]},{"hash":"2071198188693533589","title":"Mechanotransduction and ubiquitin-regulated signaling","description":"The strongest recurring theme is signaling modulation via mechanical response (cellular response to mechanical stimulus) and post-translational control (protein ubiquitination, negative regulation of protein kinase activity). Peripheral terms (circadian regulation, development pathways, membrane remodeling) are likely noise or broader context, but overall this cluster centers on mechanotransduction and ubiquitin-linked signaling regulation.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0050853","count":1}]},{"hash":"1714680458770157746","title":"Large subunit ribosome biogenesis","description":"This cluster is driven by terms centered on the assembly and processing of the large ribosomal subunit: preribosome assembly, LSU rRNA maturation, LSU subunit export, and related cotranslational targeting. Together these indicate a cohesive function in ribosome biogenesis, with a couple of outlier terms like spermatogenesis or DNA repair that do not override the main theme.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902626","count":1},{"id":"GO:0000463","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0000466","count":1},{"id":"GO:0000055","count":1}]},{"hash":"1031822981361966165","title":"Ubiquitination and Protein Degradation","description":"The top GO terms are dominated by ubiquitin-related processes (ubiquitin-dependent protein catabolic process; protein ubiquitination; negative regulation of protein ubiquitination), suggesting the cluster centers on tagging and turnover of proteins via the ubiquitin-proteasome system. Some developmental and signaling terms are present but may reflect broader roles or secondary associations.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0016567","count":4},{"id":"GO:0072156","count":3},{"id":"GO:2000312","count":3},{"id":"GO:0035853","count":3}]},{"hash":"1331889170592826982","title":"Mucosal lipid remodeling and innate immunity","description":"The cluster\u2019s GO terms point to lipid remodeling and transport activities (phosphatidylinositol and phosphatidylcholine acyl-chain remodeling, lysophospholipid transport) alongside immune-related functions (innate immune response in mucosa, antibacterial humoral response, leukotriene biosynthesis). This combination suggests a coherent theme where lipid metabolism/remodeling intersects with mucosal innate immune signaling, with ERK cascade regulation potentially reflecting downstream signaling cross-talk. Therefore, the label captures the dominant functional theme of the cluster.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036149","count":1},{"id":"GO:0034374","count":1},{"id":"GO:0019731","count":1},{"id":"GO:0002227","count":1},{"id":"GO:0051977","count":1}]},{"hash":"1986653297007070506","title":"Plant cell wall glycan biosynthesis","description":"This cluster is enriched for glycan- and glycoprotein-related processes, especially arabinogalactan protein metabolism, poly-N-acetyllactosamine and Lewis A glycan biosynthesis, and mucilage production, all pointing to plant cell wall glycoprotein biosynthesis and extracellular matrix components. While a few terms touch on animal development, the dominant signals are plant glycan biosynthesis and AGP-associated processes, justifying the label.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":9},{"id":"GO:0080147","count":5},{"id":"GO:0010405","count":5},{"id":"GO:0010493","count":5},{"id":"GO:0042248","count":5}]},{"hash":"1954534632667010512","title":"RNA splicing and translation regulation","description":"Dominant theme: RNA processing and translation regulation. Many terms relate to splicing (spliceosome-mediated processes, splice site recognition, ncRNA-mediated silencing) and to translation control (formation of the translation preinitiation complex, viral termination-reinitiation). Some terms reference broader trafficking or development, but the core cluster centers on RNA metabolism and protein synthesis control.","confidence":"Medium","size":18,"edges":127,"triangles":522,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0006888","count":3},{"id":"GO:1990416","count":3},{"id":"GO:0001731","count":3}]},{"hash":"711874238086870285","title":"Unknown","description":"The top GO terms are scattered across viral processes, general cellular transport, endosome/vacuole sorting, cell abscission, neuronal development, and mitochondrial translation, with no single cohesive function tying them together. There is no clear shared pathway or biological theme, so a definitive label cannot be assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":1},{"id":"GO:0046745","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0009838","count":1},{"id":"GO:0048672","count":1}]},{"hash":"1453736769831369547","title":"Developmental Differentiation and Growth Signaling","description":"The proteins cluster around broad developmental processes across multiple tissues (forebrain, Schwann cells, keratinocytes, skeletal development) with links to mitotic cell cycle and insulin signaling, suggesting a shared theme of development and growth signaling rather than a single tissue-specific function. An immune defense term appears but is not defining the cluster.","confidence":"Medium","size":18,"edges":8,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050830","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0030900","count":7},{"id":"GO:0006349","count":6},{"id":"GO:2001275","count":6}]},{"hash":"1774885887090602621","title":"Unknown","description":"The top GO terms are diverse, spanning steroid biosynthesis, transcription regulation, stress responses (hypoxia), autophagosome maturation, metal ion transport, development, and chromatin-related processes, with no clear single function uniting them. The absence of edges or a cohesive shared pathway suggests no coherent theme for this cluster, so it should be labeled Unknown.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0006355","count":2},{"id":"GO:0032342","count":2},{"id":"GO:0001666","count":2},{"id":"GO:0097352","count":2}]},{"hash":"325324079718755960","title":"Translation initiation and ribosome assembly","description":"The cluster is dominated by GO terms related to translation initiation, cytoplasmic translation, and ribosome assembly (formation of preinitiation complex, maturation of SSU rRNA, and related initiation processes), indicating a cohesive set of proteins involved in assembling and initiating protein synthesis. A single outlier term exists but does not outweigh the core theme.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0002181","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0001732","count":1}]},{"hash":"2280352722275377732","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0090160","count":2},{"id":"GO:1901387","count":2},{"id":"GO:0019076","count":2},{"id":"GO:0019068","count":2}]},{"hash":"640209625180820079","title":"Biosynthesis and metabolism cluster","description":"The top GO terms are dominated by biosynthetic and metabolic processes, including antibiotic biosynthesis, menaquinone and phylloquinone biosynthesis, and fatty acid beta-oxidation, which together point to a metabolic/biosynthetic theme. While there are a few regulatory and replication terms present, the overall signal is metabolic in nature, justifying a label centered on biosynthesis and metabolism.","confidence":"Medium","size":18,"edges":71,"triangles":213,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":4},{"id":"GO:0010124","count":3},{"id":"GO:0009234","count":3},{"id":"GO:0042372","count":3},{"id":"GO:0006635","count":3}]},{"hash":"356152937171027688","title":"Ribosome Biogenesis and Translation","description":"These proteins cluster around ribosome production and function: multiple GO terms for ribosome biogenesis, ribosomal subunit export from the nucleus, maturation of SSU-rRNA, large subunit biogenesis, and translation initiation/termination indicate a coherent ribosome-related module. A couple of metabolic signaling terms (response to glucose and reduced food intake) are present but far less central. Overall, the dominant theme is ribosome assembly and translation.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0009749","count":2},{"id":"GO:0000054","count":1},{"id":"GO:0030490","count":1},{"id":"GO:0032790","count":1}]},{"hash":"1403907602201040551","title":"Unknown","description":"The top GO terms cover a mix of plant defense, signaling (Rho pathways, calcium transport), development (cell morphogenesis, nodulation), metabolism (L-serine biosynthesis, glucose response), and ion homeostasis. There is no single cohesive function tying these proteins together, suggesting the cluster may be compositionally diverse or noisy rather than a specific biological module.","confidence":"","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0007266","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0009877","count":2}]},{"hash":"53393300845592520","title":"Vertebrate eye and organ morphogenesis","description":"This cluster is dominated by vertebrate developmental and morphogenesis terms, especially eye development (camera-type eye development, embryonic eye morphogenesis) and various organ/limb morphogenesis processes (hindlimb, digestive tract, pancreas, ureteric bud branching), with neural crest migration supporting vertebrate embryogenesis; the transcription regulation term fits the gene-expression control needed during these processes. Overall, the label reflects vertebrate embryonic organogenesis centered on eye development.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0030901","count":9},{"id":"GO:0007275","count":7},{"id":"GO:0043010","count":7},{"id":"GO:0048048","count":7}]},{"hash":"726971802857012494","title":"RTK Signaling with Immune and Coagulation Pathways","description":"This cluster centers on extracellular signaling and receptor-driven communication, highlighted by activation of transmembrane receptor protein tyrosine kinases. It also includes innate immune and coagulation processes (complement activation, lectin pathway, and blood coagulation), along with calcium-responsive signaling and adhesion regulation. The overlap suggests interlinked signaling across growth, immune, and vascular/hemostatic responses, pointing to a cohesive but broad signaling hub rather than a single pathway.","confidence":"Medium","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007171","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0010812","count":1},{"id":"GO:0060739","count":1},{"id":"GO:1902042","count":1}]},{"hash":"1283248271456399690","title":"Eye and organ morphogenesis","description":"This cluster is driven by strong signals for retina and camera-type eye development (retina development, camera-type eye development, embryonic eye morphogenesis) and related organogenesis processes (epithelial tube branching in lung morphogenesis, left-right pattern formation), suggesting a broader developmental morphogenesis program with an emphasis on ocular development.","confidence":"Medium","size":18,"edges":139,"triangles":629,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":9},{"id":"GO:0060041","count":9},{"id":"GO:0043010","count":8},{"id":"GO:0060441","count":8},{"id":"GO:0048048","count":8}]},{"hash":"824128265547517754","title":"Developmental signaling and tissue differentiation","description":"The top GO terms indicate involvement in diverse developmental processes across multiple tissues (heart development, osteoblast fate, striatal neuron differentiation, hard palate development) and in signaling/trafficking mechanisms (positive regulation of GTPase activity, regulation of the JNK cascade, protein localization to lysosome, regulation of cell\u2013cell adhesion). This breadth suggests a regulatory role in development rather than a single, coherent pathway, so the cluster is best described as developmental signaling and tissue differentiation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:1903286","count":4},{"id":"GO:0061462","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0022407","count":4}]},{"hash":"1764365938157843333","title":"RNA splicing and translation regulation","description":"This cluster is dominated by GO terms tied to RNA processing and post-transcriptional control, especially spliceosome-mediated mRNA splicing and its regulation (including alternative splicing and positive regulation of splicing), as well as steps in translation initiation and reinitiation. Additional terms indicate mRNA stability and regulatory ncRNA-mediated gene silencing, underscoring tight control of mRNA fate. While growth/development terms are present, the core signal is RNA maturation and translation control, fitting a single coherent functional theme.","confidence":"Medium","size":18,"edges":32,"triangles":29,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":8},{"id":"GO:0045292","count":7},{"id":"GO:0002188","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0031047","count":6}]},{"hash":"499201077400542277","title":"Unknown","description":"The top terms cover a strikingly diverse set of processes (RNA exonuclease activity, DNA repair, translation initiation, various germline and neuron development events, proteasomal degradation, and GTPase regulation) with no clear common pathway or functional theme, and there are no network connections to tie them together. Therefore there is no cohesive label to assign beyond Unknown.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090503","count":1},{"id":"GO:0006308","count":1},{"id":"GO:0001731","count":1},{"id":"GO:0048142","count":1},{"id":"GO:0075525","count":1}]},{"hash":"2229757641915047614","title":"Axon Guidance and Neural Development","description":"The cluster\u2019s terms cluster around neural development and axon pathfinding (commissural neuron axon guidance, branchiomotor neuron axon guidance, semaphorin-plexin signaling in axon guidance, otic placode development, sympathetic ganglion development), with supporting growth signaling (PDGF receptor signaling, activation of transmembrane receptor tyrosine kinase activity). Endothelial chemotaxis and vascular cues appear as broader context, and a molting/cuticle term is an outlier; overall, neural development and axon guidance is the strongest unifying theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035767","count":4},{"id":"GO:0048008","count":4},{"id":"GO:0007171","count":3},{"id":"GO:0071679","count":3},{"id":"GO:0061549","count":3}]},{"hash":"1958413004914586715","title":"Unknown","description":"The top GO terms are highly diverse, including immune-related processes (phagocytosis recognition, basophil activation, platelet activation) and various developmental processes (mesonephric duct development, metanephric organ development, cartilage condensation), plus several obsolete or metabolism-related terms. There is no single cohesive theme linking all terms to a specific function, so a clear, specific label cannot be assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0042619","count":3},{"id":"GO:1902987","count":3},{"id":"GO:0006910","count":3},{"id":"GO:0045575","count":3}]},{"hash":"1571615307978233610","title":"Unknown","description":"The top GO terms span diverse areas: development (face morphogenesis, cerebellum maturation), lipid metabolism (cholesterol homeostasis), immune/host response (cellular response to lipopolysaccharide, Fc receptor signaling), cell death and autophagy (phosphatidylserine exposure on apoptotic cell surface, negative regulation of autophagy of mitochondrion), aging, and DNA topology regulation. With no single predominant function or pathway, there isn\u2019t a coherent theme to cluster into a specific label.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060325","count":1},{"id":"GO:0042632","count":1},{"id":"GO:0071222","count":1},{"id":"GO:0060368","count":1},{"id":"GO:0001300","count":1}]},{"hash":"2084056576533332979","title":"Membrane Potential Regulation and Ion Homeostasis","description":"This cluster is dominated by terms related to maintaining and regulating membrane potential (resting potential, stabilization, atrial repolarization) and ion transport/homeostasis (potassium, calcium). Collectively, they point to proteins involved in excitability and ionic balance across membranes. Some terms like cellular response to sucrose or macrophage activation are peripheral and less connected to the core theme, but the main signal remains membrane excitability.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050976","count":4},{"id":"GO:0098914","count":4},{"id":"GO:0007204","count":3},{"id":"GO:0060075","count":3},{"id":"GO:0030322","count":3}]},{"hash":"992053887797960649","title":"Neuronal axon guidance and synapse assembly","description":"The cluster is enriched for neural development terms\u2014axon guidance (corticospinal neuron axon guidance through spinal cord; axon extension involved in axon guidance) and synapse assembly\u2014suggesting roles in neural connectivity; additional terms appear noisy (redox, luteolysis, vitamin D response) but do not override the main theme.","confidence":"Medium","size":18,"edges":14,"triangles":2,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0090260","count":5},{"id":"GO:0019800","count":5},{"id":"GO:0061364","count":5},{"id":"GO:0051965","count":5}]},{"hash":"67930198185697827","title":"ECM Remodeling and Developmental Morphogenesis","description":"The top GO terms cluster around extracellular matrix components and remodeling (collagen fibril organization, molting/cuticle), together with diverse developmental processes (morphogenesis of vessels and organs, synapse assembly, gonadotropin signaling). This points to a general theme of ECM-driven tissue development and structural remodeling rather than a single focused pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018996","count":4},{"id":"GO:0048632","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0030199","count":3}]},{"hash":"387572709649953768","title":"Developmental cell adhesion and migration","description":"This cluster is enriched for adhesion and migration-related terms (homophilic cell-cell adhesion, cell-matrix adhesion, receptor clustering, tangential migration) alongside developmental processes (skeletal system development, branching morphogenesis, palatal morphogenesis). The prominent GPCR signaling term (acetylcholine receptor pathway) suggests coordinated signaling during tissue remodeling. Together, these points indicate a cohesive theme of adhesion-guided cell migration during development, including neural migration to the olfactory bulb.","confidence":"High","size":18,"edges":44,"triangles":33,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0043113","count":8},{"id":"GO:0022028","count":7},{"id":"GO:0007213","count":7},{"id":"GO:0060489","count":7}]},{"hash":"1569231400926248808","title":"Vesicle trafficking and membrane remodeling","description":"The top GO terms are dominated by vesicle trafficking and membrane dynamics, including COPII-coated vesicle budding, Cvt pathway targeting to the vacuole, endocytosis, and membrane addition at cytokinesis, with supporting roles for phospholipid homeostasis. While other terms touch cytoskeletal regulation and gene expression, the prevailing signal is intracellular membrane trafficking and remodeling, suggesting proteins that coordinate vesicle formation, cargo delivery, and membrane composition. Confidence: Medium","confidence":"","size":18,"edges":32,"triangles":4,"max_degree":10,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007097","count":5},{"id":"GO:0090114","count":5},{"id":"GO:0032258","count":5},{"id":"GO:0055091","count":5},{"id":"GO:0045792","count":5}]},{"hash":"776239753667945958","title":"Neural development and cytoskeletal dynamics","description":"The top terms strongly point to nervous system and brain development, with terms like neuronal development and dendritic spine formation, alongside regulation of GTPase activity and stress fiber assembly that reflect cytoskeletal remodeling essential for neurite outgrowth and synapse formation. The presence of proliferation and apoptotic processes fits developmental remodeling, while hypoxia response may accompany developing tissue. Overall, the cluster appears centered on neurodevelopment coupled with cytoskeletal regulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":4},{"id":"GO:0007420","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0008284","count":3}]},{"hash":"57775413252176792","title":"Peptidoglycan precursor metabolism and sugar transport","description":"These proteins appear linked to carbohydrate metabolism and membrane transport relevant to cell wall biosynthesis. The top GO terms include UDP-N-acetylglucosamine biosynthetic process and N-acetylmuramic acid metabolic process, both central to peptidoglycan precursor production, along with several transmembrane transport terms for sugars and other small molecules (fructose, bicarbonate, oxalate, sulfate) and related carbohydrate metabolism. This combination suggests a cohesive module around generating cell wall components and transporting related substrates across membranes.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015701","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0006048","count":1},{"id":"GO:0046835","count":1},{"id":"GO:0006051","count":1}]},{"hash":"1008982451078220724","title":"Protein quality control and folding","description":"This cluster is dominated by GO terms related to proteostasis: ER-associated protein folding, response to unfolded proteins, ERAD and ubiquitin-proteasome\u2013mediated nuclear quality control, and handling of misfolded proteins, including transport and stress responses. These terms collectively point to a shared function in maintaining protein homeostasis across cellular compartments. Some terms (DNA replication, tRNA import) appear less connected and may be outliers, but they do not overwhelm the proteostasis theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034975","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0006626","count":2},{"id":"GO:0006986","count":2}]},{"hash":"1637789121099702588","title":"Myelination and nerve development","description":"The GO terms are dominated by myelin-related processes (galactosylceramide biosynthesis and myelination) and sensory/nerve function (sensory perception of sound), with supporting terms related to membrane remodeling and regulation of GTPases that fit neural development. A few items (cleavage furrow formation, osteoblast fate) appear as outliers, but the core pattern suggests nervous system myelin biology.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036089","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0051262","count":2},{"id":"GO:0042552","count":1}]},{"hash":"133330727981934776","title":"Ciliogenesis and cilia-driven development","description":"The top GO terms cluster around cilium assembly (motile and non-motile) and related structures (transition zone), with developmental processes tightly tied to ciliary signaling, including left-right symmetry, head and eye development, and Hedgehog pathway regulation. This suggests the proteins function together in ciliogenesis and ciliogenesis-mediated developmental signaling.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042060","count":1},{"id":"GO:0061026","count":1},{"id":"GO:0007018","count":1},{"id":"GO:0043010","count":1},{"id":"GO:1905515","count":1}]},{"hash":"1048780598387827724","title":"Innate Immune Activation and Transcriptional Regulation","description":"Most top GO terms point to innate immune processes (complement activation via the lectin pathway, phagocytosis recognition, and cellular response to fungal origin) combined with transcriptional control (DNA-templated transcription and regulation of nuclear export). While a developmental term for cartilage condensation appears, the dominant signal is immune signaling with associated gene regulation, suggesting a cluster of proteins involved in innate immune activation and transcriptional regulation rather than a single cohesive developmental pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001502","count":6},{"id":"GO:0071226","count":6},{"id":"GO:0001867","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0046826","count":4}]},{"hash":"1728012937491539109","title":"Calcium-dependent excitatory synaptic signaling","description":"The top GO terms cluster around neuronal signaling: calcium ion transmembrane transport, membrane raft assembly, excitatory postsynaptic potential, and regulation of synaptic vesicle endocytosis, pointing to a coherent theme of calcium-regulated synaptic transmission and vesicle cycling. Some non-neuronal terms appear, but the strongest signal is synaptic function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070588","count":2},{"id":"GO:0001765","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0061436","count":2},{"id":"GO:0010801","count":1}]},{"hash":"620449439058738211","title":"Neural and bone development signaling","description":"The top GO terms point to developmental processes across neural tissues (spinal cord and brain development) and bone formation (osteoblast differentiation), with supporting signaling pathways such as Wnt and GTPase activity. Together these suggest a cluster of proteins involved in developmental signaling and differentiation spanning neural and skeletal lineages. Some terms (defense response, peroxisome targeting, and an obsolete histone methylation term) appear more peripheral, but do not overturn the central theme of developmental signaling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":3},{"id":"GO:0021510","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0016055","count":2},{"id":"GO:0007420","count":2}]},{"hash":"540112613976221619","title":"Unknown","description":"The top GO terms are a highly mixed set, including glycosylation (N- and O-linked), magnesium transport, oocyte meiosis-related nuclear events, DNA integration, viral genome regulation and latency, mitotic nuclear membrane dynamics, and synaptic activity regulation. With no connecting edge structure and no clear common function tying these terms together, there isn\u2019t a single coherent theme to label; thus Unknown is appropriate.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018279","count":1},{"id":"GO:0015693","count":1},{"id":"GO:0035269","count":1},{"id":"GO:0030717","count":1},{"id":"GO:0015074","count":1}]},{"hash":"1445676559284077692","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":24,"triangles":3,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":2},{"id":"GO:0032147","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0043103","count":1},{"id":"GO:0006207","count":1}]},{"hash":"1262267614079032942","title":"Keratinocyte differentiation and mitotic regulation","description":"The strongest signals center on epithelial differentiation (keratinocyte differentiation) and cell cycle control (G2/M transition; CDK regulation; kinetochore localization), with apoptosis modulation also present, suggesting a cluster tied to keratinocyte maturation coordinated with mitotic and checkpoint processes. Other terms like transcription and hormone responses appear ancillary to this core theme.","confidence":"Medium","size":17,"edges":49,"triangles":77,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043065","count":10},{"id":"GO:0006351","count":9},{"id":"GO:0030216","count":9},{"id":"GO:0090336","count":9},{"id":"GO:0033138","count":9}]},{"hash":"2199886114737019103","title":"Neural Axon Guidance and Signaling","description":"This cluster centers on neuronal development and signaling: axon extension/axogenesis, ephrin receptor signaling, focal adhesion remodeling, and even dopamine-responsive signaling, all pointing to neural axon guidance and associated cytoskeletal dynamics.","confidence":"High","size":17,"edges":14,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":3},{"id":"GO:0001302","count":2},{"id":"GO:1903351","count":2},{"id":"GO:0045773","count":2},{"id":"GO:0033138","count":2}]},{"hash":"508355330625023399","title":"Ammonium Transport and Nitrogen Utilization","description":"This cluster centers on ammonium/nitrogen transport and metabolism, as reflected by transepithelial ammonium transport, methylammonium transport, and regulation of nitrogen utilization among the top terms. There are a few outliers related to CO2 transport, iron homeostasis, and growth phenotypes, but the recurring theme across many members points to nitrogen handling and ammonium transport as the core function. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901925","count":1},{"id":"GO:0015670","count":1},{"id":"GO:0007124","count":1},{"id":"GO:0080181","count":1},{"id":"GO:0072488","count":1}]},{"hash":"1800844485560071276","title":"Ion transport and organ morphogenesis","description":"The top GO terms cluster around membrane ion transport (sodium, calcium, potassium), suggesting involvement in ion homeostasis. Several terms point to morphogenesis of kidney structures (renal artery morphogenesis, metanephric proximal/distal tubule development) and lymph vessels, indicating a developmental/tissue-forming theme. A couple of terms relate to circadian rhythm and behavior, which may reflect broader physiological roles or annotation noise. Overall, the cluster appears to group proteins linked to ion transport with organ developmental processes.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":3},{"id":"GO:0098703","count":2},{"id":"GO:0061441","count":2},{"id":"GO:0045188","count":2},{"id":"GO:0072287","count":2}]},{"hash":"764808316696715422","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":15,"triangles":6,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0048568","count":3},{"id":"GO:0000480","count":3},{"id":"GO:0000466","count":3}]},{"hash":"1825836843255533823","title":"Cell Polarity and Junctions in Tissue Growth","description":"This cluster centers on cell organization in tissues: establishment of cell polarity and adherens junctions, cell spreading during wound healing, and growth processes. Trafficking roles (endosome-to-Golgi transport, Golgi localization) and cytoskeletal/mitotic components (spindle assembly) support polarity, adhesion, and cell division during tissue remodeling, while NF-kappaB regulation hints at controlled signaling in repair. The combined GO terms point to a coordinated program of polarity, adhesion, and growth rather than a single isolated function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":3},{"id":"GO:0090051","count":2},{"id":"GO:0071963","count":2},{"id":"GO:0043124","count":2},{"id":"GO:0033138","count":2}]},{"hash":"1410510856471801614","title":"Cell Cycle, DNA Replication, and Chromatin Assembly","description":"The cluster is driven by cell division and DNA replication terms, including CENP-A chromatin assembly and transcription elongation regulation, with supporting signals for mRNA export, microtubule severing, and ER-to-Golgi transport. This points to a cohesive theme around cell-cycle\u2013regulated nuclear processes (replication, chromatin assembly, and transcription) with associated cytoskeletal and trafficking activities. ","confidence":"Medium","size":17,"edges":17,"triangles":5,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0032968","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0051013","count":3},{"id":"GO:0006260","count":3}]},{"hash":"510386136728312570","title":"Neural development and axon guidance","description":"The top GO terms cluster around nervous system development and axon guidance, including commissural and branchiomotor neuron axon guidance, semaphorin-plexin signaling, otic placode development, and sympathetic ganglion development, suggesting the proteins function mainly in neural differentiation and neuronal pathfinding. Some unrelated terms appear (oxidation-reduction, sporulation, molting, antibiotic biosynthetic process), which may reflect annotation noise, but the dominant theme is neural development.","confidence":"High","size":17,"edges":19,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0030435","count":5},{"id":"GO:0018996","count":5},{"id":"GO:0017000","count":4},{"id":"GO:0007171","count":4}]},{"hash":"1857891098267698124","title":"Unknown","description":"The top GO terms point to very different biological areas (Rho signaling, chromatin/nucleosome remodeling, histone acetylation, transcription initiation, various developmental processes, biofilm adhesion), with no clear shared function or pathway, and no edges among proteins. This heterogeneity makes it impossible to assign a meaningful, unified label.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0006337","count":1},{"id":"GO:0031496","count":1},{"id":"GO:0061038","count":1},{"id":"GO:0044154","count":1}]},{"hash":"1615279655871534336","title":"Embryonic organ morphogenesis","description":"This cluster centers on developmental morphogenesis across multiple organs (eye, heart, lung, placenta, prostate), with supporting transcriptional regulation by RNA polymerase II, suggesting coordinated gene programs driving embryonic organ formation.","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048048","count":9},{"id":"GO:0000122","count":8},{"id":"GO:0043010","count":7},{"id":"GO:0060441","count":7},{"id":"GO:0006366","count":7}]},{"hash":"1778406845378301495","title":"Muscle cytoskeleton remodeling and denervation adaptation","description":"The cluster is dominated by actin dynamics (actin filament depolymerization), muscle attachment, and regulation of calcium release impacting skeletal muscle contraction, all pointing to cytoskeletal remodeling in muscle. The inclusion of Rho/GTPase signaling and general regulation of protein localization to the cell surface supports coordinated signaling to cytoskeletal structures. Denervation-related terms and dendrite extension imply neural remodeling in response to denervation, suggesting a combined muscle-nerve adaptation theme; a single outlier like olfactory nerve organization may reflect annotation noise rather than a core function.","confidence":"Medium","size":17,"edges":63,"triangles":67,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0021629","count":2},{"id":"GO:0035023","count":2},{"id":"GO:2000009","count":2},{"id":"GO:0014809","count":2},{"id":"GO:0030042","count":2}]},{"hash":"89295550983898721","title":"Unknown","description":"The top GO terms span metabolism, DNA processing, various cellular stress and hormone responses, and embryonic development, with no single cohesive function tying the proteins together, suggesting a diverse set of roles rather than a specific cluster function.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006777","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0071374","count":2},{"id":"GO:0009408","count":2},{"id":"GO:1901621","count":2}]},{"hash":"1755173361951789057","title":"Neural and Cardiac Development with Calcium Signaling","description":"The top GO terms indicate development and morphogenesis in cardiac tissues (heart development, ventricular morphogenesis) alongside neural-related processes (axonogenesis, excitatory postsynaptic potential, astrocyte activation) and calcium signaling (calcium transport and calcium-release channel regulation). This suggests a cluster centered on calcium-dependent signaling that influences development in neural and cardiac systems, with some broader sensory and glial associations. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0055010","count":3},{"id":"GO:0007409","count":3},{"id":"GO:0006469","count":3}]},{"hash":"1656734692341984895","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0090503","count":1},{"id":"GO:0006378","count":1},{"id":"GO:0031126","count":1},{"id":"GO:0034247","count":1}]},{"hash":"722432669334258927","title":"Organ Development and Differentiation","description":"Dominant GO terms describe heart, forebrain, and skeletal muscle development, as well as multicellular organism development, suggesting organ formation and differentiation as a common theme. Additional signals for DNA-templated transcription and the mitotic cell cycle support gene expression and cell proliferation typical of development. A few terms (lipoteichoic acid biosynthetic process) appear unrelated and may reflect noise or annotation artifacts.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0097274","count":3},{"id":"GO:0006351","count":3}]},{"hash":"923574653145189897","title":"Unknown","description":"The top GO terms span diverse processes (asparagus metabolism of L-ascorbic acid, various stress and light responses, calcium signaling in muscle and SR release, cytokinin response, platelet aggregation, cell cycle regulation), with no single dominant theme. Edges are absent, and the terms do not converge on a cohesive function, making a specific, representative label infeasible. ","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019852","count":1},{"id":"GO:0009636","count":1},{"id":"GO:0007035","count":1},{"id":"GO:0071243","count":1},{"id":"GO:0051726","count":1}]},{"hash":"1482122268815644792","title":"Energy metabolism and calcium signaling","description":"This cluster is anchored by energy-related GO terms (ATP synthesis coupled electron transport) and calcium signaling (cellular response to calcium ion), suggesting a core theme of energy production and calcium/ion-mediated regulation. Additional terms like ion transport and miscellaneous metabolism and translation hints are present but appear peripheral to the main theme, indicating a broader, but energy- and signaling-centric, cellular function cluster.","confidence":"Medium","size":17,"edges":131,"triangles":610,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0042773","count":2},{"id":"GO:0071277","count":2},{"id":"GO:0006412","count":1},{"id":"GO:0006407","count":1},{"id":"GO:0006450","count":1}]},{"hash":"1190557702636444433","title":"Immune Activation and Developmental Signaling","description":"The top GO terms are largely immune-related (interferon production, NK cell differentiation, dendritic cell apoptosis, Rho signaling, TGF-beta response), suggesting immune activation pathways. There are also development/neural hints (forebrain development, lens fiber differentiation, synaptic plasticity), indicating additional but broader roles in development or neuronal signaling. Overall, the cluster seems to reflect immune signaling with some developmental context, hence a cautious, mixed-label fit.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902715","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0032825","count":3},{"id":"GO:2000670","count":3},{"id":"GO:0035264","count":3}]},{"hash":"702352192912810101","title":"RTK/TGF-\u03b2 Signaling and Differentiation","description":"Top GO terms point to activation of receptor tyrosine kinases and growth-factor\u2013driven signaling (HGF, TGF-\u03b2 pathways) with associated differentiation processes (brown fat differentiation, smooth muscle activity) and development-related cues (axon guidance). This suggests a core theme of RTK/TGF-\u03b2\u2013mediated signaling governing differentiation across cell types, with supporting links to neural development and muscle-related responses.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045987","count":2},{"id":"GO:0050873","count":2},{"id":"GO:0033280","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0007171","count":1}]},{"hash":"240277207139928140","title":"Unknown","description":"The Top Terms span fertilization, immune defense, multiple organ development (spinal cord, brain, kidney-related limb development), growth, lipid remodeling, leukotriene production, foam cell differentiation, and cell cycle regulation. This broad and disparate set suggests there is no single cohesive function tying the cluster together, so a unique, unified label is not supported.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007338","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0021510","count":3},{"id":"GO:0072218","count":3},{"id":"GO:0035264","count":3}]},{"hash":"881671766585493285","title":"Innate Immune Signaling","description":"The top GO terms center on immune signaling and transcriptional outputs (TLR signaling, I-kappaB phosphorylation, interferon-\u03b1 production), suggesting a cohesive theme of innate immune signal transduction; occasional terms related to translation and antibiotic response may reflect broader stress responses, but the central pattern fits innate immune signaling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0006796","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0046898","count":1},{"id":"GO:0007169","count":1}]},{"hash":"1241330302659132365","title":"Unknown","description":"The top GO terms are highly heterogeneous (signal transduction, plant defense, hair follicle development, neural patterning, cilium assembly, DNA repair, oxidative phosphorylation, immunoglobulin class switching, meiotic recombination, helicase regulation) and there are no edges connecting the proteins, indicating no cohesive biological module. This broad mix across species and processes provides no single, interpretable theme for a specific label.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0080185","count":1},{"id":"GO:0031069","count":1},{"id":"GO:1901622","count":1},{"id":"GO:1905515","count":1}]},{"hash":"393845309983716346","title":"Heart and neural development","description":"Based on the top GO terms, the cluster is enriched for cardiac morphogenesis (heart development, atrial septum morphogenesis) and neural development (cerebellar cortex development), suggesting a developmental theme spanning heart and brain. Some terms are broader cellular processes, but the strongest signals point to developmental roles in heart and neural tissue, hence the label.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0021695","count":3},{"id":"GO:0003290","count":2},{"id":"GO:0003289","count":2},{"id":"GO:0006349","count":2}]},{"hash":"917084313396893954","title":"Axon guidance and innate immune signaling","description":"This cluster combines neuronal development terms (axonal fasciculation, axon extension) with innate immune pathways (TLR signaling, NF-kB/I-kappaB phosphorylation, interferon production) and related signaling cascades (ERK, RTK, CAMKK-AMPK, Wnt). The proteins likely participate in both axon guidance processes and immune signaling cross-talk, suggesting a neural-immune signaling theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007413","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0048846","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0007169","count":1}]},{"hash":"391193468660463814","title":"Neurovascular development signaling","description":"Top GO terms point to brain development, blood vessel development and angiogenesis, plus receptor-mediated signaling (sphingosine-1-phosphate and thrombin receptors) and growth regulation. The co-occurrence of neural and vascular development terms, along with lipid signaling (dihydrosphingosine-1-P) and growth regulation, suggests a cluster centered on coordinated neurovascular development and related signaling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030307","count":2},{"id":"GO:0007420","count":1},{"id":"GO:0051092","count":1},{"id":"GO:2000064","count":1},{"id":"GO:1900452","count":1}]},{"hash":"1332614866279638871","title":"Unknown","description":"GO terms are too diverse and no clear shared function emerges among the proteins (ion transport, digestion, development, neural signaling, and sensory terms). Therefore a specific, representative label cannot be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":2},{"id":"GO:0015824","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0044241","count":2},{"id":"GO:0072205","count":2}]},{"hash":"1426034930621119845","title":"Unknown","description":"These proteins show a mix of core cellular functions (translation, DNA biosynthetic process) and a variety of organismal development terms (flower development, morphogenesis, pronephros). Because the terms span different biological contexts (plants, animals) and there is no single unifying function that ties all members together, there isn\u2019t a clear shared mechanism to name the cluster.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0071897","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0090660","count":1},{"id":"GO:0048858","count":1}]},{"hash":"441036494983089421","title":"Neurodevelopment and BMP signaling","description":"The cluster shows strongest enrichment for neural development terms: nervous system development, neurogenesis, dendrite self-avoidance, and clustering of voltage-gated sodium channels, all indicative of neuronal differentiation and maturation. The presence of positive regulation of BMP signaling aligns with developmental signaling pathways influencing neural progenitors. Some terms (kidney development, neutrophil clearance) are more peripheral, but do not override the neural development signal. ","confidence":"Medium","size":16,"edges":111,"triangles":447,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0001822","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0097350","count":2},{"id":"GO:0050925","count":2},{"id":"GO:0045663","count":2}]},{"hash":"2298386402618161332","title":"Cardiovascular development and inflammatory regulation","description":"Dominant signals are heart development and related morphogenesis (including outflow tract septum morphogenesis), with supporting terms for blood coagulation and multicellular growth. The cluster also shows transcriptional regulation (RNA Pol II) and inflammatory-related terms (response to LPS, negative regulation of inflammatory response), suggesting an integration of developmental and immune signaling. Pancreas morphogenesis appears but is less central. Overall, the theme is cardiovascular development with transcriptional and immune regulation adjuncts.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0045944","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0035264","count":4},{"id":"GO:0061113","count":4}]},{"hash":"1916262478061251462","title":"Glucocorticoid signaling and heart development","description":"Dominant GO terms show glucocorticoid response/signaling and heart development, with NFAT signaling linked to cardiac function, suggesting a cluster centered on glucocorticoid-mediated regulation in cardiac development. Spliceosome-related terms are present but secondary to the primary theme. ","confidence":"Medium","size":16,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051384","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0051533","count":2},{"id":"GO:0000381","count":2},{"id":"GO:0000380","count":2}]},{"hash":"1340754684565289804","title":"Pseudohyphal growth and proteostasis under nutrient stress","description":"The cluster is dominated by terms about invasive/pseudohyphal growth in response to glucose limitation, indicating a shift to filamentous growth under nutrient stress. Supporting terms include protein ubiquitination and ERAD-related proteostasis, plus chromatin modification, suggesting coordinated regulation of growth form and cellular stress responses. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0001403","count":2},{"id":"GO:0043966","count":2},{"id":"GO:0007338","count":2}]},{"hash":"102930499912791596","title":"Nephron Tubule and Duct Morphogenesis","description":"The top GO terms are dominated by metanephric tubule and mesonephric duct development, plus related nephron components, indicating a core theme of kidney tubule/duct morphogenesis. Other terms like lymph vessel morphogenesis and cartilage condensation are less central, and some immune/RNA processing terms appear more peripheral noise.","confidence":"Medium","size":16,"edges":8,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0072287","count":2},{"id":"GO:0072177","count":2},{"id":"GO:0036303","count":2},{"id":"GO:0072218","count":2},{"id":"GO:0001502","count":2}]},{"hash":"131028859057060390","title":"Unknown","description":"The top GO terms span bone remodeling, transcriptional regulation, developmental morphogenesis, immune defense, visual perception, T cell proliferation, retinal axon guidance, and sprouting/angiogenesis, with no clear common function. The cluster also has no edges or triangles, indicating no cohesive interaction pattern. Therefore no single representative function emerges, warranting an Unknown label.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046849","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0060665","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0007601","count":2}]},{"hash":"142481572554728089","title":"RNA splicing and mRNA processing","description":"The proteins in this cluster are heavily enriched for RNA-related functions, especially mRNA splicing (spliceosome-mediated and alternative splicing regulation), mRNA modification and stabilization, and regulatory ncRNA-mediated silencing. These terms point to a cohesive theme around RNA processing and regulation, rather than unrelated pathways, with a possible addition of translation-related context.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":2},{"id":"GO:0006376","count":2},{"id":"GO:0075525","count":2},{"id":"GO:1900363","count":2},{"id":"GO:0045292","count":2}]},{"hash":"386635638332513021","title":"Mitotic progression and cell cycle regulation","description":"Top terms cluster around mitotic transitions (G1/S, G2/M), spindle pole separation, and chromosome condensation, indicating a module focused on mitosis and cell cycle control. While there are secondary signals related to proliferation and signaling, the central theme is regulation of mitotic progression. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0006813","count":7},{"id":"GO:0000320","count":7},{"id":"GO:0000082","count":7},{"id":"GO:0046626","count":7}]},{"hash":"1068904532745297530","title":"Lipid catabolism and endocannabinoid signaling","description":"This cluster\u2019s top GO terms are dominated by lipid catabolic processes (triglyceride, phosphatidylserine, monoacylglycerol, and arachidonate catabolism) along with regulation and retrograde signaling in the endocannabinoid pathway, pointing to a core theme of lipid turnover and endocannabinoid-mediated signaling. Some plant-specific or other cellular terms are present but do not override the central lipid/endocannabinoid connection.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":7},{"id":"GO:0006660","count":7},{"id":"GO:0052651","count":7},{"id":"GO:2000124","count":7},{"id":"GO:0010618","count":6}]},{"hash":"1729388948481482900","title":"Mitochondrial metabolite transporters","description":"The top GO terms are dominated by transmembrane transport of metabolites into and out of mitochondria (phosphate, ADP, alpha-ketoglutarate, ornithine, pyrimidine nucleotides, pyridoxal phosphate), with a related mitochondrial maintenance term (membrane fission) and a stress/response signal. This suggests the cluster is best characterized by proteins involved in mitochondrial metabolite transport and related mitochondrial functions, rather than a single linear pathway.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":3},{"id":"GO:1990519","count":3},{"id":"GO:0031921","count":3},{"id":"GO:0000303","count":3},{"id":"GO:0034198","count":3}]},{"hash":"605914324240168169","title":"Cardiac conduction and ventricular development","description":"The top GO terms cluster around cardiac function and structure\u2014regulation of heart rate by cardiac conduction, ventricular repolarization, ventricular septum morphogenesis, and gap junction assembly\u2014pointing to cardiac electrical activity and heart development. Some outliers (lens development, aging, estradiol response, renin secretion) exist, but the core signal supports a cardiac-focused label.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":1},{"id":"GO:0002088","count":1},{"id":"GO:0016264","count":1},{"id":"GO:0086091","count":1},{"id":"GO:0060707","count":1}]},{"hash":"621783791327272493","title":"Ubiquitin-Mediated Developmental Signaling","description":"This cluster combines GO terms for developmental processes (post-embryonic and limb development) with ubiquitination-related terms (K48- and K63-linked ubiquitination, autoubiquitination) and signaling pathway regulation (NF-kappaB activation, JNK cascade, RIG-I signaling), suggesting a theme of ubiquitin-dependent control of development and immune signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009791","count":2},{"id":"GO:0060173","count":2},{"id":"GO:0070936","count":1},{"id":"GO:2000620","count":1},{"id":"GO:1900095","count":1}]},{"hash":"1429729518309914097","title":"Ribosome Biogenesis, Translation, and Cell Cycle","description":"This cluster shows a strong enrichment for ribosome biogenesis, translation, and transcription (core gene expression machinery) along with cell cycle processes and rRNA maturation, suggesting a theme of growth-linked protein synthesis and cell division. The presence of brain, osteoblast, and gonad development terms hints at broader developmental roles, but the predominant signal is ribosome-associated gene expression and cell proliferation.","confidence":"Medium","size":16,"edges":17,"triangles":9,"max_degree":9,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":6},{"id":"GO:0051301","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0007049","count":3}]},{"hash":"1352316454786386820","title":"Multi-tissue Developmental Regulation","description":"The top GO terms point to developmental processes across diverse tissues (heart development, blastocyst development, metanephric tubule development, and even neural-related short-term memory), suggesting a broad theme of developmental regulation rather than a single pathway. Additional terms on membrane remodeling, phosphorylation regulation, GTPase activity, and protein sumoylation imply accompanying cellular regulatory mechanisms during development. Overall, the cluster seems to represent general developmental programs active in multiple tissues.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007614","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0060056","count":3},{"id":"GO:0001824","count":3},{"id":"GO:2001246","count":2}]},{"hash":"1166632216343408815","title":"Unknown","description":"The proteins map to a highly diverse set of processes (rRNA processing, vertebrate development, immune defense, mitotic cell cycle, nutrient-responsive invasive growth, ER-stress\u2013induced apoptosis, and transcription), with no clear single theme linking them, so a concise functional label is not apparent.","confidence":"","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000447","count":4},{"id":"GO:0021510","count":4},{"id":"GO:0006349","count":4},{"id":"GO:0001501","count":4},{"id":"GO:0007275","count":4}]},{"hash":"1412059832042380477","title":"Unknown","description":"The top GO terms include mitochondrial complex I assembly and Fe-S cluster assembly, several amino acid catabolic processes, O antigen biosynthesis, Notch signaling, and vitamin B6 response. This mix spans mitochondrial metabolism, cell-surface biosynthesis, and signaling with no clear single shared function, so no coherent cluster label can be confidently assigned.","confidence":"","size":16,"edges":88,"triangles":279,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0032981","count":2},{"id":"GO:0044571","count":1},{"id":"GO:0006567","count":1},{"id":"GO:0009243","count":1},{"id":"GO:0019442","count":1}]},{"hash":"1755076928899341222","title":"ECM adhesion and vascular regulation","description":"The cluster\u2019s top terms center on cell-matrix adhesion, vascular permeability regulation, and blood coagulation, with supporting signals from oxidative stress response and tissue differentiation. Despite some obsolete GO terms, the recurring themes point to extracellular matrix\u2013mediated signaling and vascular remodeling functions.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0030206","count":3},{"id":"GO:0015015","count":3},{"id":"GO:0045618","count":2},{"id":"GO:0007613","count":2}]},{"hash":"942100144119821901","title":"Viral Infection and DNA Integration","description":"The terms cluster around infection-related processes: formation of infection structures and viral penetration into the host nucleus, paired with host apoptosis manipulation by symbionts, and DNA processing activities (recombination, replication, and integration). This suggests proteins involved in virus/symbiont invasion and genome processing during infection, with some bacterial envelope biosynthesis signals (lipid A, UDP-glucose metabolism) that can support host interaction. Confidence: Medium.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0075015","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0006011","count":2}]},{"hash":"542564138202226500","title":"Membrane nutrient transporters","description":"This cluster is characterized by multiple transmembrane transport GO terms for nutrients and vitamins (myo-inositol, glucose, pantothenate, biotin) and an accompanying sodium export term, pointing to a core function in moving small molecules across membranes. The few development-related terms are sparse and likely incidental noise. Overall, the dominant theme is membrane transport of nutrients and cofactors.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008292","count":3},{"id":"GO:0015798","count":3},{"id":"GO:1904659","count":3},{"id":"GO:0015887","count":3},{"id":"GO:0015878","count":3}]},{"hash":"237728926080722239","title":"Regulators of signaling and stress responses","description":"These proteins appear to modulate multiple signaling pathways and stress-related processes. The top GO terms point to regulation of calcium release, phosphorylation, and lipid kinase activity, alongside responses to growth factors, developmental signaling, and hypoxia. This suggests a functional theme as regulators of signaling cascades and cell fate responses under stress or developmental cues, rather than a single narrow process.","confidence":"Medium","size":16,"edges":25,"triangles":11,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0051281","count":4},{"id":"GO:0097274","count":4},{"id":"GO:0033137","count":3},{"id":"GO:0032715","count":3},{"id":"GO:0060665","count":3}]},{"hash":"1934005021128768281","title":"Actin-Driven Vesicle Transport and Signaling","description":"The cluster combines actin cytoskeleton-related terms (actin cortical patch assembly), small GTPase signaling (Rho and Rap), and multiple vesicle trafficking processes (ER to Golgi, endosome transport, vacuole fusion). This points to a cohesive module where cytoskeletal dynamics regulate membrane trafficking and associated signaling pathways.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007266","count":3},{"id":"GO:0015031","count":3},{"id":"GO:0010738","count":2},{"id":"GO:0007286","count":2},{"id":"GO:0048227","count":2}]},{"hash":"639115417128227704","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050427","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0018026","count":2},{"id":"GO:0018027","count":2},{"id":"GO:1904263","count":1}]},{"hash":"683163567736044910","title":"Ubiquitin-Dependent Transcription and Inflammatory Signaling","description":"This cluster centers on ubiquitin-mediated protein degradation and post-translational modification, including various ubiquitination types and histone modifications, with links to transcription regulation (RNA Pol II) and inflammatory signaling pathways (TNF/NF-kB and JNK). The GO terms collectively point to a cohesive theme of ubiquitin-driven control of transcription, chromatin state, and immune signaling.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0000122","count":4},{"id":"GO:2000620","count":4},{"id":"GO:0007250","count":4},{"id":"GO:0046328","count":4}]},{"hash":"1275370621862260776","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070914","count":1},{"id":"GO:0008630","count":1},{"id":"GO:0009636","count":1},{"id":"GO:1901255","count":1},{"id":"GO:0000715","count":1}]},{"hash":"1650917068076781154","title":"Unknown","description":"The GO terms are scattered across metabolism, protein assembly, and unrelated processes (symbiont entry, lifespan), with no clear single functional theme tying all proteins together; thus no cohesive cluster label can be assigned.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032461","count":1},{"id":"GO:0044257","count":1},{"id":"GO:1902600","count":1},{"id":"GO:0051289","count":1},{"id":"GO:0009060","count":1}]},{"hash":"2187406211551117513","title":"Drosophila imaginal disc development and signaling","description":"Top GO terms include imaginal disc morphogenesis and lateral inhibition, indicating a developmental patterning focus in Drosophila imaginal discs. Other terms such as olfactory behavior, inflammatory response to wounding, and various metabolism/chromatin processes appear more general or outliers, suggesting a core developmental theme with some unrelated annotations. Therefore, the cluster is best described as Drosophila imaginal disc development and signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":1},{"id":"GO:0090594","count":1},{"id":"GO:0009128","count":1},{"id":"GO:0009117","count":1},{"id":"GO:0046085","count":1}]},{"hash":"999641610557280243","title":"Mucosal lipid signaling and innate immunity","description":"This cluster shows strong enrichment for lipid remodeling and transport processes (phosphatidylinositol/ phosphatidylcholine remodeling, lipid catabolic processes, lysophospholipid transport, cholesterol efflux regulation) together with innate immune functions at mucosal surfaces (innate immune response in mucosa, antibacterial humoral response) and leukotriene biosynthesis, implying a functional module where lipid signaling and metabolism interface with mucosal immunity. Confidence: Medium","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036149","count":2},{"id":"GO:0034374","count":2},{"id":"GO:0019731","count":2},{"id":"GO:0002227","count":2},{"id":"GO:0051977","count":2}]},{"hash":"1593103465956919186","title":"Collagen biosynthesis and cell adhesion signaling","description":"This cluster centers on collagen biosynthesis and fibril organization, cell adhesion, and integrin-mediated signaling, with related extracellular matrix (ECM) processes and glycosylation, suggesting a cohesive ECM assembly and cell-matrix interaction theme; a few terms (mitotic spindle, complement activation) may reflect broader multifunctionality or noise.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0036066","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0007229","count":3},{"id":"GO:0030199","count":3}]},{"hash":"1626799714062702136","title":"Unknown","description":"The GO terms span multiple, unrelated biological areas (transcription, protein homooligomerization, immune defense, ephrin signaling, telomere regulation, synaptic plasticity, and ADP-ribosylation), with no single cohesive function tying the proteins together, so a meaningful label cannot be assigned.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0050830","count":2},{"id":"GO:1901187","count":2},{"id":"GO:1904743","count":2}]},{"hash":"938696347307181228","title":"Viral genome integration and latency","description":"The top GO terms point to viral penetration into the host nucleus, DNA integration, and establishment of integrated proviral latency, along with related replication/recombination processes. This suggests a coherent theme of viral genome integration and latent proviral states within host cells, with some accompanying host-symbiont interactions. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075732","count":3},{"id":"GO:0015074","count":3},{"id":"GO:0039651","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0075713","count":3}]},{"hash":"662803917386606580","title":"Diverse Transmembrane Transporters","description":"This cluster shows a consistent theme of transmembrane transport across membranes for a wide range of substrates (nitrate, sugars, phosphate, sodium, vitamins, xenobiotics, sialic acid, etc.), suggesting these proteins function as diverse membrane transporters rather than a single substrate-specific family.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":1},{"id":"GO:0006004","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0015706","count":1},{"id":"GO:0006855","count":1}]},{"hash":"2254215576640472584","title":"Neuronal kinase and GTPase signaling inhibition","description":"This cluster shows enrichment for negative regulation of protein kinase activity, negative regulation of angiogenesis, and regulation of Rho GTPase signaling, all pointing to downregulation of signaling pathways. The presence of neural-context terms (dendrite and hippocampus development, cellular response to cocaine) suggests this inhibition is particularly relevant in neuronal signaling. Overall, the shared theme is suppression of kinase- and GTPase-mediated signaling in neural contexts.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0043087","count":2},{"id":"GO:1900006","count":1}]},{"hash":"378592832354046360","title":"Developmental biology: nervous, heart, and skeletal tissues","description":"The top GO terms converge on development across multiple tissues\u2014nervous system, heart, skeletal muscle/tissue development, and cranial skeleton morphogenesis\u2014suggesting these proteins participate in broad developmental programs rather than a single pathway. DNA replication may reflect proliferative context in development but is not central to a single function.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0007275","count":4},{"id":"GO:0008045","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0007399","count":4}]},{"hash":"1264819786803632065","title":"Amino Acid, Heme, and Lipid Biosynthesis","description":"This cluster is enriched for biosynthetic processes across multiple small-molecule pathways: several amino acids (tyrosine, histidine, lysine) and heme biosynthesis, plus lipid-related metabolism (fatty acid transport and homeostasis) and tryptophan-derived kynurenine/kynurenic acid routes. The common theme is diverse biosynthesis of metabolites and cofactors, rather than a single linear pathway, justifying a broad label focused on amino acid, heme, and lipid biosynthesis.","confidence":"Medium","size":15,"edges":20,"triangles":3,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0015012","count":2},{"id":"GO:0015908","count":2},{"id":"GO:0019441","count":2},{"id":"GO:0006571","count":2},{"id":"GO:0006783","count":2}]},{"hash":"1682645788451936549","title":"TCA Cycle and Oxidative Stress Response","description":"This cluster centers on central metabolism (TCA cycle, serine biosynthesis) and oxidative stress response, with a few outliers in development and platelet-related terms, suggesting a metabolic module focused on energy and redox balance.","confidence":"Medium","size":15,"edges":47,"triangles":89,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0019878","count":4},{"id":"GO:0006099","count":3},{"id":"GO:0006979","count":3},{"id":"GO:0008585","count":3},{"id":"GO:0060253","count":3}]},{"hash":"1780517371980133594","title":"ERAD and Aggresome Stress, Cell Fate Regulation","description":"The top terms point to proteostasis stress management (ubiquitin-dependent ERAD, aggresome assembly) and downstream decisions about cell survival, apoptosis, and proliferation (including Wnt signaling modulation). While there are also terms tied to DNA replication and transcription, the cohesive theme appears to be a proteotoxic stress response linked to cell fate decisions.","confidence":"Medium","size":15,"edges":33,"triangles":30,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":6},{"id":"GO:0006260","count":5},{"id":"GO:0070842","count":5},{"id":"GO:0016477","count":4},{"id":"GO:0090090","count":4}]},{"hash":"1121942241142608671","title":"Redox Stress Response and Detoxification","description":"The cluster features GO terms tied to responses to various chemicals (ethanol, estradiol, aluminum, cadmium) and to redox processes (cell redox homeostasis, cellular oxidant detoxification, oxidation-reduction). Together they point to a cohesive function: managing oxidative stress and detoxifying reactive species and xenobiotics, with some ties to growth signaling and metabolic regulation as broader context.","confidence":"High","size":15,"edges":32,"triangles":32,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045471","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0032355","count":3},{"id":"GO:0032869","count":3},{"id":"GO:0040008","count":3}]},{"hash":"2252669668030074516","title":"Neuronal drug response and stress signaling","description":"GO terms point to neural responsiveness to substances (lead, cocaine, morphine), excitatory synaptic signaling, and stress-related pathways (glucocorticoid signaling, unfolded protein response). Together these suggest a theme of neuronal signaling modulated by xenobiotic exposure and cellular stress, with some older GO annotations included.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010288","count":2},{"id":"GO:0042220","count":2},{"id":"GO:0043278","count":2},{"id":"GO:2000324","count":2},{"id":"GO:0060079","count":2}]},{"hash":"1367971625670871086","title":"Macrophage activation and adhesion-driven angiogenesis regulation","description":"The cluster shows repeated enrichment for macrophage activation, cell adhesion, and integrin-mediated signaling, with both positive and negative regulation of angiogenesis. This points to a coherent theme of immune cell adhesion/migration and vascular growth control, supported by adhesion and signaling terms. A couple of outlier terms (molting cycle, neuron differentiation) do not align with the core theme.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042116","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0010751","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0016525","count":2}]},{"hash":"2268028824062608612","title":"RNA Splicing and Translation Initiation","description":"The top GO terms are dominated by mRNA splicing via the spliceosome (splicing, splice-site recognition, cis-splicing) and the formation of the translation preinitiation complex, with a related term for translational termination-reinitiation. A few entries touch on proteasomal degradation regulation and developmental processes, but the strongest signal is RNA processing coupled with translation initiation, suggesting a cluster centered on RNA processing and initiation of protein synthesis, with some developmental context.","confidence":"Medium","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032435","count":2},{"id":"GO:0048666","count":2},{"id":"GO:0031134","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0001731","count":2}]},{"hash":"1028903493940133589","title":"Vesicle trafficking and exocytosis","description":"This cluster is best named for the prominence of exocytosis- and secretion-related GO terms among its top terms, notably exocytosis and the acrosome reaction, both classic vesicle fusion processes. The presence of regulation of Rho signaling and sensory perception of sound suggests linked signaling in neurons and sensory cells where vesicle release is pivotal. Other terms touch on membrane organization and protein localization to the cell surface, which can be tied to trafficking pathways, even though some terms are less directly connected. Overall, the shared theme centers on vesicle-mediated secretion and membrane trafficking.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0043524","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0007340","count":3},{"id":"GO:0019740","count":2}]},{"hash":"1412857457110346315","title":"Post-transcriptional RNA processing and splicing regulation","description":"This cluster is dominated by GO terms related to mRNA processing and regulation: splicing (cis and alternative via spliceosome), export from the nucleus, translation initiation, mRNA modification, and regulatory ncRNA-mediated silencing. Together they indicate a cohesive function in post-transcriptional gene expression control and RNA maturation.","confidence":"High","size":15,"edges":75,"triangles":155,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":5},{"id":"GO:0006406","count":5},{"id":"GO:0001731","count":4},{"id":"GO:0006376","count":4},{"id":"GO:0075525","count":4}]},{"hash":"713828876098762249","title":"Neural development and synaptic regulation","description":"The top terms cluster around brain development, specific brain regions like the substantia nigra, dendrite extension, and regulation of synaptic vesicle exocytosis, which together suggest a neural development and synaptic trafficking theme. A few other terms (e.g., ascospore wall assembly, histone-related processes) may be noise or less related, but the dominant signal points to neural growth and synaptic function.","confidence":"Medium","size":15,"edges":54,"triangles":86,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0043486","count":2},{"id":"GO:0030100","count":2},{"id":"GO:0030476","count":2},{"id":"GO:0000147","count":2}]},{"hash":"22423699903868500","title":"Embryonic organogenesis and cell adhesion","description":"These terms cluster around developmental processes across organs (in utero embryonic development, lung and liver development, chondrocyte development, ureteric bud formation) and ECM-mediated signaling via integrin pathways, suggesting proteins involved in tissue morphogenesis and cell\u2013matrix adhesion.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007155","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0030324","count":2},{"id":"GO:0001889","count":2}]},{"hash":"1348259626287025685","title":"Innate immune activation and leukocyte trafficking","description":"The top terms cluster around innate immune processes: leukocyte tethering/rolling, phagocytosis recognition, basophil activation, complement activation, and regulation of NK cell chemotaxis, which together point to immune cell recruitment and effector functions. A few terms related to tissue morphogenesis and oxidative stress are less connected but may reflect broader signaling contexts or annotation noise; overall, the dominant signal is innate immune activation and leukocyte trafficking.","confidence":"Medium","size":15,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090403","count":4},{"id":"GO:2000502","count":3},{"id":"GO:0060355","count":3},{"id":"GO:0001867","count":3},{"id":"GO:0006910","count":3}]},{"hash":"839315029721923714","title":"Developmental Morphogenesis and Cellular Stress Response","description":"This cluster shows enrichment in morphogenesis-related terms (eye morphogenesis, lung morphogenesis, epithelial tube branching) alongside stress and immune-related processes (necroptosis, hydrogen peroxide response, toxic substance response, sumoylation, estradiol response, MHC class II biosynthesis). These themes suggest proteins that participate in developmental remodeling while also engaging stress signaling and regulatory pathways, justifying a label that reflects both development and stress response.","confidence":"Medium","size":15,"edges":19,"triangles":10,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0016330","count":3},{"id":"GO:1901026","count":3},{"id":"GO:0019358","count":3},{"id":"GO:0042542","count":2},{"id":"GO:0016925","count":2}]},{"hash":"223277449144630163","title":"Proteoglycan and glycosaminoglycan biosynthesis","description":"The top GO terms cluster around biosynthetic pathways for proteoglycans: chondroitin sulfate, heparan sulfate, and dermatan sulfate, plus general proteoglycan metabolic processes and polysaccharide localization. This points to a single functional theme: production and modification of proteoglycans/GAGs in the extracellular matrix, which underlies cartilage development and organ morphogenesis (e.g., chondrocyte development, ureteric bud formation). Some terms are obsolete or peripheral, but the dominant signal is proteoglycan biosynthesis.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":1},{"id":"GO:0060676","count":1},{"id":"GO:0002063","count":1},{"id":"GO:0015014","count":1},{"id":"GO:0015768","count":1}]},{"hash":"2258153517736533388","title":"Unknown","description":"The top terms are a highly heterogeneous mix of developmental processes (vascular, eye, kidney, Notch signaling) plus redox balance and LPS metabolism, with no single clear shared function tying the proteins together. Because there isn't a coherent, specific theme representing the cluster, a precise label isn\u2019t justifiable.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000721","count":2},{"id":"GO:0045454","count":1},{"id":"GO:0043535","count":1},{"id":"GO:0008653","count":1},{"id":"GO:0031104","count":1}]},{"hash":"1875515363644576859","title":"Transcriptional Regulation & Chromatin Dynamics","description":"The terms center on RNA polymerase II\u2013driven transcription, transcription regulation, and chromatin organization, with connections to cell-cycle\u2013related chromatin remodeling and circadian regulation of gene expression, pointing to a cohesive module of transcription control and chromatin dynamics.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":1},{"id":"GO:0032147","count":1},{"id":"GO:0007097","count":1},{"id":"GO:0007076","count":1},{"id":"GO:0000019","count":1}]},{"hash":"2027126902609215416","title":"Unknown","description":"The top GO terms cover neural development (axon fasciculation/extension), mechanosensing, signaling pathways (Wnt, PI3K), immune responses (complement activation, defense to Gram-positive bacteria), cuticle/molt processes, and ubiquitination. This broad, heterogeneous mix provides no single cohesive biological function for the cluster, so a specific label isn\u2019t supported.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007413","count":3},{"id":"GO:0048846","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0050830","count":3}]},{"hash":"916928262328098953","title":"Heart and brain development signaling","description":"The GO terms point to cardiovascular development (angiogenesis, heart development, regulation of heart rate) and neural functions (short-term memory, long-term synaptic potentiation), supported by signaling pathways (Wnt calcium-modulating and phosphatidylinositol-mediated signaling) and post-transcriptional regulation (miRNA-mediated gene silencing, poly(A) tail shortening) within a post-embryonic development context. This suggests a shared theme of developmental signaling impacting heart and brain function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0048015","count":2},{"id":"GO:0007223","count":2},{"id":"GO:0035278","count":2},{"id":"GO:0009791","count":2}]},{"hash":"792261097995868757","title":"Fatty acid beta-oxidation and related catabolic processes","description":"The GO terms cluster around beta-oxidation of fatty acids (long-, medium-, and short-chain) and enzymes like acyl-CoA dehydrogenase/oxidase, plus carnitine-related metabolism, pointing to a shared role in fatty acid breakdown and energy production. A few outliers (steroid biosynthesis, aromatic compound catabolism) are present, but the dominant signal is fatty acid catabolism.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033540","count":1},{"id":"GO:0006694","count":1},{"id":"GO:0019439","count":1},{"id":"GO:0042758","count":1},{"id":"GO:0006574","count":1}]},{"hash":"2005055258831965358","title":"Blood coagulation and vascular regulation","description":"This cluster is dominated by GO terms related to coagulation, fibrinolysis, angiopoietic regulation, and extracellular matrix secretion, which together suggest a vascular/homeostatic function focusing on blood clotting and vessel remodeling. While other terms touch on neural differentiation and xenobiotic responses, the strongest shared theme among the proteins appears to be coagulation and vascular regulation, making this a concise and representative label.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":2},{"id":"GO:0051918","count":2},{"id":"GO:0003331","count":2},{"id":"GO:0021702","count":2},{"id":"GO:0002002","count":2}]},{"hash":"39756395185361321","title":"Unknown","description":"The GO terms are highly diverse and include viral processes (uncoating of virus, virion assembly), plant-specific sepal formation, lipid droplet organization, and RNA-directed processes, with several terms marked obsolete. There is no clear, cohesive function or pathway that ties all 15 proteins together, making a meaningful singular label difficult. ","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019061","count":1},{"id":"GO:0006457","count":1},{"id":"GO:0048453","count":1},{"id":"GO:0006278","count":1},{"id":"GO:0019068","count":1}]},{"hash":"178983711347486517","title":"Nuclear RNA Processing and Mitosis Regulation","description":"Top terms cluster around nuclear processes (mRNA splicing via spliceosome, nuclear pore localization, viral mRNA export) and cell division (mitotic spindle, chromatid segregation, cytokinesis regulation) with an additional note on actin filament dynamics. This combination points to proteins involved in nuclear RNA processing and the regulation of mitosis/cytokinesis, possibly linking nuclear transport to the cytoskeleton. Some terms like lens fiber differentiation and synaptic plasticity appear less connected and may reflect broader functional annotations in the dataset.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000398","count":6},{"id":"GO:0070306","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0031915","count":4},{"id":"GO:0046784","count":4}]},{"hash":"1371016190046712198","title":"Unknown","description":"The GO terms are highly heterogeneous (splicing, immune defense, metabolism, various signaling and neuronal-related terms) with no dominant shared function or pathway, and there are no edges connecting the proteins. This dispersion makes it inappropriate to assign a specific, cohesive label. ","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0005975","count":2},{"id":"GO:0007166","count":1},{"id":"GO:0051965","count":1}]},{"hash":"1706763327924924355","title":"Plant glycoprotein and mucilage biosynthesis","description":"The top GO terms center on arabinogalactan protein metabolism, glycan biosynthesis (e.g., poly-N-acetyllactosamine, hydroxyproline O-glycosylation), and seed/mucilage production, pointing to plant cell-surface glycoproteins (AGPs) and cell wall/or glycan remodeling as the core theme. While a few terms reference insect/egg chamber biology, the strongest signal is plant-specific glycoprotein and mucilage biosynthesis, potentially linked to root hair development and seed coat formation.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":3},{"id":"GO:0080147","count":3},{"id":"GO:0010405","count":3},{"id":"GO:0010493","count":3},{"id":"GO:0042248","count":3}]},{"hash":"281470364949055961","title":"Ubiquitin-Dependent Innate Immune Signaling","description":"The cluster centers on ubiquitin-dependent protein turnover and autoubiquitination, linked to innate immune response and signaling pathways such as NF-kappaB and JNK, indicating a module where ubiquitination governs immune signaling and viral material handling.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0045087","count":5},{"id":"GO:1901253","count":5},{"id":"GO:0051865","count":5},{"id":"GO:1903265","count":5}]},{"hash":"93520570039695296","title":"Heat shock response and protein quality control","description":"This cluster is driven by terms tied to heat stress and chaperone-assisted protein folding, including chaperone-mediated protein complex assembly, protein refolding, and detection of misfolded protein. Together these point to a coherent theme of protein quality control under stress. Some less central terms (telomere maintenance, TNF production, immune response, virion assembly) appear but do not define the core function.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032212","count":2},{"id":"GO:0009408","count":2},{"id":"GO:0007049","count":2},{"id":"GO:1903427","count":1},{"id":"GO:1904469","count":1}]},{"hash":"1359259284770381492","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":3},{"id":"GO:0015015","count":3},{"id":"GO:0018146","count":3},{"id":"GO:0006260","count":2},{"id":"GO:1902969","count":2}]},{"hash":"170965538877837159","title":"Membrane transport of ions and metabolites","description":"The Top Terms show multiple transmembrane transport processes for ions (sodium, magnesium, monoatomic anion) and metabolites (citrate, malate, succinate), along with regulation of phosphate transport. This pattern indicates a functional theme around moving substrates across membranes, suggesting a transporter or transporter-associated cluster. An outlier term about ER protein folding is present but does not alter the overall theme.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034975","count":1},{"id":"GO:0015693","count":1},{"id":"GO:0006814","count":1},{"id":"GO:0015743","count":1},{"id":"GO:0098656","count":1}]},{"hash":"1678167450627863928","title":"Developmental signaling and differentiation","description":"Top GO terms cluster around developmental signaling (Wnt, ephrin receptor) and differentiation processes (granule cell and follicular dendritic cell differentiation), suggesting a theme of cell fate specification and development across neural and immune lineages. Some terms are obsolete or represent peripheral processes, but the core pattern supports a developmental signaling/differentiation label.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:0016055","count":3},{"id":"GO:1901187","count":2},{"id":"GO:0002268","count":2},{"id":"GO:0035544","count":2}]},{"hash":"582621583295728229","title":"Epigenetic Transcription Regulation","description":"GO terms cluster around DNA-templated transcription, regulation of transcription initiation, and DNA methylation\u2013related processes, with a note on nuclear localization maintenance and development. This pattern points to an epigenetic module where gene expression is controlled via transcriptional regulation and DNA methylation, rather than a single enzymatic activity.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":1},{"id":"GO:0044026","count":1},{"id":"GO:2000143","count":1},{"id":"GO:0006349","count":1},{"id":"GO:0048147","count":1}]},{"hash":"331935131244680905","title":"Vertebrate embryonic organogenesis and neural crest differentiation","description":"The top GO terms point to embryonic development and organ morphogenesis, including mesonephric duct and urinary bladder development, cloacal septation, and branching morphogenesis of ducts, alongside neural crest\u2013related cell fate. Although there are a couple of terms tied to synapse regulation or senescence, the predominant signal is vertebrate embryonic organogenesis and tissue patterning, justifying a label centered on embryonic organ development with neural crest derivatives.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072177","count":2},{"id":"GO:0070245","count":2},{"id":"GO:0060157","count":2},{"id":"GO:0090403","count":2},{"id":"GO:0060197","count":2}]},{"hash":"1617162496697026700","title":"Meiosis-related nuclear pore and spindle assembly","description":"Most terms cluster around nuclear pore localization/assembly and spindle pole body functions (localization, duplication, meiosis chromosome pairing), plus general phosphorylation dynamics. This points to proteins involved in nuclear architecture, transport, and chromosome alignment during meiosis, consistent with a cluster centered on nuclear pore complex and spindle apparatus components. A few terms appear as noise or unrelated annotations (e.g., development of oral structures, adenosine metabolism), but the core signal supports a meiosis-associated nuclear pore/spindle theme.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":2},{"id":"GO:0046085","count":1},{"id":"GO:0071790","count":1},{"id":"GO:0016311","count":1},{"id":"GO:0031081","count":1}]},{"hash":"623551059279823778","title":"Lipid Catabolism and Endocannabinoid Signaling","description":"The GO terms are dominated by lipid-related catabolic processes (triglyceride, phosphatidylserine, monoacylglycerol, and diacylglycerol catabolism) and a term for regulation of endocannabinoid signaling, suggesting the proteins mainly participate in lipid breakdown and lipid-mediated signaling. A few other catabolic terms (chlorophyll, cellulose) appear, but they do not override the lipid-centric theme, making this a coherent cluster of lipid metabolism and signaling. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":4},{"id":"GO:0006660","count":4},{"id":"GO:0052651","count":4},{"id":"GO:2000124","count":4},{"id":"GO:0009636","count":3}]},{"hash":"1465516331661485295","title":"Histone modification and nucleosome assembly","description":"The dominant terms are histone modifications (H3-K4 trimethylation, H3-K27 acetylation/methylation) and nucleosome assembly, indicating a cluster centered on chromatin remodeling and transcription regulation. A few developmental morphogenesis terms and drug response annotations may be incidental, but the core theme is chromatin state control.","confidence":"High","size":14,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021631","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0080182","count":2},{"id":"GO:2001040","count":2},{"id":"GO:1901674","count":2}]},{"hash":"185077311232833508","title":"Redox signaling and NF-kB in male germline development","description":"This cluster centers on redox biology (oxidation\u2013reduction, redox homeostasis, oxidant detoxification, cysteine oxidation) and signaling pathways (I\u03baB phosphorylation, non-canonical NF-\u03baB, and MAPK regulation) with links to male germ cell proliferation and gonad development. The co-occurrence of redox-related terms with NF-\u03baB/MAPK signaling and male reproductive development terms supports a cohesive theme of redox-regulated signaling affecting male germline biology.","confidence":"Medium","size":14,"edges":58,"triangles":152,"max_degree":11,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0045454","count":8},{"id":"GO:0098869","count":8},{"id":"GO:2000255","count":7},{"id":"GO:0030416","count":7}]},{"hash":"1807108720603684084","title":"Cerebellar neuron development and transcriptional control","description":"The cluster is strongly enriched for transcription-related processes (DNA-templated transcription) and regulation of nuclear export/import, with a specific signal for cerebellar cortex development. Additional terms about Wnt signaling regulation, metabolism, and proteasomal degradation point to coordinated gene expression control and protein turnover in neuronal development contexts. This combination supports a cohesive theme centered on transcriptional regulation during cerebellar neuron development. ","confidence":"High","size":14,"edges":29,"triangles":33,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":11},{"id":"GO:0046827","count":10},{"id":"GO:0006349","count":9},{"id":"GO:0021695","count":9},{"id":"GO:0071276","count":9}]},{"hash":"39737115119189226","title":"Pain, touch, temperature sensation and dopaminergic signaling","description":"The top GO terms center on sensory perception (pain, touch) and temperature-related responses, with dopaminergic synaptic transmission and a cocaine-related behavioral term, indicating a neural-sensory signaling theme driving perception and associated behaviors. While there are some broader terms (development, adhesion), the core signal appears to be neural sensory processing and its downstream signaling. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":4},{"id":"GO:0007275","count":3},{"id":"GO:0098914","count":3},{"id":"GO:0050976","count":3},{"id":"GO:0002024","count":3}]},{"hash":"1875755838398882665","title":"Neural development and visual signaling","description":"This cluster is dominated by terms related to neural development and function, including axonogenesis, Schwann cell development, dopaminergic synaptic transmission, visual perception, and visual learning, as well as neural responses to cocaine and prostaglandin signals. While terms like heart development and mitotic cell cycle are present, the strongest and most coherent theme centers on neuronal development and sensory system activity, particularly the visual system and dopaminergic signaling. Confidence: Medium","confidence":"","size":14,"edges":11,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0007275","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0071380","count":6}]},{"hash":"2286636060812589384","title":"Unknown","description":"The top GO terms are a mix of cilium-related motility, nucleotide and DNA synthesis, phosphorylation, RNA splicing, and developmental processes, with no clear common function and no edges linking proteins, so there is no cohesive theme to assign a meaningful label. ","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000155","count":1},{"id":"GO:0046104","count":1},{"id":"GO:0071897","count":1},{"id":"GO:0016310","count":1},{"id":"GO:0009157","count":1}]},{"hash":"829409127304666543","title":"Unknown","description":"The top GO terms span very different processes (sumoylation and phosphorylation regulation, DNA binding, muscle satellite cell activation, otic vesicle formation, organ development, fungal sporulation, and synaptic vesicle endocytosis) with little overlap, so there isn\u2019t a coherent shared function to label the cluster.","confidence":"","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0033234","count":6},{"id":"GO:0043388","count":6},{"id":"GO:0014718","count":6},{"id":"GO:0030916","count":5},{"id":"GO:0010801","count":4}]},{"hash":"105466139266429632","title":"Developmental transcription regulators","description":"The top GO terms center on transcription by RNA polymerase II and its negative regulation, combined with several embryonic and organ development processes (in utero development, eye development, lung morphogenesis) and signaling pathways, suggesting a cluster of proteins that regulate transcription during development and coordinate developmental signaling.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0045454","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0043010","count":2},{"id":"GO:0060441","count":2}]},{"hash":"180118105820681519","title":"Vacuolar amino acid transport","description":"The top GO terms are dominated by transmembrane import of various amino acids (tyrosine, glutamate, serine, proline, lysine, arginine) into the vacuole, with related transport and regulation terms. This clearly points to a cohesive theme of vacuolar amino acid transport processes, despite lack of edges among proteins in this set.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090514","count":1},{"id":"GO:0006867","count":1},{"id":"GO:0090515","count":1},{"id":"GO:0061402","count":1},{"id":"GO:0090516","count":1}]},{"hash":"1452370938769971781","title":"Brain and endocrine development","description":"GO terms cluster around pituitary gland development, brain development, regulation of growth hormone secretion, and neural proliferation, with transcriptional control supporting a neuroendocrine developmental theme. Some terms for eye and lung morphogenesis appear but do not override the core brain/endocrine signal.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0060441","count":3},{"id":"GO:0021846","count":3},{"id":"GO:0060123","count":2}]},{"hash":"424614047795753211","title":"Transcription and translation regulation","description":"Most prevalent terms point to gene expression control at both transcription and translation stages (translation and its negative regulation, RNA polymerase II\u2013driven transcription, and RNA-templated transcription). While a few terms relate to signaling or degradation, the dominant theme is regulation of protein synthesis and RNA transcription, suggesting these proteins function together in gene expression control at multiple levels.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0046676","count":2},{"id":"GO:0032436","count":2},{"id":"GO:0048008","count":2},{"id":"GO:0046329","count":2}]},{"hash":"431335020961266820","title":"NF-\u03baB signaling and ubiquitination","description":"This cluster centers on ubiquitination processes (K63-linked and linear polyubiquitination) and regulation of NF-\u03baB signaling, including ERAD-associated pathways and lipopolysaccharide-mediated signaling, plus downstream immune-related outcomes like T cell proliferation. While a few terms touch on microtubule dynamics and vesicle transport, the dominant theme is ubiquitin-dependent regulation of NF-\u03baB activity and related immune signaling. ","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":"autophagy","top_go_terms":[{"id":"GO:0030433","count":8},{"id":"GO:0051092","count":7},{"id":"GO:0043123","count":7},{"id":"GO:0070534","count":7},{"id":"GO:0007026","count":6}]},{"hash":"2026291774574602291","title":"TLR-mediated antibacterial innate immune response","description":"This cluster is dominated by GO terms related to cellular responses to bacterial components (LPS, lipoteichoic acid, diacyl lipopeptide), Gram-positive defense, and IL-1\u03b2 production, as well as the MyD88-dependent TLR signaling pathway and macrophage cytokine production. Together these indicate activation of innate immunity through Toll-like receptor signaling in response to bacteria, with ROS regulation and clearance processes supporting inflammation resolution.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":3},{"id":"GO:0032497","count":2},{"id":"GO:0071223","count":2},{"id":"GO:0060907","count":2},{"id":"GO:2000379","count":2}]},{"hash":"724801402360023826","title":"Unknown","description":"The listed GO terms cover development of multiple organs (ureter, prostate), cilia-related processes and photoreceptor localization, hormone receptor assembly, cell cycle regulation, and immune response modulation, with no clear common function tying the proteins together. Because there is no coherent theme or dominant pathway, a specific functional label is not justifiable.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072189","count":2},{"id":"GO:0010288","count":2},{"id":"GO:1905515","count":2},{"id":"GO:1903546","count":2},{"id":"GO:1903646","count":2}]},{"hash":"82310934990112552","title":"Nitrogen/Ammonium Transport and Nutrient Stress Response","description":"The cluster\u2019s GO terms cluster around nitrogen-containing compound transport and utilization (nitrogen utilization, ammonium and methylammonium transport, transepithelial ammonium transport) and growth responses seen under nutrient limitation (pseudohyphal and invasive growth). While some terms reflect broader nutrient transport and ion homeostasis (carbon dioxide transport, iron homeostasis), the dominant pattern points to nitrogen/nH4+ handling coupled with growth responses to scarcity, justifying this label.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015670","count":1},{"id":"GO:0007124","count":1},{"id":"GO:0080181","count":1},{"id":"GO:0072488","count":1},{"id":"GO:0001403","count":1}]},{"hash":"2279490498481051655","title":"Developmental morphogenesis and cytoskeletal remodeling","description":"The top terms cluster around developmental processes (imaginal disc leg morphogenesis, anatomical morphogenesis of the heart and gut, neuron differentiation) and cytoskeletal/structural remodeling (microspike/lamellipodium assembly, Rac signaling, M-band localization). This suggests a unifying theme of morphogenesis coupled with actin cytoskeleton dynamics across cell types, despite some outliers. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045666","count":2},{"id":"GO:0007480","count":2},{"id":"GO:0003209","count":2},{"id":"GO:0036309","count":2},{"id":"GO:0030035","count":2}]},{"hash":"591088635083571008","title":"Endosomal Sorting and MVB Pathway","description":"The top GO terms cluster around endosomal trafficking and MVB-related processes: endosome-to-Golgi transport, multivesicular body assembly, and ubiquitin-dependent protein degradation via the MVB sorting pathway, as well as regulation of exosomal secretion. This indicates a cohesive role for these proteins in endosomal sorting and vesicle trafficking, including ESCRT-mediated cargo handling. Some unrelated terms (hippocampus development, spermatogenesis, osteoblast differentiation) may reflect broader functional pleiotropy but do not override the central endosomal theme.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043525","count":2},{"id":"GO:0051301","count":2},{"id":"GO:1903542","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0034498","count":2}]},{"hash":"816721219426096197","title":"Vesicle trafficking and endocytosis","description":"The top GO terms cluster around vesicle dynamics, including clathrin-dependent endocytosis, synaptic vesicle coating, and calcium-dependent exocytosis, together with protein transport. This suggests a cohesive theme of vesicle formation, trafficking, and recycling at membranes, though a few developmental or stress-related terms may be annotation noise.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072756","count":1},{"id":"GO:0098789","count":1},{"id":"GO:0061053","count":1},{"id":"GO:0035264","count":1},{"id":"GO:0045956","count":1}]},{"hash":"2200999109391799247","title":"Cytoskeleton remodeling and endothelial morphogenesis","description":"This cluster is enriched for GO terms linked to negative regulation of Rac/Rho signaling and stress fiber assembly, along with endothelial tube lumen extension, pointing to cytoskeletal remodeling and endothelial morphogenesis. The additional DNA replication and mitosis terms suggest some cell cycle activities among the proteins, but the dominant signal appears to be cytoskeletal dynamics driving endothelial morphogenesis.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051497","count":2},{"id":"GO:0097498","count":2},{"id":"GO:0035021","count":2},{"id":"GO:0035024","count":2},{"id":"GO:0006977","count":1}]},{"hash":"869580914426844498","title":"Vacuolar amino acid transport","description":"The cluster is dominated by GO terms for transmembrane import of various amino acids (tyrosine, glutamate, serine, proline, lysine) into the vacuole, with an additional term about arginine export and a related regulation term for glutamine transport. This points to a cohesive theme of vacuolar amino acid trafficking and handling, suggesting these proteins function as vacuolar amino acid transporters or regulators of that process.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090514","count":2},{"id":"GO:0006867","count":2},{"id":"GO:0090515","count":2},{"id":"GO:0061402","count":2},{"id":"GO:0090516","count":2}]},{"hash":"965819574573910379","title":"Developmental signaling and morphogenesis","description":"This cluster is dominated by GO terms related to development and morphogenesis, including multicellular organism development, coronary artery morphogenesis, and axon extension/guidance, as well as hedgehog pathway regulation (Smoothened). These collectively suggest a cohesive theme around developmental signaling and morphogenesis. Some terms (oxidant detoxification, lectin complement activation) are less central and may reflect secondary roles or annotation noise.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0060982","count":2},{"id":"GO:0045880","count":2}]},{"hash":"42472857229245425","title":"DNA replication and genome maintenance","description":"The top GO terms are dominated by DNA biosynthesis, DNA replication, RNA primer removal from replication, DNA recombination, and DNA integration, indicating a core theme around DNA metabolism and genome maintenance. There are a couple of terms referencing microbial entry or host interaction, which appear as contextual outliers rather than central functions. Overall, the cluster seems to group proteins involved in DNA synthesis and related processes, with incidental host-microbe interaction terms. Confidence: Medium","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071897","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0043137","count":1},{"id":"GO:0015074","count":1},{"id":"GO:0075732","count":1}]},{"hash":"1093804507455464002","title":"Calcium signaling in development and tissue remodeling","description":"These terms cluster around calcium ion detection and calcium-release channel activity, as well as various developmental and signaling processes across tissues (kidney tubule development, EMT, skeletal muscle development, excitatory synaptic activity, and NF-kappaB signaling). The recurring theme is calcium-dependent signaling guiding development, differentiation, and tissue remodeling, which best fits a label emphasizing calcium signaling's role in development and remodeling.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0005513","count":3},{"id":"GO:0072221","count":2},{"id":"GO:0060316","count":2},{"id":"GO:0035562","count":2},{"id":"GO:0043123","count":2}]},{"hash":"1383675119977451742","title":"RNA processing and ribosome biogenesis","description":"This cluster centers on RNA metabolism, including mRNA splicing via the spliceosome, regulatory ncRNA-mediated gene silencing, and rRNA maturation/biogenesis for ribosome assembly, indicating a cohesive role in RNA processing and ribosome production.","confidence":"High","size":13,"edges":48,"triangles":123,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":7},{"id":"GO:0048026","count":7},{"id":"GO:1901407","count":6},{"id":"GO:0000398","count":6},{"id":"GO:0090394","count":5}]},{"hash":"1092872087391568431","title":"Translation initiation machinery","description":"The top GO terms are dominated by initiation-related processes: formation of translation preinitiation and cytoplasmic initiation complexes, cap-dependent initiation, and IRES-dependent initiation, plus regulation of translational initiation. This strongly suggests a coherent cluster of proteins involved in assembling or controlling the ribosome recruitment for translation. A few other terms (complement activation, transport, amino acid export) appear less directly related, likely background annotations, but do not override the main translation initiation signal.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":2},{"id":"GO:1902416","count":1},{"id":"GO:0001731","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0001732","count":1}]},{"hash":"1968134734212833591","title":"Embryonic organ morphogenesis","description":"This cluster is enriched for embryonic morphogenesis terms across several organs (heart, hindlimb, eye, placenta, gonads, brain habenula), indicating a general theme of embryonic organ development rather than a single tissue. The recurring terms for morphogenesis and development dominate, with regulatory transcription terms as supporting context.","confidence":"High","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0035116","count":4},{"id":"GO:0003148","count":4},{"id":"GO:0060527","count":4}]},{"hash":"2052956703917344188","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0001878","count":2},{"id":"GO:0051092","count":1},{"id":"GO:0070936","count":1},{"id":"GO:0048535","count":1},{"id":"GO:0007014","count":1}]},{"hash":"1060673022344462284","title":"Nutrient-sensing growth signaling and translation","description":"The top GO terms point to nutrient/growth signaling pathways (insulin receptor signaling, TOR signaling, amino acid starvation response) and translational control (IRES-dependent initiation, regulation of translation initiation), with some involvement in cell-cycle progression (G1/S). This suggests a theme centered on how nutrient status and signaling regulate protein synthesis and cell proliferation, even though a few terms appear tangential. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071549","count":1},{"id":"GO:0002192","count":1},{"id":"GO:0019933","count":1},{"id":"GO:0045947","count":1},{"id":"GO:0008286","count":1}]},{"hash":"1159991353656722178","title":"Neural development and cytoskeletal remodeling","description":"This cluster is enriched for cytoskeletal dynamics and neural-development related terms: regulation of Rho signaling and actin cytoskeleton reorganization point to cytoskeletal remodeling, while brain development and myelination indicate neural differentiation and glial maturation; cell-cell adhesion further supports neural tissue organization. Some terms like myoblast fusion and angiogenesis are ancillary, but the dominant theme ties cytoskeletal signaling to neural development.","confidence":"High","size":13,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0007520","count":3},{"id":"GO:0016525","count":3},{"id":"GO:2000249","count":3},{"id":"GO:0042552","count":3}]},{"hash":"610637013492572550","title":"Neuronal signaling and endosomal trafficking","description":"Core terms favor neuronal communication (glutamatergic synaptic transmission) and intracellular trafficking (receptor recycling, endosome size regulation) with associated signaling pathways (Rho signaling, CAMKK-AMPK) and transcription control. Some terms (spermatogenesis, kidney size) seem less connected, but the dominant pattern is neuronal signaling linked to endosomal trafficking, supporting this label.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060316","count":2},{"id":"GO:0007283","count":2},{"id":"GO:0051036","count":1},{"id":"GO:0035249","count":1},{"id":"GO:0034968","count":1}]},{"hash":"2121633157421364036","title":"Leukocyte adhesion and activation","description":"These proteins show GO terms centered on immune cell behavior, especially leukocyte trafficking and adhesion (tethering/rolling, adhesion molecule production), activation (basophil activation), and effector functions (complement activation, phagocytosis). A few terms relate to kidney development and lymph vessel morphogenesis, but the immune-related terms dominate, suggesting a cohesive theme around leukocyte recruitment and activation. The sparse connectivity (edges=1) lowers the certainty somewhat, so the confidence is Medium.","confidence":"","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2000502","count":2},{"id":"GO:0060355","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0006910","count":2},{"id":"GO:0050901","count":2}]},{"hash":"1630447333026458624","title":"Unknown","description":"There is no functional signal: Top Terms are empty, and the cluster has no edges or connectedness to suggest a shared process, so no coherent theme can be inferred from the data available.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1531475509216876285","title":"Unknown","description":"The GO terms span transcriptional regulation, multiple developmental processes (midbrain and pancreas morphogenesis), coagulation and fibrinolysis, immune signaling, and extracellular matrix remodeling, with no clear single shared function; plus there are no observed edges, suggesting heterogeneous proteins rather than a cohesive module.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0030901","count":5},{"id":"GO:0007596","count":5},{"id":"GO:0035264","count":5},{"id":"GO:0061113","count":5}]},{"hash":"1380969449782238185","title":"Ribosome biogenesis and cell cycle","description":"Most of the top GO terms cluster around ribosome biogenesis (ribosomal subunit export from nucleus; assembly of large subunit precursor of preribosome) and cell cycle/division, indicating a core role in growth and proliferation. Some terms (blood coagulation, sensory perception of sound, locomotory behavior) seem unrelated and may reflect annotation noise or multifunctional proteins. Overall, the cluster appears to reflect fundamental cellular growth and protein synthesis coupled to cell division.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":2},{"id":"GO:0007626","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0010513","count":2},{"id":"GO:0000054","count":1}]},{"hash":"2241451063707892099","title":"ECM adhesion and angiogenesis signaling","description":"The cluster\u2019s top terms cluster around extracellular matrix\u2013related processes and cell-surface signaling, including both positive and negative regulation of angiogenesis, integrin-mediated signaling, and cell adhesion, plus collagen/cuticle components. This suggests a coherent theme of ECM interactions governing angiogenic and adhesion processes, with some outliers (complement activation and neuron differentiation) that are less central to this core function. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":3},{"id":"GO:0006958","count":3},{"id":"GO:0007155","count":2},{"id":"GO:0010751","count":2},{"id":"GO:0007229","count":2}]},{"hash":"1891189555021060983","title":"Blood coagulation, complement activation, and innate defense","description":"The cluster centers on coagulation-related processes (blood coagulation, fibrinolysis, plasminogen activation, Factor XII activation) and complement activation (lectin pathway), with additional innate immune responses to bacteria (defense against Gram-positive bacteria, response to LPS). This suggests a cohesive role in hemostasis coupled with immune defense, justifying the label.","confidence":"High","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":6},{"id":"GO:0030194","count":5},{"id":"GO:0007596","count":5},{"id":"GO:0014068","count":4},{"id":"GO:0050830","count":4}]},{"hash":"1427665715202676080","title":"Neural Development and Synaptic Regulation","description":"This cluster is driven by terms related to brain and forebrain development and synaptic plasticity, indicating a central role in neural development and neuronal connectivity. The presence of hypoxia response and GTPase regulation hints at signaling and stress-responsive processes that modulate neural function, while mRNA splicing reflects gene expression control important for neural differentiation. Overall, the proteins likely participate in neural development and regulation of synaptic connectivity.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0007568","count":4},{"id":"GO:0031915","count":4},{"id":"GO:0071456","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0007420","count":4}]},{"hash":"178111825038492822","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038202","count":3},{"id":"GO:0006469","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0000398","count":2}]},{"hash":"566499004463245394","title":"Steroid hormone and prostaglandin biosynthesis","description":"This cluster is dominated by testosterone biosynthetic process, androgen metabolic process, and prostaglandin biosynthesis, pointing to steroid hormone and lipid mediator production. Additional terms for glucocorticoid response, insulin signaling, and glutathione metabolism suggest a broader hormonal and redox-regulated metabolic program and potential immune\u2013metabolic cross-talk. The common thread is enzymatic pathways that generate and regulate steroid and lipid-derived signals, with links to redox state and inflammatory signaling.","confidence":"Medium","size":13,"edges":23,"triangles":25,"max_degree":6,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0061370","count":7},{"id":"GO:0001516","count":7},{"id":"GO:0008209","count":6},{"id":"GO:0006749","count":5},{"id":"GO:0055114","count":5}]},{"hash":"1185998404210538220","title":"Unknown","description":"The terms span heat stress response, immune signaling, neural differentiation, and vesicle trafficking, with no single cohesive function that ties all 13 proteins together. The mix of heat response, NOD1 signaling, dendritic and granule cell differentiation, and SNARE-related regulation suggests heterogeneous roles rather than a shared pathway.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":4},{"id":"GO:1901187","count":3},{"id":"GO:0002268","count":3},{"id":"GO:0035544","count":3},{"id":"GO:0061408","count":3}]},{"hash":"1079134967361809748","title":"Unknown","description":"The Top Terms are highly heterogeneous, spanning histone modification, placental and plant anther development, chemokine production, autophagy regulation, and drug response, with no clear shared function or process tying the proteins together.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043972","count":1},{"id":"GO:2000791","count":1},{"id":"GO:0048655","count":1},{"id":"GO:0032602","count":1},{"id":"GO:0080182","count":1}]},{"hash":"1221802952796688862","title":"Unknown","description":"The top GO terms span cell cycle checkpoint signaling, ion transport, lysosome localization, GTPase activity regulation, adhesion, differentiation, and even ethanol response, with no single dominant function linking the 13 proteins. The terms are diverse and there are no observed edges or cohesive pathway signals, so a unified, specific label isn\u2019t supported.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032515","count":1},{"id":"GO:0032516","count":1},{"id":"GO:0007094","count":1},{"id":"GO:1903286","count":1},{"id":"GO:0061462","count":1}]},{"hash":"459150983675803275","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":62,"triangles":184,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0048701","count":5},{"id":"GO:0031047","count":4},{"id":"GO:0071035","count":3}]},{"hash":"934427720041963294","title":"Vesicle trafficking and membrane remodeling","description":"This cluster is dominated by GO terms tied to vesicle life cycle and membrane dynamics, including exosomal secretion, multivesicular body assembly, membrane fission, and protein retention in the Golgi, plus nuclear membrane reassembly. These signals point to a shared function in vesicle trafficking and organelle remodeling, with supportive links to membrane-associated processes during cell division and development (e.g., spindle regulation and follicle cell morphogenesis). ","confidence":"Medium","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":2},{"id":"GO:1903541","count":1},{"id":"GO:0030447","count":1},{"id":"GO:1902902","count":1},{"id":"GO:0030713","count":1}]},{"hash":"1624118457159180534","title":"RNA processing and translational control","description":"This cluster is characterized by post-transcriptional RNA regulation: spliceosome-mediated mRNA splicing and splice-site recognition, regulation of alternative splicing, miRNA- and ncRNA-mediated gene silencing, formation of translation initiation complexes, and aspects of mRNA modification, all pointing to RNA maturation and control of translation.","confidence":"High","size":12,"edges":13,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035278","count":3},{"id":"GO:0001731","count":2},{"id":"GO:0006376","count":2},{"id":"GO:0075525","count":2},{"id":"GO:1900363","count":2}]},{"hash":"846230988426254345","title":"Complement and Coagulation in ECM Remodeling","description":"The cluster is enriched for innate immune/hemostatic processes (complement activation, coagulation) alongside extracellular matrix remodeling and development signals (angiogenesis, hyaluronan metabolism, integrin signaling, cartilage condensation, metalloproteinase regulation). These together point to a coordinated tissue remodeling/wound-healing program that links immune response with ECM dynamics.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":5},{"id":"GO:0007596","count":4},{"id":"GO:1905050","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0045766","count":3}]},{"hash":"1639345207520432257","title":"Keratinocyte development and signaling","description":"This cluster is driven by keratinocyte differentiation and multicellular development terms, complemented by DNA-templated transcription and multiple signaling pathways (Wnt, Hippo, insulin receptor, growth hormone receptor) plus apoptosis and ion transport. The convergence on epidermal differentiation and growth-control signaling suggests a module focused on skin development and transcriptional regulation.","confidence":"High","size":12,"edges":5,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":11},{"id":"GO:0030216","count":11},{"id":"GO:0006351","count":11},{"id":"GO:0043552","count":11},{"id":"GO:0006813","count":11}]},{"hash":"1994640608286967198","title":"Growth Factor Receptor Signaling","description":"This cluster is dominated by GO terms for multiple growth factor receptor signaling pathways (HGF/MET, PDGF, VEGF, insulin receptor) and TGF-beta\u2013related response, indicating a cohesive RTK signaling module. A few terms like subtelomeric heterochromatin formation and potassium import may be noise.","confidence":"High","size":12,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035176","count":2},{"id":"GO:0048012","count":2},{"id":"GO:0008286","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0006348","count":2}]},{"hash":"437087394831641629","title":"Unknown","description":"The top terms span immune signaling (B cell receptor signaling, adaptive immune response), stress/heat response, synaptic transmission, cell\u2013matrix adhesion, development/EMT, and housekeeping processes like DNA replication and ubiquitin\u2013proteasome quality control, with no clear single theme or direct functional coupling among the proteins. The absence of edges also suggests a lack of cohesive interactions to define a specific cluster function.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:0009408","count":2},{"id":"GO:0051968","count":2},{"id":"GO:0007160","count":2},{"id":"GO:0002250","count":2}]},{"hash":"1483268968946857764","title":"Cardiac conduction and heart development","description":"This cluster is dominated by GO terms tied to cardiac electrical activity and heart function\u2014AV node action potential, regulation of atrial/ventricular depolarization, and regulation of heart rate by cardiac conduction\u2014pointing to a core theme of cardiac conduction. Additional development-related terms (multicellular organism development, skeletal system, skin development) suggest broader developmental roles, but the strongest signal is cardiac electrical activity, making this an appropriate, specific label.","confidence":"Medium","size":12,"edges":33,"triangles":22,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0086091","count":2},{"id":"GO:0086016","count":2},{"id":"GO:0060307","count":2},{"id":"GO:0051260","count":2}]},{"hash":"628970479387869567","title":"Transmembrane nutrient and metabolite transporters","description":"GO term pattern centers on transmembrane transport of diverse substrates (phosphate, nitrate, glucose, vitamins, xenobiotics, and other metabolites), suggesting a cohesive group of membrane transport proteins specialized in nutrient uptake and compound efflux. The spread across multiple substrate types supports a general transporter function rather than a single substrate, aligning with a transporter cluster.","confidence":"High","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":3},{"id":"GO:0006855","count":3},{"id":"GO:0006817","count":3},{"id":"GO:0019852","count":3},{"id":"GO:0070837","count":3}]},{"hash":"2185948147681607205","title":"Hormone and terpenoid metabolism","description":"Enriched for steroid hormone biosynthesis (progesterone, testosterone), retinoic acid biosynthesis, and terpenoid/camphor/coumarin catabolism, plus lipid oxidation. This suggests a cluster of enzymes involved in metabolizing a range of hydrophobic small molecules rather than a single signaling pathway.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035865","count":4},{"id":"GO:0042448","count":3},{"id":"GO:0061370","count":3},{"id":"GO:0042904","count":3},{"id":"GO:0046226","count":3}]},{"hash":"223479034169929606","title":"Neural development and synaptic plasticity","description":"Dominant terms point to neural development and synaptic function (axonogenesis, excitatory postsynaptic potential, long-term potentiation, Schwann cell development). Additional terms reflect broader developmental processes (cell cycle, transcription) with some outliers (heart development, ABA signaling). Overall, the cluster appears to be about neural formation and synaptic modulation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0007409","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0060079","count":3}]},{"hash":"1691197894507470029","title":"Nervous system development and synaptic regulation","description":"Top GO terms indicate a focus on nervous system development and learning, with emphasis on regulation of synaptic activity and vesicle trafficking (synaptic vesicle budding). While some terms touch on broader vesicle processes (degranulation, phagosome-lysosome fusion) and non-neuronal contexts, the core pattern centers on neural development and modulation of synaptic signaling, justifying this label. ","confidence":"Medium","size":12,"edges":10,"triangles":2,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007612","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0046330","count":5},{"id":"GO:0090394","count":5},{"id":"GO:0010629","count":4}]},{"hash":"2016229933990249191","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0050976","count":2},{"id":"GO:0060075","count":2},{"id":"GO:0030322","count":2},{"id":"GO:0098914","count":2}]},{"hash":"2079280275862438698","title":"Developmental differentiation and signaling","description":"This cluster centers on development- and differentiation-related processes (brain development, Sertoli cell differentiation, and smooth muscle differentiation) and related signaling (TGF-beta receptor signaling), with regulatory layers (sumoylation and ncRNA-mediated gene silencing) that modulate gene expression during development.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":2},{"id":"GO:0007420","count":1},{"id":"GO:0030511","count":1},{"id":"GO:0060008","count":1},{"id":"GO:1904706","count":1}]},{"hash":"1415222555240621053","title":"Cytoskeletal remodeling and cell cycle regulation","description":"The terms cluster around actin cytoskeleton organization (sarcomere organization, pseudopodium assembly) and regulation of GTPase activity, along with controls on mitotic progression and the cell cycle, pointing to cytoskeletal remodeling tied to cell division and contractile function. Some terms like cellular response to lipopolysaccharide and regulation of heart rate by cardiac conduction suggest broader signaling context, but the core signal is cytoskeletal dynamics linked to contraction and division.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1904798","count":2},{"id":"GO:0086091","count":2},{"id":"GO:0007050","count":2},{"id":"GO:0090138","count":2},{"id":"GO:0045842","count":2}]},{"hash":"2159228835114876919","title":"Developmental transcription and cell migration","description":"The proteins cluster around gene expression control (DNA replication, transcription, mRNA export, transcription factor activity regulation) and developmental processes in heart and brain, plus cell migration, indicating a group of factors coordinating developmental gene expression and cellular movement.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0043433","count":2}]},{"hash":"1201840985227161003","title":"Cardiac Membrane Potential Regulation and Ion Transport","description":"The cluster is dominated by GO terms related to maintaining and regulating the membrane potential in cardiac cells, including resting potential maintenance, membrane stabilization, and atrial action potential repolarization, as well as ion transport processes for K+ and Na+ and intracellular K+ homeostasis. This points to a cohesive theme of cardiac electrophysiology and ionic balance driving membrane potential dynamics, with a couple of outliers related to touch and thermogenesis that are less central to the core function. ","confidence":"High","size":12,"edges":46,"triangles":83,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0098914","count":8},{"id":"GO:0060075","count":8},{"id":"GO:0071805","count":7},{"id":"GO:0030007","count":7},{"id":"GO:0042391","count":6}]},{"hash":"1106070818617247076","title":"Cross-tissue organogenesis and neural guidance","description":"The top GO terms point to developmental processes across different tissues (neural axon guidance and commissural neuron guidance; metanephric kidney development; ear and bone growth) alongside general cellular turnover processes (cell cycle, apoptosis, ubiquitin-dependent degradation). This pattern suggests a cluster of proteins involved in organogenesis and nervous system patterning across multiple tissues, with a notable emphasis on neural guidance. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048842","count":2},{"id":"GO:0072218","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0043162","count":2},{"id":"GO:0006915","count":2}]},{"hash":"1221170020745356172","title":"Cross-tissue Developmental Signaling","description":"The terms cluster around development and signaling across multiple tissues (nervous system, skeletal muscle, kidney) and immune signaling (B cell receptor signaling, IgE isotype regulation) plus vesicle trafficking, suggesting shared roles in broad developmental signaling and intercellular communication rather than a tissue-specific function.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0007519","count":4},{"id":"GO:0019046","count":3}]},{"hash":"1133792928713422254","title":"Unknown","description":"The top GO terms cover both core cellular processes (ribosome biogenesis and rRNA maturation) and virus/host interaction processes (uncoating, virion assembly, symbiont entry), plus some unrelated terms (sepal formation, lipid droplet organization). This broad and heterogeneous mix lacks a single cohesive function or pathway linking the proteins, so a concise, representative label is not interpretable. ","confidence":"","size":12,"edges":11,"triangles":5,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0000463","count":3},{"id":"GO:0019061","count":3},{"id":"GO:0006457","count":3},{"id":"GO:0048453","count":3}]},{"hash":"1826336991192698601","title":"Carbohydrate and lipid metabolism with aldehyde detox","description":"The top GO terms cluster around core carbon metabolism: fatty acid biosynthesis and omega-oxidation, multiple sugar-related pathways (fructose and galactose catabolism, xylulose-5-phosphate biosynthesis), and aldehyde/formaldehyde/furaldehyde catabolism, plus pyruvate fermentation to ethanol. This suggests a cohesive functional theme of carbohydrate and lipid processing with aldehyde detoxification, rather than a single specialized pathway. The lipopolysaccharide response appears as a secondary stress signal rather than the primary driver. Confidence: High","confidence":"","size":12,"edges":43,"triangles":79,"max_degree":11,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0019518","count":6},{"id":"GO:0006633","count":6},{"id":"GO:0033859","count":5},{"id":"GO:0033498","count":5},{"id":"GO:0043458","count":5}]},{"hash":"28563096192259003","title":"Nuclear import and chromosome segregation","description":"The cluster shows a core emphasis on nuclear transport (NLS-bearing protein import into nucleus) and chromosome dynamics (meiotic sister chromatid cohesion centromeric; mitotic sister chromatid separation), complemented by related signaling and regulatory processes (positive regulation of GTPase activity, TORC1 signaling, serine dephosphorylation, desumoylation). These together point to a theme centered on nuclear transport and chromosome segregation during cell division, with broader regulatory context. ","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0051028","count":4},{"id":"GO:0006607","count":4},{"id":"GO:0051754","count":4},{"id":"GO:0043065","count":3}]},{"hash":"1759698282533770689","title":"Neuronal translation and ribosome biogenesis","description":"This cluster is dominated by GO terms related to protein synthesis and ribosome assembly, including translation, ribosome biogenesis, maintenance/positive regulation of translational fidelity, and rRNA export, with an energy/mitochondrial term also present. A couple of brain development terms (substantia nigra and hippocampus development) suggest a neuronal context, so the name reflects the core translational machinery with a neuronal emphasis. ","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0035786","count":1},{"id":"GO:0015986","count":1},{"id":"GO:0021762","count":1},{"id":"GO:1990145","count":1},{"id":"GO:0046677","count":1}]},{"hash":"77516795254091280","title":"Immune and Developmental Signaling","description":"The cluster shows enrichment for diverse signaling-related GO terms across immune (GM-CSF response, LPS response, T cell receptor signaling, Rho signaling) and metabolic/developmental contexts (insulin receptor signaling, heart development, cartilage condensation), plus neural-related terms (dendritic spine morphogenesis, protein localization to synapse). This suggests a broad theme centered on signal transduction influencing immune, metabolic, cardiovascular, and neural development, rather than a single coherent complex. Confidence: Medium","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097011","count":2},{"id":"GO:0008286","count":2},{"id":"GO:0001502","count":2},{"id":"GO:0050852","count":2},{"id":"GO:0060997","count":2}]},{"hash":"125549863270785055","title":"Viral translation initiation and reinitiation","description":"Dominant GO terms focus on viral translation control, including regulation of translational initiation, translation reinitiation, formation of the translation preinitiation complex, and IRES-dependent viral translational initiation. A few terms (histone methylation, transcription, rRNA processing, skeletal development) appear incidental and do not define the cluster. Thus, the cluster likely represents proteins involved in viral translation initiation and reinitiation pathways or host factors co-opted by viruses.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0075525","count":4},{"id":"GO:0006446","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0075522","count":4}]},{"hash":"364484340917564538","title":"Heart development and endothelial differentiation","description":"The top GO terms cluster around cardiac morphogenesis (notably right atrium development) and venous endothelial differentiation, with Notch signaling implicated in heart-field cardioblast proliferation. Additional terms reflect mechanotransduction and cell-matrix adhesion relevant to cardiac tissue remodeling, and ephrin pathway regulation also ties into heart patterning. A few terms appear less connected (vitamin D response, molting cycle, dendritic cell differentiation), likely annotation noise. Overall, the cluster seems to represent proteins involved in heart development and vascular differentiation.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003213","count":3},{"id":"GO:0060843","count":3},{"id":"GO:0003270","count":3},{"id":"GO:0033280","count":3},{"id":"GO:0071260","count":3}]},{"hash":"509267014609380547","title":"Gene Expression and RNA Processing","description":"The terms cluster around transcription, RNA processing/modification, and ribosome biogenesis, with additional links to cell cycle, development, and hypoxia, pointing to a broad gene-expression/RNA-processing module rather than a single complex.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0008284","count":3},{"id":"GO:0036265","count":3},{"id":"GO:0051028","count":3},{"id":"GO:0042273","count":3}]},{"hash":"2304240386889257282","title":"Synaptic vesicle exocytosis and receptor trafficking","description":"The cluster is dominated by GO terms tied to synaptic transmission and vesicle fusion, including SNARE complex assembly, synaptic vesicle exocytosis, and exocytic insertion/recycling of neurotransmitter receptors, along with associations to long-term potentiation. These points all converge on vesicle docking/fusion at the synapse and dynamic receptor trafficking, with some related vesicle trafficking themes (autophagosome/vacuolar targeting) supporting a broader vesicle-transport context. Overall, the proteins appear to coordinate vesicle fusion at synapses and receptor movement.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902259","count":1},{"id":"GO:0098967","count":1},{"id":"GO:0016240","count":1},{"id":"GO:0016079","count":1},{"id":"GO:0060291","count":1}]},{"hash":"635180637992221284","title":"Choline and phosphatidylethanolamine biosynthesis","description":"Based on the prominence of GO terms related to choline metabolism (CDP-choline pathway, choline metabolic process) and phospholipid biosynthesis (phosphatidylethanolamine biosynthetic process), the proteins in this cluster appear to be involved in the production and remodeling of membrane phospholipids, especially phosphatidylethanolamine, with supporting connections to ethanolamine and related biosynthetic routes. A couple of antibiotic response terms may reflect stress-related annotations or noise rather than core function. Overall, the theme centers on choline- and PE-related lipid biosynthesis.","confidence":"High","size":12,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0006657","count":1},{"id":"GO:0019284","count":1},{"id":"GO:0006580","count":1},{"id":"GO:0019509","count":1}]},{"hash":"718360184499886332","title":"DNA Damage Response and Genome Maintenance","description":"This cluster\u2019s GO terms center on DNA-templated transcription, DNA replication, DNA repair, and the SOS response, with additional related regulation of transcription, pointing to a genome maintenance and DNA damage response theme. Some outliers (postsynaptic membrane organization, viral latency maintenance) are likely noise and do not outweigh the dominant DNA-associated signals.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006627","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0009432","count":1},{"id":"GO:0006281","count":1}]},{"hash":"51320854916979505","title":"Protein oligomerization and complex assembly","description":"The top GO terms are dominated by protein oligomerization concepts (protein heterooligomerization, protein homotetramerization, and positive regulation of protein oligomerization), pointing to a shared theme of protein complex formation. Other terms in the list (e.g., differentiation, respiration, transport) appear ancillary and less representative of the cluster's core function.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051291","count":2},{"id":"GO:0030218","count":1},{"id":"GO:0055072","count":1},{"id":"GO:0032461","count":1},{"id":"GO:0044257","count":1}]},{"hash":"2295217314762491797","title":"Unknown","description":"The top GO terms are highly diverse, spanning tRNA modification, protein methylation, antibiotic and secondary metabolite biosynthesis, various metabolic regulation and catabolic processes, spermatogenesis, autophagy, and cell-cycle regulation. There is no clear shared function or pathway linking all terms, so a single coherent label cannot be assigned.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031591","count":1},{"id":"GO:0090266","count":1},{"id":"GO:0006481","count":1},{"id":"GO:1901106","count":1},{"id":"GO:0010906","count":1}]},{"hash":"1543036114963846087","title":"Unknown","description":"The Top Terms show a mix of neural signaling and circadian-related processes (action potential, GABA receptor clustering, serotonin signaling, optic nerve morphogenesis, regulation of circadian sleep/wake cycle) with a few reproductive-related terms (acrosome reaction, generation of ovulation cycle rhythm) and steroid biosynthesis. There isn\u2019t a single coherent biological function that ties all terms together, so the cluster cannot be confidently labeled with a specific shared function beyond a broad, uncertain link to neural/circadian and reproductive processes.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006694","count":1},{"id":"GO:0001508","count":1},{"id":"GO:0007340","count":1},{"id":"GO:0071420","count":1},{"id":"GO:0007210","count":1}]},{"hash":"1650368335849997903","title":"Plant blue-light signaling and circadian rhythm","description":"This cluster is dominated by plant-specific light sensing and circadian regulation terms, especially blue-light phototransduction and circadian control of gene expression and calcium oscillation, with supporting terms for meristem growth and locomotor rhythm.","confidence":"High","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010075","count":3},{"id":"GO:0071000","count":3},{"id":"GO:0010617","count":3},{"id":"GO:0032922","count":3},{"id":"GO:2000850","count":3}]},{"hash":"2077679901421983127","title":"Neural development and visual-dopaminergic signaling","description":"This cluster is dominated by GO terms related to nervous system development (including Schwann cell development), visual system functions (visual perception and visual learning), and dopaminergic signaling (synaptic transmission) with behavioral responses to cocaine. These terms together point to a core theme of neural development and sensory/dopaminergic pathways, with some peripheral development signals (e.g., heart, mitotic cycle) that may reflect broader developmental ties but do not outweigh the central nervous system focus.","confidence":"Medium","size":11,"edges":8,"triangles":2,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0071380","count":4}]},{"hash":"803624932962310664","title":"DNA Replication and Genome Maintenance","description":"Dominant GO terms center on DNA replication and associated processes: DNA replication (GO:0006260), DNA strand elongation (GO:0006271), pre-replicative complex assembly (GO:0006267), and DNA-templated transcription (GO:0006351) with base-excision repair (GO:0006284). These indicate a core theme of genome duplication and maintenance; there is also a secondary signal of redox homeostasis (GO:0045454) and some context-specific terms that may reflect organismal background rather than core function. Overall, the cluster seems to represent proteins involved in replication, repair, and genome integrity.","confidence":"Medium","size":11,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006915","count":3},{"id":"GO:0006284","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0045454","count":2}]},{"hash":"744516024543924360","title":"Cardiovascular development and renin-angiotensin signaling","description":"The GO terms show a clear focus on heart development (epithelial-to-mesenchymal transition in endocardial cushion formation), angiogenesis, and regulation of blood pressure via the renin-angiotensin system, supported by signaling and differentiation processes typical of developmental cardiovascular biology. While a couple of terms point to immune or host interactions, they are less representative of the cluster\u2019s main theme.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":2},{"id":"GO:0006509","count":1},{"id":"GO:0019885","count":1},{"id":"GO:0030154","count":1},{"id":"GO:0007267","count":1}]},{"hash":"1552023516690762245","title":"Neural cyclic nucleotide signaling","description":"This cluster centers on signaling pathways involving cyclic nucleotides (cGMP, cAMP) and their effects on membrane potential, with GO terms for cellular responses to these messengers and related regulation, plus cerebellar-related development and activity terms. The mix suggests a neural/cerebellar context focused on cyclic nucleotide signaling and membrane excitability, though the presence of some outlier terms and low connectivity keeps confidence at a moderate level.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0010754","count":3},{"id":"GO:0071321","count":3},{"id":"GO:0009409","count":3}]},{"hash":"557289469867184101","title":"mRNA Splicing and Translation Regulation","description":"The top GO terms cluster around RNA processing and control of gene expression at both the splicing and translation levels: spliceosome-mediated splicing, alternative splicing regulation, splice site recognition, and mRNA modification/stabilization, plus formation of the translation preinitiation complex and related translation control. While a couple terms touch on development or viral-specific translation, the overall pattern is coherent around RNA maturation and translation regulation. ","confidence":"High","size":11,"edges":31,"triangles":14,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":2},{"id":"GO:0006376","count":2},{"id":"GO:0075525","count":2},{"id":"GO:1900363","count":2},{"id":"GO:0045292","count":2}]},{"hash":"2205294959742514553","title":"Unknown","description":"The top GO terms span neural development, signaling regulation, ubiquitination, cell cycle, metabolism, and seed biology, with no clear single function tying the proteins together, and there are no edges among them. This suggests the set does not form a cohesive functional cluster, so Unknown is the most appropriate label.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0010754","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0051301","count":2}]},{"hash":"431881206632400862","title":"Cerebellar development and neural signaling","description":"This cluster is dominated by terms tied to cerebellar development (Bergmann glial cell differentiation, cerebellar cortex formation) and broader signaling pathways (insulin receptor signaling, T cell receptor signaling), with additional entries related to cell cycle regulation and protein export. The strongest cohesion appears to be neural development and signaling processes, centered on the cerebellum, with ancillary cell-cycle controls indicating coordinated regulation during development. ","confidence":"Medium","size":11,"edges":29,"triangles":31,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034501","count":9},{"id":"GO:0045736","count":9},{"id":"GO:2001275","count":8},{"id":"GO:0008286","count":8},{"id":"GO:0060020","count":8}]},{"hash":"2058755261096975332","title":"Hormone-regulated organ development","description":"This cluster shows organ morphogenesis terms (atrioventricular canal morphogenesis; metanephric distal convoluted tubule development) alongside hormone signaling responses (FSH, GnRH) and TGF-beta receptor assembly, indicating a theme of developmental processes governed by endocrine and growth factor signals.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0032354","count":2},{"id":"GO:0007181","count":2},{"id":"GO:0072221","count":2}]},{"hash":"745163427531649861","title":"Nuclear RNA Processing and Transport","description":"This cluster is characterized by GO terms centered on nuclear processes: transcriptional regulation by RNA polymerase II, mRNA export from the nucleus, import of splicing factors/hnRNPs, ribosomal subunit export, and regulation of protein export from the nucleus, along with localization to kinetochores and centrosomes, suggesting a core function in RNA processing and nuclear trafficking with links to cell-cycle regulation. The xenobiotic response term is a peripheral association that may reflect broader stress-responsive nuclear signaling. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0006406","count":4},{"id":"GO:0034501","count":3},{"id":"GO:0000056","count":3},{"id":"GO:0035048","count":3}]},{"hash":"1932251565054880428","title":"Autophagy Subtypes (mitophagy, nucleophagy, glycophagy)","description":"Based on the top GO terms, the proteins are enriched for various autophagy-related processes: autophagy of mitochondrion, glycophagy, piecemeal microautophagy of the nucleus, autophagosome assembly, and the Cvt pathway. While a couple of terms (e.g., midbrain-hindbrain boundary morphogenesis) are less related and may reflect noise, the dominant function theme across the set is autophagy and organelle-specific degradation, suggesting these proteins cluster around autophagy pathways across organisms.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035096","count":1},{"id":"GO:0061723","count":1},{"id":"GO:0000422","count":1},{"id":"GO:0034727","count":1},{"id":"GO:0006501","count":1}]},{"hash":"1841486413092411822","title":"Transmembrane Transport and Exocytosis Regulation","description":"The GO terms highlight membrane transport activities (GABA, ammonium, carnitine, polyamines, and ion transport) along with osmoregulatory processes (cell volume homeostasis, hypotonic salinity response) and regulation of exocytosis/signaling. Together these indicate a cohesive theme of membrane transport and its regulation, rather than a single transporter class, justifying a label centered on transmembrane transport and its regulatory aspects.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045921","count":2},{"id":"GO:0098713","count":1},{"id":"GO:1902269","count":1},{"id":"GO:0006884","count":1},{"id":"GO:0015812","count":1}]},{"hash":"573325644358612345","title":"Ubiquitin-dependent protein turnover and NF-\u03baB/apoptosis regulation","description":"The cluster is dominated by ubiquitination-related GO terms (autoubiquitination, K6/K48/K63-linked ubiquitination) and ubiquitin-dependent degradation, plus peroxisome matrix import tied to ubiquitin recycling, and regulatory terms for NF-\u03baB signaling and apoptosis. Taken together, they point to a module centered on ubiquitin-mediated protein turnover with downstream consequences on NF-\u03baB signaling and cell death.","confidence":"High","size":11,"edges":7,"triangles":0,"max_degree":3,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0051865","count":7},{"id":"GO:0085020","count":7},{"id":"GO:0030433","count":7},{"id":"GO:0070936","count":6},{"id":"GO:0070534","count":6}]},{"hash":"1110493426161851341","title":"Ubiquitin-Mediated Chromatin Regulation and Base-Excision Repair","description":"The cluster is dominated by ubiquitination/deubiquitination terms (including histone H2A deubiquitination) and base-excision repair terms, indicating a theme of ubiquitin-regulated chromatin dynamics linked to DNA repair. While a few signaling terms appear, the strongest signal centers on ubiquitin signaling influencing chromatin state and repair processes.","confidence":"High","size":11,"edges":8,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0006284","count":2},{"id":"GO:0097510","count":2},{"id":"GO:0035522","count":2},{"id":"GO:0035871","count":2}]},{"hash":"2288734139940563806","title":"ECM remodeling and cell migration","description":"The terms cohere around movement and remodeling of the extracellular matrix: integrin-mediated signaling, metallopeptidase activity, and hyaluronan metabolism support adhesion, matrix modification, and cell migration (extravasation and substrate-dependent migration). Growth plate chondrocyte morphogenesis and dendrite regeneration point to developmentally driven tissue remodeling, while proton and calcium transport reflect supporting membrane processes. Overall, the cluster centers on cells moving through and altering their matrix.","confidence":"Medium","size":11,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":3},{"id":"GO:0070588","count":3},{"id":"GO:0014883","count":3},{"id":"GO:0031104","count":2},{"id":"GO:0045123","count":2}]},{"hash":"448928959515864185","title":"RNA Processing and Export Regulators","description":"The terms point to regulation of helicase activity, mRNA export from the nucleus, and ATP-dependent processes, which together suggest proteins involved in RNA metabolism and export regulation, despite the lack of observed interactions in this cluster. Confidence is Low due to sparse GO term support and no edges linking proteins.","confidence":"Low","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051096","count":1},{"id":"GO:0016973","count":1},{"id":"GO:0032781","count":1}]},{"hash":"2165690929495587196","title":"GPCR signaling with calcium release and chemotaxis","description":"The enriched GO terms cluster around GPCR signaling (GPCR internalization, regulation of cAMP/PKA activity, GTPase activity) and calcium release into the cytosol, with concurrent immune cell chemotaxis (neutrophil and monocyte) and prostaglandin response terms, pointing to a theme of GPCR-driven calcium/cAMP signaling that governs chemotaxis; a visual perception term may reflect related GPCRs but does not dominate the pattern.","confidence":"Medium","size":11,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051209","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0090023","count":2},{"id":"GO:2000479","count":2},{"id":"GO:0043547","count":2}]},{"hash":"2028436750776264203","title":"Unknown","description":"The listed GO terms span very different biological areas (meiosis and synaptonemal complex assembly, rDNA maintenance, tRNA gene clustering, melanosome organization, vesicle transport between Golgi and ER, gravitropism, NK T cell differentiation, and hyaluronan biosynthesis) with no common theme or shared pathway. With zero edges and only singleton terms, there isn\u2019t a coherent function tying this set together, so no specific label beyond Unknown applies.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007130","count":1},{"id":"GO:0061088","count":1},{"id":"GO:0043007","count":1},{"id":"GO:0009959","count":1},{"id":"GO:0032438","count":1}]},{"hash":"1701210693827388789","title":"Morphogenesis and Tissue Development","description":"The cluster centers on developmental morphogenesis across multiple tissues (wing disc, follicular epithelium, metanephric development) and cellular organization (Golgi, receptor clustering, dendrite morphogenesis). Although a couple terms relate to metabolism or sensory behavior, the dominant signal is tissue patterning and construction of cellular architecture during development.","confidence":"Medium","size":11,"edges":11,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0007605","count":2},{"id":"GO:0043113","count":2},{"id":"GO:2000821","count":2},{"id":"GO:0072218","count":2}]},{"hash":"1927607586268457800","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007166","count":1},{"id":"GO:0051965","count":1},{"id":"GO:0042220","count":1},{"id":"GO:0042403","count":1},{"id":"GO:0006044","count":1}]},{"hash":"477829678441007934","title":"Mitochondrial Translation and Electron Transport","description":"The cluster\u2019s top GO terms center on mitochondrial function: mitochondrial translation, NADH to ubiquinone electron transport, and assembly of the respiratory chain, indicating a core mitochondrial protein synthesis and energy production theme. Additional signals related to protein stabilization, ubiquitin-related regulation, and cell cycle responses (including p53-mediated signaling) suggest coordinated proteome maintenance and stress response connected to mitochondrial activity. Overall, the proteins appear to participate in mitochondrial protein synthesis and respiration with links to cellular stress and cycle regulation.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":1},{"id":"GO:0034553","count":1},{"id":"GO:0032543","count":1},{"id":"GO:1901798","count":1},{"id":"GO:1904667","count":1}]},{"hash":"509325300187629494","title":"Transmembrane Transporters","description":"The top GO terms cluster around transporting various substrates across membranes\u2014phosphate ions, glucose, ascorbate (and its oxidized form), xenobiotics, and related molecules\u2014indicating a shared function as membrane transport proteins. A couple of terms touch on gut epithelial maintenance and host interaction, which could reflect the broader physiological context of transport processes, but the dominant signal is transmembrane transport activity.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":3},{"id":"GO:0006855","count":2},{"id":"GO:0006817","count":2},{"id":"GO:0019852","count":2},{"id":"GO:0070837","count":2}]},{"hash":"665722757820911284","title":"Germline translation and ER targeting","description":"The cluster includes GO terms centered on translation initiation (formation of translation preinitiation complex) and ER-related protein processing/targeting (protein targeting to ER, signal peptide processing), plus viral translation reinitiation. There are also germline development terms (germarium-derived cystoblast division, male germ-line cyst encapsulation), suggesting translational and protein maturation processes occurring in germline contexts. Overall, translation initiation and ER targeting emerge as the most coherent shared theme across the set.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060325","count":1},{"id":"GO:0042386","count":1},{"id":"GO:0032259","count":1},{"id":"GO:0010038","count":1},{"id":"GO:0006465","count":1}]},{"hash":"1859268018703371160","title":"Antibiotic biosynthesis and RNA-level regulation","description":"This cluster shows GO terms for antibiotic biosynthesis and response, plus RNA-related regulatory processes (negative regulation of translation and endoribonuclease activity) and transcription terms. The combination suggests a theme around antibiotic metabolism with RNA-level control of gene expression.","confidence":"Medium","size":11,"edges":12,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0060702","count":2},{"id":"GO:0045329","count":1},{"id":"GO:0046300","count":1},{"id":"GO:0006151","count":1}]},{"hash":"451628765835134801","title":"RNA Polymerase II Transcription Initiation and Elongation","description":"The terms cluster around RNA polymerase II transcription, including initiation at promoters, promoter clearance, start-site selection, and elongation, with mRNA capping also represented. A Pol III-related term is present but less prominent. Overall, the proteins appear linked to transcription machinery and RNA processing rather than a single downstream function.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042795","count":2},{"id":"GO:0006367","count":2},{"id":"GO:0001111","count":1},{"id":"GO:0000999","count":1},{"id":"GO:0001174","count":1}]},{"hash":"35391119494367627","title":"Dopaminergic GPCR signaling and cocaine response","description":"These proteins cluster around G protein-coupled receptor signaling with a strong emphasis on dopaminergic pathways, including dopaminergic synaptic transmission and behavioral responses to cocaine. Supporting terms point to GPCR regulation (internalization), prostaglandin signaling, and GTPase activity, consistent with GPCR signaling control. Additional terms related to blood pressure regulation and diet-induced thermogenesis suggest sympathetic involvement in energy balance, with electron transport chain activity hinting at neuronal energy needs. Overall, the dominant theme is dopaminergic GPCR signaling and its behavioral/metabolic regulation, making this label representative.","confidence":"Medium","size":11,"edges":8,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":5},{"id":"GO:0045777","count":5},{"id":"GO:0022900","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0043547","count":4}]},{"hash":"1124142627298083891","title":"Fatty acid elongation and sphingolipid biosynthesis","description":"The top GO terms are overwhelmingly about lipid metabolism, especially fatty acid elongation across saturated, monounsaturated, and polyunsaturated sets, plus very long-chain fatty acids and sphingolipid biosynthesis. A couple of terms about vesicle transport or swim bladder development are secondary and not central to the cluster\u2019s main signal. This makes \u201cFatty acid elongation and sphingolipid biosynthesis\u201d a concise, representative label.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007619","count":1},{"id":"GO:0019367","count":1},{"id":"GO:0042761","count":1},{"id":"GO:0035338","count":1},{"id":"GO:0006892","count":1}]},{"hash":"826109805041122257","title":"Fatty acid beta-oxidation and branched-chain amino acid catabolism","description":"The proteins cluster around catabolic processes for fatty acids (long-, medium-, beta-oxidation; carnitine-linked metabolism) and branched-chain amino acids (valine, leucine), suggesting a metabolism-focused group specialized in lipid and BCAA degradation. Some outliers (e.g., ascaroside biosynthesis) do not alter the main theme.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010756","count":1},{"id":"GO:0033540","count":1},{"id":"GO:0006694","count":1},{"id":"GO:0019439","count":1},{"id":"GO:0042758","count":1}]},{"hash":"591312956763600259","title":"Redox Homeostasis and Glutathione Metabolism","description":"The top terms cluster around redox biology: glutathione metabolism, redox homeostasis, and toxin catabolism, all indicative of redox balance and detoxification. A few other terms (chloride transport, developmental processes) appear as outliers or obsolete annotations, but the core signal supports a glutathione-mediated redox detox module.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006749","count":2},{"id":"GO:0009407","count":2},{"id":"GO:0045454","count":2},{"id":"GO:1902476","count":2}]},{"hash":"2285553765792041278","title":"Endosome-to-Golgi Vesicle Transport","description":"This cluster is characterized by GO terms pointing to vesicle trafficking between endosomal compartments and the Golgi apparatus (late endosome to Golgi, recycling endosome to Golgi, regulation of vesicle fusion, Rab signaling). The combination of these terms strongly supports a role in endosome-to-Golgi transport and related Rab-mediated trafficking, even though the network edges are absent. Lens fiber morphogenesis and some other terms appear peripheral to the main theme.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034499","count":2},{"id":"GO:0070309","count":1},{"id":"GO:1902018","count":1},{"id":"GO:0071955","count":1},{"id":"GO:0031338","count":1}]},{"hash":"1558812776905067399","title":"Cardiovascular development and Notch signaling","description":"The top GO terms converge on heart and blood vessel formation and regulation: dorsal aorta development, cardiac vascular smooth muscle cell development, VEGF-responsive vascular signaling, and transcriptional regulation downstream of Notch, with supporting signals from GPCR pathways. Although one term is obsolete, the overall theme points to cardiovascular development and its regulatory signaling networks.","confidence":"Medium","size":11,"edges":6,"triangles":1,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0007221","count":3},{"id":"GO:0035924","count":3},{"id":"GO:0045463","count":3},{"id":"GO:0035907","count":3}]},{"hash":"711802984296864415","title":"ECM remodeling and coagulation","description":"Most enriched terms describe extracellular matrix organization and assembly (collagen fibril organization, elastic fiber assembly) and blood coagulation (fibrin clot formation). These point to a cluster of structural/assembly proteins involved in connective tissue remodeling and clotting, with a few apoptosis and signaling terms appearing secondary. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072378","count":3},{"id":"GO:0030199","count":2},{"id":"GO:0051258","count":2},{"id":"GO:0048251","count":2},{"id":"GO:0043277","count":2}]},{"hash":"899013473046070059","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0000480","count":2},{"id":"GO:0000920","count":2},{"id":"GO:0000462","count":2}]},{"hash":"2198702423485192220","title":"RNA Pol II transcription and cell cycle control","description":"The top GO terms cluster around RNA polymerase II\u2013mediated transcription and its regulation, along with DNA replication and the G1/S transition, suggesting a cohesive theme of gene expression linked to cell cycle progression. Some terms (sensory perception of sound, myelination, root hair development) are less related and may reflect annotation noise, but the core signal points to transcriptional control and genome maintenance.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006366","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0022011","count":2}]},{"hash":"70563893909947096","title":"Developmental signaling and differentiation","description":"The cluster is enriched for developmental processes (brain development, gastrulation, osteoblast differentiation) along with signaling-related terms (regulation of GTPase activity, protein serine/threonine kinase activity). While a few terms are peripheral (peroxisome targeting, cell cycle regulation), the dominant theme is development and signaling/differentiation. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":3},{"id":"GO:0007420","count":2},{"id":"GO:0070317","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0001649","count":2}]},{"hash":"1558599280300772772","title":"Developmental Signaling and RNA Processing","description":"The top terms include multicellular and skin development, signaling-related activities (GTPase and kinase regulation, autophosphorylation), along with RNA processing processes (mRNA transport and RNA methylation). This points to a cluster combining developmental signaling pathways with post-transcriptional regulation, even though the proteins are not connected by edges. Confidence: Medium","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0071902","count":2},{"id":"GO:0051028","count":2},{"id":"GO:0007275","count":2}]},{"hash":"1742504101018651093","title":"Golgi-centric Vesicle Trafficking and Autophagy","description":"The cluster is dominated by GO terms for intracellular vesicle transport involving the Golgi, ER and vacuolar pathways (ER-to-Golgi vesicle transport; intra-Golgi transport; Golgi-to-vacuole transport; endosome-to-Golgi retrograde transport; vesicle fusion with the Golgi; vacuole fusion). There is also an autophagy term (macroautophagy). Taken together, the proteins likely function in Golgi-centered vesicle trafficking and related autophagic processes; one muscle-movement GO term appears unrelated and may be noise.","confidence":"High","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048280","count":1},{"id":"GO:1903076","count":1},{"id":"GO:0042147","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0006891","count":1}]},{"hash":"1657770577722826957","title":"Unknown","description":"The Top Terms are a mix of plant-specific processes (stamen formation, chlorophyll biosynthesis) and general cellular processes (proteasome assembly, ubiquitin-dependent catabolic, GTPase regulation, JNK signaling) along with neuronal development terms (dendrite extension, neuron apoptosis). There is no cohesive, single functional theme tying all terms together, and the terms span different biological contexts, so a precise, representative label cannot be confidently assigned.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048455","count":1},{"id":"GO:0015995","count":1},{"id":"GO:0043248","count":1},{"id":"GO:0006511","count":1},{"id":"GO:0018279","count":1}]},{"hash":"494397438218791401","title":"Cardiac valve development and endocardial cushion formation","description":"This cluster centers on heart development, especially mitral valve formation and endocardial cushion migration, with supporting cues from cell migration and actin remodeling (lamellipodium assembly, Rac signaling, JNK regulation) and cell adhesion. The mix of EMT-related processes, cytoskeletal dynamics, and valve morphogenesis strongly suggests proteins functioning in cardiac valve development and cushion formation. An outlier term about ossification is present but does not override the apparent cardiac-focused theme.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072137","count":2},{"id":"GO:0003192","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0097150","count":2}]},{"hash":"1863008106352263803","title":"Unknown","description":"The terms are highly diverse and only a few point to RNA surveillance (non-stop decay, mRNA catabolic process) while others pertain to development, glycosaminoglycan biosynthesis, cell division, phosphorylation, and metabolism, with several entries marked obsolete. There is no clear unified function tying all 11 proteins together, so I cannot assign a cohesive label.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":3},{"id":"GO:0015015","count":3},{"id":"GO:0070651","count":2},{"id":"GO:0070481","count":2},{"id":"GO:0051301","count":2}]},{"hash":"1477990944650250057","title":"mRNA export and translation regulation","description":"The top GO terms point to post-transcriptional control of gene expression, notably mRNA export/transport and regulation of translation initiation/termination, suggesting the cluster centers on RNA processing and translational control. Other terms involve signaling and cell cycle, which may reflect broader regulatory roles but do not override the core RNA-focused theme.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070431","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0006449","count":1},{"id":"GO:0016973","count":1}]},{"hash":"971494190988637168","title":"Vacuolar amino acid transport","description":"The top GO terms indicate transmembrane import of multiple amino acids into the vacuole (tyrosine, glutamate, serine, proline, glutamine), pointing to a shared function of amino acid transport into the vacuolar compartment.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007166","count":1},{"id":"GO:0051965","count":1},{"id":"GO:0042220","count":1},{"id":"GO:0090514","count":1},{"id":"GO:0006867","count":1}]},{"hash":"1169186427621087828","title":"Unknown","description":"The GO terms span nucleic acid and carbohydrate catabolic processes, various glycogen metabolism regulations, and regulatory roles in calcium signaling and vacuole fusion, with no single cohesive function dominating. This diversity makes a precise, representative label unreliable.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090503","count":1},{"id":"GO:0006308","count":1},{"id":"GO:0019700","count":1},{"id":"GO:0019556","count":1},{"id":"GO:0006209","count":1}]},{"hash":"1982158197895792801","title":"Developmental and Immune Signaling","description":"This cluster includes GO terms for limb development, osteoblast differentiation, and lung alveolus development, indicating developmental roles, alongside immune-related terms such as neutrophil chemotaxis and macrophage cytokine production, suggesting immune signaling involvement. The thyroid hormone metabolic process and regulation of IGF receptor signaling point to hormonal modulation of these processes. With no edges and only single-term representations, the set appears to reflect a broad, non-cohesive mix of development and immune regulation rather than a single pathway.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090023","count":1},{"id":"GO:0001649","count":1},{"id":"GO:0060173","count":1},{"id":"GO:0043569","count":1},{"id":"GO:0035691","count":1}]},{"hash":"1041742978556730240","title":"Unknown","description":"The GO terms are highly heterogeneous, covering development (mammary gland, brain), steroid metabolism (testosterone, androgen), and a mix of regulatory and cellular processes (transcription elongation, protein unfolding, replication signaling, respiration, viral replication, ubiquitin peptidase activity), with no clear single theme tying them together.","confidence":"","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030879","count":2},{"id":"GO:0061370","count":2},{"id":"GO:0008209","count":2},{"id":"GO:0007420","count":1},{"id":"GO:0032968","count":1}]},{"hash":"747797714046198351","title":"Developmental transcription and differentiation with innate immune signaling","description":"The cluster centers on transcriptional regulation linked to diverse developmental processes (embryo development, Leydig and mammary gland differentiation, neuron maturation). The presence of innate immune terms (TLR9 signaling, LPS response) alongside cell-cycle regulation hints at coordination between development, lineage specification, and innate signals. This label captures the core theme of developmental transcription with immune-related modulation.","confidence":"Medium","size":10,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0033327","count":3},{"id":"GO:0060749","count":3},{"id":"GO:0001701","count":2},{"id":"GO:0042551","count":2}]},{"hash":"1870697192672552258","title":"Tissue Development and Morphogenesis","description":"The proteins are enriched for GO terms centered on developmental processes across tissues\u2014brain and midbrain morphogenesis, spermatid and male gonad development, osteoblast differentiation, and general growth\u2014indicating a shared theme of tissue development and differentiation. Some terms reflect broader cellular or regulatory contexts, but the dominant signal is developmental/morphogenetic activities across multiple tissues.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0007286","count":3},{"id":"GO:0003100","count":2},{"id":"GO:0032258","count":2}]},{"hash":"1562762178524519434","title":"Growth control and tissue development signaling","description":"The cluster centers on core growth and developmental signaling: mitotic cell cycle, Wnt and Hippo pathways, apoptosis, and differentiation programs in keratinocytes and skeletal muscle, along with immune signaling (B cell receptor). While a couple terms (e.g., visual perception) may be annotations or noise, the prevailing themes are proliferation control and tissue development via signaling cascades.","confidence":"High","size":10,"edges":33,"triangles":42,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0007601","count":8},{"id":"GO:0033160","count":7},{"id":"GO:0030216","count":7},{"id":"GO:0006915","count":7}]},{"hash":"95498742594789240","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000103","count":3},{"id":"GO:0042403","count":2},{"id":"GO:0006044","count":2},{"id":"GO:0002002","count":2},{"id":"GO:0050427","count":2}]},{"hash":"140761277620981983","title":"Neural and Organ Development","description":"The terms cluster around developmental processes, especially neural development (Schwann cell development, axonogenesis, visual perception, excitatory postsynaptic potentials) and organogenesis (heart development, multicellular organism development). A few terms pertain to general cell cycle and division, reflecting broader developmental roles, but the dominant signal is neural and organ development.","confidence":"Medium","size":10,"edges":4,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":8},{"id":"GO:0014044","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0007601","count":8},{"id":"GO:0007409","count":8}]},{"hash":"537586858077972561","title":"DNA replication and cell cycle checkpoint signaling","description":"This cluster centers on DNA replication, replication fork dynamics, and checkpoint signaling linked to cell cycle control (cohesin establishment, fork arrest, and DNA damage signaling), with RNA processing terms likely peripheral noise.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071515","count":1},{"id":"GO:0034087","count":1},{"id":"GO:0007049","count":1},{"id":"GO:0048478","count":1},{"id":"GO:0031573","count":1}]},{"hash":"1681264849541394849","title":"Vesicle trafficking and lysosome function in development","description":"This cluster centers on vesicle trafficking and lysosome-related processes (phagosome-lysosome fusion, synaptic vesicle budding, lysosomal pH), with development-related terms (spermatid development, neuroblast and osteoblast proliferation) and some immune/neural context terms. The common thread appears to be vesicle transport and lysosome function influencing development across tissues, rather than a single tightly shared pathway. ","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":3},{"id":"GO:0010629","count":2},{"id":"GO:2000222","count":2},{"id":"GO:0043316","count":2},{"id":"GO:0090385","count":2}]},{"hash":"8091916527562464","title":"Unknown","description":"The terms span innate immune signaling (complement activation lectin pathway, Toll signaling regulation), extracellular matrix remodeling (glomerular basement membrane development, elastin catabolic process, fibrinolysis, angiogenesis), and some unrelated sensory/metabolic terms, with no single dominant function tying all proteins together.","confidence":"","size":10,"edges":12,"triangles":4,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0032836","count":2},{"id":"GO:0045752","count":2},{"id":"GO:0060309","count":2},{"id":"GO:0070946","count":2}]},{"hash":"2014791454238498090","title":"Regulated signaling and cellular processes","description":"This cluster shows enrichment for GO terms involving regulation of GTPase activity, kinase activity, cytokinesis, and cell proliferation, along with calcium release, mRNA transport, and regulation of opsin signaling. The common thread is broad regulation of signaling pathways and essential cellular functions, rather than a single concrete pathway; some terms (karyogamy, amphetamine response) are less central but still fit within the theme of regulatory roles.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0000742","count":2},{"id":"GO:0001975","count":2},{"id":"GO:0071902","count":2},{"id":"GO:0032465","count":2}]},{"hash":"724324994212268877","title":"Neural development and behavior","description":"The terms pull strongly toward nervous system roles: cerebellum maturation, locomotory behavior, startle response, circadian sleep/wake regulation, and neuron survival. Calcium ion import and transcriptional activity fit neural signaling and developmental programs, suggesting proteins functioning in neural development and activity rather than non-neural processes.","confidence":"High","size":10,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0098703","count":2},{"id":"GO:0045188","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0001964","count":2},{"id":"GO:0007340","count":2}]},{"hash":"2241147119896429849","title":"Regulatory signaling and transport","description":"Top GO terms point to diverse regulatory roles including signaling (GTPase regulation, serine/threonine kinase activity, autophosphorylation), transport (glucose transmembrane, mRNA), chromatin modification, stress response, and neuronal transmission. The functions are scattered rather than converging on a single pathway, so the label reflects a general theme of regulatory roles across processes, with Low confidence.","confidence":"Low","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0071902","count":2},{"id":"GO:0051028","count":2},{"id":"GO:0031954","count":2}]},{"hash":"1776410247068060755","title":"Multitissue Developmental Differentiation","description":"These terms cluster around developmental differentiation across tissues (neural, cardiac, vascular) and associated transcriptional regulation, with axonogenesis, Schwann cell development, heart development, and angiogenesis, plus general processes like DNA-templated transcription and G2/M transition. Some terms (abscisic acid signaling, meiotic DNA repair) are outliers that reduce cohesion, so the label is best described as a broad developmental differentiation cluster with moderate confidence.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000706","count":3},{"id":"GO:0007409","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0001525","count":3}]},{"hash":"1145638521069099073","title":"Developmental transcriptional regulation and signaling","description":"The cluster centers on transcriptional control (DNA-templated transcription) and development-related processes (brain development, osteoblast differentiation), with associated signaling regulation (GTPase and serine/threonine kinase activity). While a few terms appear peripheral (peroxisome targeting, viral mRNA export) the core theme is transcriptional regulation linked to developmental signaling.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0061087","count":3},{"id":"GO:0007420","count":2},{"id":"GO:0070317","count":2},{"id":"GO:0043547","count":2}]},{"hash":"2072641627380750957","title":"Neural development and cell cycle regulation","description":"The top terms blend core cell cycle processes (DNA replication, G1/S transition, mitotic centrosome separation, and kinetochore localization) with neural-related functions (Schwann cell development and excitatory postsynaptic potential) and signaling pathways (insulin signaling, response to cocaine). This suggests a cluster of proteins involved in neural progenitor proliferation and subsequent neural signaling/differentiation, linking cell-cycle control to neural development. Some outliers (meiotic cycle, obsolete term) exist, but the dominant theme points to neural development intertwined with cell-cycle regulation.","confidence":"Medium","size":10,"edges":9,"triangles":3,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0014044","count":5},{"id":"GO:0042220","count":5},{"id":"GO:0060079","count":5},{"id":"GO:0000082","count":5}]},{"hash":"307404347312671887","title":"Steroid and retinoid lipid metabolism","description":"The top GO terms cluster around retinoid metabolism (retinol, retinal) and lipid/steroid pathways (testosterone biosynthesis, steroid catabolic, very long-chain fatty acids, 3-keto-sphinganine). This suggests a cohesive theme of lipid and vitamin A/steroid metabolism, with a couple of outliers (tropane alkaloid biosynthesis, sporulation) that may reflect annotation noise or broader secondary metabolism.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0042574","count":5},{"id":"GO:0042572","count":5},{"id":"GO:0061370","count":4},{"id":"GO:0042761","count":4}]},{"hash":"158914302870439066","title":"Unknown","description":"The top GO terms span translation, regulation of translation initiation, antibiotic biosynthesis, cell cycle regulation, viral transcription, synaptic bouton organization, and hormone signaling, with no single cohesive function tying all proteins together. This suggests the cluster lacks a clear, shared biological theme, so Unknown with None. ","confidence":"","size":10,"edges":19,"triangles":18,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0017000","count":2},{"id":"GO:1901194","count":1},{"id":"GO:0072553","count":1},{"id":"GO:0010389","count":1}]},{"hash":"603275199754141242","title":"Translation initiation and ribosome maturation","description":"The terms cluster around translation initiation/regulation (preinitiation complex formation, reinitiation, IRES-driven initiation) and cytoplasmic translation, alongside maturation of rRNA (5.8S and LSU) and RNA methylation, all pointing to ribosome biogenesis and translational control. An outlier term (skeletal system development) appears to be noise.","confidence":"High","size":10,"edges":17,"triangles":12,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0075525","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0075522","count":2}]},{"hash":"377107004913202923","title":"Unknown","description":"The top GO terms span neuronal signaling and memory (response to amphetamine, excitatory postsynaptic potential, long-term memory) but also include disparate processes (calcium transport, regulation of DNA binding, protein sumoylation, GTPase regulation, and development in kidney and fungal spores). With no clear unifying function and no edges connecting proteins, there isn\u2019t a coherent theme to name the cluster.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001975","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0007616","count":2},{"id":"GO:0043388","count":2},{"id":"GO:0006816","count":2}]},{"hash":"1474751830773151775","title":"Translation and Cell Cycle Machinery","description":"The cluster centers on translation (both cytosolic and mitochondrial) and cell cycle processes (cell division and cell cycle), with a couple of neuronal-related terms suggesting additional signaling roles; overall, the dominant themes are protein synthesis and cell proliferation, with some peripheral nervous system connections.","confidence":"Medium","size":10,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0032543","count":2},{"id":"GO:0070126","count":1}]},{"hash":"1139388210630321656","title":"Integrin signaling and angiogenesis regulation","description":"The top GO terms cluster around cell adhesion and integrin-mediated signaling, with both negative and positive regulation of angiogenesis, suggesting a functional focus on adhesion-driven signaling pathways that modulate vascular development. While other terms (cuticle molting, neuron differentiation, dendritic cell antigen processing) appear divergent, the core theme centers on adhesion-related signaling and its impact on angiogenesis.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007155","count":2},{"id":"GO:0010751","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0043569","count":2}]},{"hash":"1243292066274515766","title":"Unknown","description":"The top GO terms span calcium ion import, immune and neuronal differentiation, and general signaling, with no single unifying function for all proteins. The cluster has only one edge and no triangles, and several terms are obsolete, making it unclear what cohesive function ties the proteins together. Thus, Unknown with confidence None.","confidence":"","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0098703","count":2},{"id":"GO:1901187","count":1},{"id":"GO:0002268","count":1},{"id":"GO:0035544","count":1},{"id":"GO:0061408","count":1}]},{"hash":"1959482354354088240","title":"Cardiac development and Hedgehog/Notch signaling with proteostasis","description":"This cluster centers on heart-related development terms (cardiac right atrium morphogenesis; regulation of secondary heart field cardioblast proliferation; venous endothelial differentiation) and signaling pathways (Hedgehog/Notch), with supporting notes on protein turnover (proteasome assembly, ubiquitination/ERAD) and cell cycle. The combination suggests a coordinated program where cardiac development is modulated by Hedgehog/Notch signaling and protein homeostasis, despite no direct interactions shown in the edges. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045880","count":3},{"id":"GO:0003213","count":3},{"id":"GO:0060843","count":3},{"id":"GO:0003270","count":3},{"id":"GO:0070682","count":3}]},{"hash":"199424128753616458","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":10,"triangles":4,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006369","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0000462","count":3}]},{"hash":"1377019443561832278","title":"NF-kappaB/JNK inflammatory signaling and apoptosis","description":"Proteins in this cluster center on immune/inflammatory signaling and cell fate decisions, with GO terms for NF-kappaB activation, JNK cascade regulation, T cell proliferation, apoptosis, and ubiquitination/sumoylation. Additional terms for LPS signaling and NOS regulation support a theme of immune responsiveness, while epigenetic regulation and microtubule regulation hint at broader stress and gene-expression control. Overall, the cluster reflects coordinated signaling for inflammation and cell fate. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0043045","count":2},{"id":"GO:0007026","count":2},{"id":"GO:0050999","count":2},{"id":"GO:0031664","count":2}]},{"hash":"1061490738380400785","title":"RNA Pol II Transcription Regulation","description":"Most frequent GO terms point to transcription control, especially DNA-templated transcription and negative regulation of transcription by RNA polymerase II, including regulation of the preinitiation complex. While there are some development and growth terms, the core signal is transcriptional regulation by RNA Pol II, with ancillary associations to cell cycle and proliferation.","confidence":"High","size":10,"edges":20,"triangles":13,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0000122","count":3},{"id":"GO:2000020","count":3},{"id":"GO:0070384","count":3},{"id":"GO:0060534","count":3}]},{"hash":"2224270781590326108","title":"Unknown","description":"The top GO terms are highly diverse, spanning fatty acid beta-oxidation, antibiotic biosynthesis, exocytosis, cell wall-related glucan biosynthesis, plant ovule morphogenesis, and several neural development pathways (various motor neuron and dopaminergic neuron fates) as well as immune signaling regulation. This broad mix shows no single cohesive function tying the proteins together, so a specific, representative label cannot be assigned beyond Unknown.","confidence":"","size":10,"edges":24,"triangles":36,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006635","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0006887","count":2},{"id":"GO:0090334","count":2},{"id":"GO:0021524","count":2}]},{"hash":"1953052684345554369","title":"Developmental signaling and epithelial polarity","description":"The cluster\u2019s top terms center on regulation of developmental signaling pathways (Hedgehog via Smoothened, Notch target transcription), cell adhesion and epithelial polarity, and organ development (eye, coronary vasculature). This points to proteins involved in signaling-driven tissue morphogenesis and epithelial organization, with some peripheral processes like ER-Golgi transport and learning. Hence a label emphasizing developmental signaling and epithelial polarity is appropriate.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045880","count":3},{"id":"GO:0010811","count":3},{"id":"GO:0071372","count":3},{"id":"GO:0045197","count":2},{"id":"GO:0007612","count":2}]},{"hash":"643321687786744398","title":"Forebrain neural development and axon guidance","description":"The top GO terms cluster around neural development and axon biology: fasciculation and extension of sensory neuron axons, axon guidance, forebrain development, and related cell\u2013matrix adhesion and developmental processes. This pattern suggests the proteins work together to establish neural connections in the forebrain, consistent with a neural development/axon guidance module.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097155","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0007160","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0030900","count":4}]},{"hash":"433787254341157711","title":"Unknown","description":"The terms are highly diverse, including sensory perception of sound and action potential (neural themes), postsynaptic membrane organization, plant-specific guard cell morphogenesis, various glycosylation and metabolic processes, and ion homeostasis. This mix spans distinct biological contexts (animal nervous system vs. plant development) with no clear shared function or pathway tying all proteins together, so a cohesive label isn\u2019t supported.","confidence":"","size":10,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0018279","count":1},{"id":"GO:0015693","count":1},{"id":"GO:0035269","count":1},{"id":"GO:0010442","count":1}]},{"hash":"2169038315849529879","title":"Developmental signaling and tissue remodeling","description":"This cluster mixes signaling pathway terms (cell surface receptor tyrosine kinase signaling; CAMKK-AMPK regulation), cell migration in angiogenesis and neural contexts, and extracellular matrix remodeling (collagen fibril organization; bone remodeling). While the GO terms are varied, they collectively point to signaling-driven morphogenesis and tissue remodeling during development.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051685","count":1},{"id":"GO:0007169","count":1},{"id":"GO:1905289","count":1},{"id":"GO:0061290","count":1},{"id":"GO:0046849","count":1}]},{"hash":"1750814469916586630","title":"Neuronal RNA Processing and Transcription Regulation","description":"This cluster shows strong signals for RNA processing (spliceosome assembly, mRNA splicing, polyadenylation) and transcription regulation (termination and control of RNA Pol II), alongside neural development cues (midbrain development, positive regulation of synapse assembly). Together, they point to a group of proteins coordinating RNA maturation and gene expression in neurons and synaptic formation. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030901","count":2},{"id":"GO:0000387","count":2},{"id":"GO:0036066","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0045292","count":2}]},{"hash":"984012277690089726","title":"Bacterial LPS and Exopolysaccharide Biosynthesis","description":"The most represented GO terms are lipopolysaccharide biosynthetic process and extracellular polysaccharide biosynthetic process, both pointing to bacterial cell envelope component synthesis. The cluster thus likely groups proteins involved in surface polysaccharide production. The other terms are diverse (DNA repair, helicase regulation, development), suggesting some annotation noise, but the dominant signal is LPS/exopolysaccharide biosynthesis.","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045226","count":2},{"id":"GO:0009103","count":2},{"id":"GO:0036297","count":1},{"id":"GO:0006119","count":1},{"id":"GO:0048304","count":1}]},{"hash":"917364813129361295","title":"Unknown","description":"Top GO terms span adaptive immune response, cofactor biosynthesis, infection structure formation, lysosome localization, GTPase activity regulation, cell-cell adhesion, guanylate kinase clustering, and osteoblast differentiation, among others. The terms do not converge on a single biological process or pathway, and the lack of network edges supports a mixed or random collection rather than a cohesive functional cluster.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":2},{"id":"GO:0032324","count":1},{"id":"GO:0006777","count":1},{"id":"GO:0075015","count":1},{"id":"GO:1903286","count":1}]},{"hash":"2291395833346724896","title":"Spermatogenesis-Linked Transcription Regulation","description":"The cluster is dominated by GO terms tied to RNA polymerase II transcription regulation (negative regulation, preinitiation complex assembly), with supporting signals from male gonad development and spermatogenesis. Chromatin modulation (histone H3 acetylation) aligns with transcriptional control mechanisms in germ cells, suggesting a germline-specific transcription regulatory theme, despite a few outlier terms.","confidence":"Medium","size":10,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0008584","count":3},{"id":"GO:0007283","count":3},{"id":"GO:0061408","count":3},{"id":"GO:0043966","count":3}]},{"hash":"2246151735086249248","title":"Chromatin dynamics","description":"Most frequent terms cluster around nucleosome assembly/disassembly and subtelomeric heterochromatin formation, pointing to chromatin structure regulation as the core function. While other terms touch on development and regulation, they can be broadly linked to processes influenced by chromatin state. Therefore, a label centered on chromatin remodeling and heterochromatin maintenance best represents the cluster.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":2},{"id":"GO:0097421","count":2},{"id":"GO:0006337","count":1},{"id":"GO:0031496","count":1},{"id":"GO:1903770","count":1}]},{"hash":"1337091438251048543","title":"Ephrin-Eph signaling in neural and bone remodeling","description":"The top GO terms point to ephrin receptor signaling, retinal ganglion cell axon guidance, and optic vesicle morphogenesis, which all center on neural/eye development, while osteoclast differentiation and bone remodeling indicate a parallel role for Eph/Ephrin signaling in skeletal remodeling; additional terms related to cell adhesion and downstream MAPK/tyrosine phosphorylation reflect the signaling cascade, suggesting a cohesive theme where Eph/ephrin signaling coordinates neural connectivity and bone remodeling.","confidence":"High","size":10,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048668","count":2},{"id":"GO:0003404","count":2},{"id":"GO:0030316","count":2},{"id":"GO:0007628","count":2},{"id":"GO:0031290","count":2}]},{"hash":"2148384401622804208","title":"Cardiac Electrophysiology and Ion Transport","description":"This cluster is dominated by GO terms tied to ion import (calcium and potassium), membrane repolarization, and cardiac muscle action potential and contraction, as well as regulation of heart rate via cardiac conduction. These points point to a shared function in cardiac electrophysiology and heart rhythm control. A few terms on temperature response and circadian regulation are present but less central to the core theme.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002024","count":2},{"id":"GO:0071502","count":2},{"id":"GO:0007626","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0098703","count":2}]},{"hash":"1496101016846417207","title":"Ribosome Biogenesis and Secretory Trafficking","description":"The top GO terms cluster around both protein synthesis and the secretory pathway: cytoplasmic translation, ribosome biogenesis, SRP-dependent cotranslational targeting to the membrane, and positive regulation of ER exit and protein localization to the cell surface, plus secretion of lysosomal enzymes. This points to a cohesive set of proteins involved in ribosome production and directing ribosome-associated proteins through the secretory pathway to membranes and extracellular compartments. A few immune- or growth-related terms are present but seem peripheral to the main theme.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007124","count":2},{"id":"GO:0001403","count":2},{"id":"GO:0033299","count":2},{"id":"GO:0070863","count":2},{"id":"GO:2000010","count":2}]},{"hash":"1027394598862898301","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0006283","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0000480","count":2}]},{"hash":"1822675670350149375","title":"N-terminal and Lysine Acetylation with Polyamine Metabolism","description":"This cluster is defined by strong enrichment for acetylation-related activities (N-terminal acetylation of methionine/serine and peptidyl-lysine acetylation) along with polyamine metabolism (putrescine and spermidine acetylation/catabolism), suggesting a cohesive module centered on protein acetylation and polyamine handling. A few terms (e.g., leaf formation regulation, heterochromatin formation) appear less connected and may reflect incidental annotations.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0009447","count":9},{"id":"GO:0017196","count":9},{"id":"GO:2000025","count":9},{"id":"GO:0060358","count":9},{"id":"GO:0032918","count":9}]},{"hash":"1908341306797252646","title":"Mitochondrial Translation and Metabolic Pathways","description":"The top GO terms cluster around mitochondrial biology: mitochondrial translation (glutaminyl-tRNAGln biosynthesis via transamidation), the TCA cycle, fatty acid catabolism, and acetyl-CoA biosynthesis\u2014all core to mitochondrial energy production. The presence of endoplasmic reticulum organization and a neuronal development term are less central and could be ancillary or incidental. Taken together, the cluster seems best described by mitochondrial protein synthesis coupled with energy metabolism.","confidence":"High","size":10,"edges":8,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0032543","count":2},{"id":"GO:0019876","count":2},{"id":"GO:0009062","count":2},{"id":"GO:0007029","count":2}]},{"hash":"1393596612517212","title":"Chromatin modification and transcription regulation","description":"The top GO terms center on DNA-templated transcription and histone modification/demethylation, suggesting a core function in chromatin-level regulation of gene expression. Although some demethylation terms are marked obsolete, they still reflect promoter/core histone-modifying activities. Additional terms like protein homotetramerization and responses to nutrient, starvation, and muscle activity hint at downstream regulatory interactions and stress-response links commonly associated with transcriptional control. Overall, this cluster appears to group proteins involved in chromatin regulation and transcriptional control, with supportive roles in protein complex formation and signaling.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0070544","count":2},{"id":"GO:0034720","count":2},{"id":"GO:0045668","count":2},{"id":"GO:0030961","count":2}]},{"hash":"573344190010855891","title":"Unknown","description":"The top GO terms span diverse processes (thrombin receptor signaling, Rho signaling, smooth muscle migration, innervation, norepinephrine secretion, acrosome reaction, hearing, placenta development) with no single dominant function, so a cohesive, specific label is not supported.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014912","count":2},{"id":"GO:0070493","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0060384","count":2},{"id":"GO:2001275","count":2}]},{"hash":"2059321799290154933","title":"Chromatin remodeling and epigenetic regulation","description":"The GO terms are dominated by chromatin-level processes (nucleosome disassembly, histone methylation/modification, RITS complex localization), suggesting a focus on epigenetic regulation; the few morphogenesis terms may reflect downstream developmental effects rather than a shared organ-specific function. Overall, the cluster appears centered on chromatin remodeling and gene silencing control.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060982","count":2},{"id":"GO:0034630","count":1},{"id":"GO:0006337","count":1},{"id":"GO:0097368","count":1},{"id":"GO:0006344","count":1}]},{"hash":"1231948725895361370","title":"Cardiac Development and Signaling","description":"The cluster is dominated by heart development and cardiac muscle contraction terms, with GPCR signaling also highlighted, suggesting a cardiovascular development and signaling theme. A few low-frequency outlier terms (kidney development, sporulation-related processes, etc.) are present but do not outweigh the cardiac-centric signals. Confidence: Medium.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0060048","count":2},{"id":"GO:0010801","count":1},{"id":"GO:0043547","count":1}]},{"hash":"1528297127623673057","title":"Innate Immune Activation and Leukocyte Adhesion","description":"The top GO terms cluster around innate immune pathways and leukocyte behavior: complement activation via the lectin pathway, cellular responses to fungal origin, phagocytosis recognition, leukocyte tethering or rolling, and basophil activation. Together these point to a module of innate immunity involving leukocytes such as neutrophils and NK cells, with coordinated adhesion and movement. A few development-related terms for kidney structures appear incidental to the core immune theme.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":7},{"id":"GO:0071226","count":6},{"id":"GO:2000502","count":5},{"id":"GO:0060355","count":5},{"id":"GO:0006910","count":5}]},{"hash":"2230244781371589420","title":"Mitotic Cell Cycle Regulation","description":"The top GO terms show a clear bias toward mitotic control: regulation of G2/M transition, re-entry into the mitotic cell cycle, and G1/S transition, suggesting the cluster centers on cell cycle progression. A few other terms reflect signaling or stress responses (regulation of insulin receptor signaling, response to leptin, response to magnesium) and autophagy-related assembly (ULK1 complex), which may accompany cell-cycle control in some contexts. Overall, the strongest signal is mitotic regulation, with additional signaling connections.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010389","count":1},{"id":"GO:0000411","count":1},{"id":"GO:0000320","count":1},{"id":"GO:0019085","count":1},{"id":"GO:0019086","count":1}]},{"hash":"2009518743126485711","title":"Lipid biosynthesis and stress signaling","description":"This cluster features lipid metabolism terms (very long-chain fatty acid biosynthetic process, fatty acid elongation, sphingolipid biosynthetic process) alongside core stress-responsive signaling (JNK cascade, canonical NF-kappaB signal transduction). Although there are tissue/differentiation terms present, the recurring theme is lipid-related metabolism linked to signaling pathways activated by stress and inflammation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0040015","count":1},{"id":"GO:0048235","count":1},{"id":"GO:0050873","count":1},{"id":"GO:0071529","count":1},{"id":"GO:0007254","count":1}]},{"hash":"1667061894688281160","title":"Diverse substrate transmembrane transport","description":"The cluster\u2019s top GO terms are all about movement of various substrates across membranes (phosphate ion, nitrate, sodium, arabinose, sialic acid, vitamins, xenobiotics, etc.), indicating a cohesive theme of membrane transporters acting on a wide range of solutes. This makes \u201cDiverse substrate transmembrane transport\u201d a concise, representative label.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":1},{"id":"GO:0006004","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0015706","count":1},{"id":"GO:0006855","count":1}]},{"hash":"33792914611778921","title":"Plant cell wall glycoprotein biosynthesis and root hair development","description":"The top GO terms cluster around plant-centric processes: arabinogalactan protein metabolism, mucilage biosynthesis in seed coats, and root hair cell development, all tied to plant cell wall glycoproteins and surface structures. While a few terms such as insect-related processes appear, the dominant signal is plant glycoprotein biosynthesis and root hair/seed coat development, suggesting a coherent functional theme for this cluster.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":1},{"id":"GO:0080147","count":1},{"id":"GO:0010405","count":1},{"id":"GO:0010493","count":1},{"id":"GO:0042248","count":1}]},{"hash":"166881312760975626","title":"Dopaminergic Synaptic Signaling and Learning","description":"The cluster\u2019s frequent GO terms center on dopaminergic synaptic transmission, regulation of dopamine secretion, cocaine-evoked behavior, pain perception, and ERK signaling, all pointing to dopamine-driven neural signaling and learning/reward processes. Some terms are broader or peripheral (e.g., heart development, macrophage chemotaxis), but the dominant theme is dopamine-associated synaptic communication and related learning.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071380","count":2},{"id":"GO:0048148","count":2},{"id":"GO:0001963","count":2},{"id":"GO:0008542","count":2},{"id":"GO:0010759","count":2}]},{"hash":"1527510082732596860","title":"Proteostasis and protein quality control","description":"The cluster shows repeated emphasis on protein folding in the ER, ubiquitin-proteasome\u2013dependent quality control in the nucleus, and processes that handle misfolded proteins and protein export, plus references to reducing aggregation (inclusion bodies) and heat-related stress responses. This points to a cohesive proteostasis network rather than a single pathway. A few outlier terms (DNA replication, parathyroid hormone response) appear less central to the core theme.","confidence":"Medium","size":9,"edges":20,"triangles":26,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0071630","count":5},{"id":"GO:0090084","count":5},{"id":"GO:0071374","count":5},{"id":"GO:0034975","count":5}]},{"hash":"1705023078563044833","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":34,"triangles":71,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0098789","count":2},{"id":"GO:0006398","count":2},{"id":"GO:0030154","count":1},{"id":"GO:0008283","count":1}]},{"hash":"853824596123999685","title":"Zinc Ion Transport and Homeostasis","description":"The cluster is dominated by GO terms related to zinc ion import, intracellular zinc ion homeostasis, and detoxification, pointing to a cohesive set of proteins involved in zinc balance and transport across membranes. A few other terms (e.g., limb development, regulation of phosphatase activity) are present but much less represented, suggesting they are ancillary annotations rather than core functions. Overall, the main theme is zinc handling\u2014import, storage/homeostasis, and detoxification.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002028","count":1},{"id":"GO:0006882","count":1},{"id":"GO:0034224","count":1},{"id":"GO:0060173","count":1},{"id":"GO:1903615","count":1}]},{"hash":"1720844633496481665","title":"Core Carbon Metabolism and Redox Balance","description":"The proteins show strong enrichment for central carbon metabolism (TCA cycle, glycolysis, glyoxylate cycle), along with NADPH regeneration and glutathione metabolism, and oxidative stress response, indicating a focus on energy production and redox homeostasis. Minor terms like cell division and leucine catabolism fit within a broader metabolic context and do not outweigh the redox/metabolic theme.","confidence":"High","size":9,"edges":19,"triangles":13,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":4},{"id":"GO:0006103","count":3},{"id":"GO:0006749","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006096","count":2}]},{"hash":"108551854702143964","title":"Neural development and synaptic signaling","description":"The most represented GO terms cluster around nervous system development and function: Schwann cell development, axonogenesis, visual perception, and excitatory postsynaptic potential. These strongly point to neural development and synaptic signaling, suggesting the proteins in this cluster participate in nerve formation and neuronal signaling. The other terms (heart development, G2/M cell cycle transition, abscisic acid signaling, regulation of phosphorylation, apoptosis, DNA binding) are more general or cross-domain, possibly reflecting pleiotropy or annotation noise, but do not outweigh the neural-focused pattern.","confidence":"Medium","size":9,"edges":4,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0014044","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0000086","count":6},{"id":"GO:0009738","count":6},{"id":"GO:0010800","count":6}]},{"hash":"1154267884267375217","title":"Oxidative stress response and detoxification","description":"The cluster is enriched for GO terms linked to redox homeostasis, cellular oxidant detoxification, glutathione metabolism, toxin catabolic processes, and starvation response, suggesting a shared theme around managing oxidative stress and detoxification/metabolic maintenance. A couple terms point to calcium-regulated muscle signaling and DNA repair, indicating some functional diversity, but redox balance and detox pathways appear central.","confidence":"Medium","size":9,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0014810","count":2},{"id":"GO:0060316","count":2},{"id":"GO:0009072","count":2},{"id":"GO:0006749","count":2},{"id":"GO:0009407","count":2}]},{"hash":"2119631867322103877","title":"Cardiac development and calcium signaling","description":"Reason: The terms cluster around heart development (outflow tract morphogenesis; atrial cardiac muscle cell action potential) and calcium handling (calcium release from the sarcoplasmic reticulum; regulation of calcium transporter activity). Additional terms touch on developmental signaling (VEGF, NF-kappaB) and hormonal/bone processes, but the core theme is cardiac development with calcium regulation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030948","count":2},{"id":"GO:0042403","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0097050","count":2},{"id":"GO:0071313","count":2}]},{"hash":"1317899239822147412","title":"Neural development and synaptic signaling","description":"The GO terms are dominated by neural-related processes such as axonogenesis, Schwann cell development, visual perception, excitatory postsynaptic potential, and long-term synaptic potentiation, pointing to neural development and synaptic function as the core theme. Some terms (mitotic cell cycle, heart development, ABA signaling) are less aligned and may reflect broader pleiotropy or annotation noise, but the overall signal supports a neural development/synaptic function cluster.","confidence":"Medium","size":9,"edges":24,"triangles":35,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0007601","count":8},{"id":"GO:0014044","count":7},{"id":"GO:0007409","count":7},{"id":"GO:0010800","count":7}]},{"hash":"1025536638465063874","title":"RNA processing and translation initiation","description":"The top GO terms cluster around translation reinitiation and preinitiation complex formation, plus mRNA splicing and spliceosome-mediated processing, indicating a focus on post-transcriptional regulation and translation initiation. Some terms touch on actin dynamics and development, but the strongest signal is RNA processing and translation control.","confidence":"Medium","size":9,"edges":23,"triangles":28,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:2000601","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0045010","count":2}]},{"hash":"267163568751768818","title":"Embryonic organ morphogenesis","description":"This cluster centers on the development and morphogenesis of various organs during embryogenesis, highlighted by terms for cardiac structures (endocardial cushion formation and atrial septum morphogenesis) and other organ systems (hindgut, pharynx, hindlimb, Malpighian tubule) as well as organ identity specification. The set points to a broad theme of embryonic organ formation rather than a single pathway, with one outlier term (type II interferon production) that does not fit the main pattern. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901211","count":1},{"id":"GO:0048620","count":1},{"id":"GO:0032609","count":1},{"id":"GO:0003197","count":1},{"id":"GO:0003272","count":1}]},{"hash":"1140162844080551709","title":"Vesicle trafficking and exocytosis regulation","description":"The proteins show GO terms centered on endosome-to-lysosome transport, membrane tubulation, exocytosis, and acrosome assembly, with additional regulation of GTPase activity (Rac). This combination points to roles in vesicle trafficking and membrane remodeling, often tied to secretory processes and cytoskeletal dynamics. The cluster thus seems to reflect regulators of the secretory pathway and membrane trafficking rather than a single, narrow function.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":1},{"id":"GO:0060999","count":1},{"id":"GO:0035021","count":1},{"id":"GO:1902824","count":1},{"id":"GO:0033028","count":1}]},{"hash":"877703305241115976","title":"Histone modification-driven transcription and cell cycle regulation","description":"The cluster centers on chromatin modification and transcription control, with GO terms for histone acetylation (H2A, H4-K16), H3-K4 trimethylation, and positive regulation of transcription elongation by RNA polymerase II, plus regulation of the cell cycle. There are ties to DNA damage\u2013related histone acetylation and even macroautophagy, suggesting coordinated control of chromatin state, gene expression, and cell-cycle progression. The Sertoli barrier term is less central, but does not override the overarching epigenetic/transcription-focused theme. ","confidence":"Medium","size":9,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006349","count":3},{"id":"GO:0043968","count":2},{"id":"GO:0097368","count":2},{"id":"GO:0032968","count":2},{"id":"GO:0043984","count":2}]},{"hash":"477981702102936597","title":"Developmental morphogenesis and signaling","description":"The GO terms point to diverse developmental processes across organisms (fungal sporulation, kidney and tubule development, photoreceptor morphogenesis, muscle development) and calcium signaling activities (calcium transport and RyR regulation) that commonly underpin tissue and organ formation, suggesting a cross-tissue development theme rather than a single specific function.","confidence":"Medium","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030437","count":3},{"id":"GO:0072205","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0060316","count":3},{"id":"GO:0072221","count":2}]},{"hash":"2254067169709825682","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051660","count":3},{"id":"GO:0035750","count":2},{"id":"GO:0045186","count":2},{"id":"GO:1903286","count":2},{"id":"GO:0048541","count":2}]},{"hash":"1074595589168228597","title":"Steroid and lipid biosynthesis","description":"This cluster is dominated by GO terms for steroid and lipid metabolism, including testosterone and glucocorticoid biosynthesis, very long-chain fatty acid biosynthesis, and sphinganine/sphingolipid metabolism, suggesting a cohesive set of enzymes involved in steroid\u2013lipid production and processing; a few terms (antibiotic response, sporulation, plant alkaloid biosynthesis) appear as outliers but do not override the core theme.","confidence":"Medium","size":9,"edges":8,"triangles":3,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0046677","count":5},{"id":"GO:0061370","count":4},{"id":"GO:0042761","count":4},{"id":"GO:0006706","count":4},{"id":"GO:0006666","count":4}]},{"hash":"1747965043713518223","title":"Adaptive immune signaling and chemotaxis","description":"This cluster centers on adaptive immune processes, with terms for IL-4 production, positive regulation of B cell tolerance, and type IV hypersensitivity, plus chemotaxis, indicating immune activation and directed cell movement; supporting signals include VEGF and prostaglandin responses, though a few terms like cold acclimation and metallopeptidase activity are less tightly connected.","confidence":"Medium","size":9,"edges":19,"triangles":21,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001402","count":7},{"id":"GO:0035924","count":7},{"id":"GO:0071380","count":7},{"id":"GO:0001806","count":7},{"id":"GO:1905050","count":7}]},{"hash":"733517867085258744","title":"Leukocyte trafficking and activation","description":"The top GO terms point to leukocyte movement and interaction with immune mechanisms (tethering/rolling, phagocytosis, basophil activation, complement activation, NK cell chemotaxis), suggesting a cluster tied to immune cell recruitment and effector functions; while a couple of terms are unrelated (transcription or microtubule localization), the immune-related terms dominate, supporting this theme.","confidence":"Medium","size":9,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0072699","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0045945","count":2},{"id":"GO:2000502","count":1},{"id":"GO:0060355","count":1}]},{"hash":"1341081445582909415","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071035","count":1},{"id":"GO:0071051","count":1},{"id":"GO:0006808","count":1},{"id":"GO:0071076","count":1},{"id":"GO:0071040","count":1}]},{"hash":"68484795396536285","title":"Steroid and xenobiotic metabolism","description":"The Top GO terms cluster around hormone biosynthesis and metabolism (progesterone, testosterone, retinoic acid) and various xenobiotic/c compound catabolic processes (coumarin, camphor, ent-kaurene oxidation), with lipid hydroxylation also noted. This points to a common theme of small-molecule modification and breakdown. A few terms touch on cell cycle regulation and macrophage chemotaxis, which are less central to metabolism, so the primary signal is metabolic processing of steroids and xenobiotics. Confidence is moderate.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1900087","count":3},{"id":"GO:0042787","count":2},{"id":"GO:0042448","count":2},{"id":"GO:0061370","count":2},{"id":"GO:0042904","count":2}]},{"hash":"2126522209054613160","title":"Protein Quality Control and Folding in ER and Nucleus","description":"The top GO terms cluster around protein homeostasis: ER-based protein folding (GO:0034975), ubiquitin-proteasome\u2013mediated nuclear protein quality control (GO:0071630), and regulation of nuclear export, all pointing to proper protein folding and turnover across compartments. Negative regulation of protein kinase activity (GO:0006469) may reflect modulation of signaling tied to protein activity, supporting a general theme of quality control and regulation rather than a single enzyme pathway. A few terms (DNA replication, parathyroid hormone response) appear less connected and may be noise. Overall, this cluster centers on maintaining proper protein conformation and localization. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":1},{"id":"GO:0071630","count":1},{"id":"GO:0090084","count":1},{"id":"GO:0071374","count":1},{"id":"GO:0034975","count":1}]},{"hash":"1696884398455884181","title":"Developmental signaling and transcriptional regulation","description":"The GO terms point to broad developmental processes (brain, gonad, osteoblast differentiation; multicellular growth) coupled with regulatory activities (GTPase/kinase signaling, histone acetylation, mRNA transport). This suggests proteins involved in coordinating development and gene expression rather than a single specific pathway. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0001649","count":2},{"id":"GO:0071902","count":2},{"id":"GO:0051301","count":2}]},{"hash":"835059182038517048","title":"DNA Damage Repair and Transcription Regulation","description":"This cluster is dominated by GO terms for nucleotide-excision repair, UV-damage repair, DNA damage recognition, and checkpoint signaling, plus transcription-related chromatin remodeling and regulation of meiotic recombination. Together these suggest a cohesive function in sensing and repairing DNA damage while coordinating transcription and chromatin state. A single term about auditory stimulus appears out of place and may reflect annotation noise. ","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006289","count":1},{"id":"GO:0070914","count":1},{"id":"GO:0010777","count":1},{"id":"GO:0010224","count":1}]},{"hash":"1474386922769522301","title":"Membrane trafficking and signaling","description":"This cluster centers on terms related to directing proteins to membranes and receptors, and transmitting signals: protein import to the plasma membrane, receptor internalization, integrin signaling, cAMP response, and regulation of tyrosine phosphorylation. While a few developmental terms appear, the dominant pattern is membrane localization and signal transduction, suggesting these proteins function together in membrane-associated signaling and trafficking processes.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016558","count":2},{"id":"GO:0071320","count":2},{"id":"GO:0090004","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0050731","count":2}]},{"hash":"2267293967509442689","title":"Regulated signaling and cytoskeletal dynamics","description":"The top GO terms show a focus on regulation of signaling pathways (Rho, GTPase, Wnt, insulin signaling) and processes tied to cellular structure and movement (cytoskeletal dynamics, microtubule depolymerization, endocytosis/pinocytosis, mechanotransduction). There is also a note of transcriptional regulation and protein quality control, but the predominant pattern is regulation of signaling intertwined with cytoskeletal and membrane dynamics, suggesting a broad regulatory cluster rather than a single pathway.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0006355","count":2},{"id":"GO:0016055","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0033280","count":2}]},{"hash":"1125420930096554696","title":"Vacuolar Proton Transport","description":"Top GO terms indicate proton transmembrane transport and vacuolar acidification, pointing to a shared role in proton pumping into the vacuole (likely V-ATPase or related proton-transport machinery). Despite limited terms and no detected interactions, the strongest theme is vacuolar proton transport.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":1},{"id":"GO:0007035","count":1}]},{"hash":"1069945778099250805","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051759","count":1},{"id":"GO:0070936","count":1},{"id":"GO:2000620","count":1},{"id":"GO:0006293","count":1},{"id":"GO:1900095","count":1}]},{"hash":"2201379887420753102","title":"Mitochondrial Metabolite Transport","description":"The top GO terms point to transport of various metabolites across mitochondrial membranes (phosphate, ADP, alpha-ketoglutarate, ornithine, pyrimidine nucleotides, pyridoxal phosphate) and related mitochondrial processes (membrane fission, stress responses). This suggests a cluster of proteins involved in mitochondrial metabolite transport and exchange, with ancillary roles in mitochondrial maintenance.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":3},{"id":"GO:1990519","count":2},{"id":"GO:0031921","count":2},{"id":"GO:0000303","count":2},{"id":"GO:0034198","count":2}]},{"hash":"1626721245559681374","title":"RNA splicing and translation initiation control","description":"The cluster is dominated by RNA-centric processes: multiple terms for mRNA splicing via the spliceosome, splice site recognition, and regulation of alternative splicing, alongside core translation functions such as translation and formation of the translation preinitiation complex. Also present are mRNA modification and regulatory ncRNA-mediated gene silencing terms, all pointing to coordinated RNA processing and translation control. A few outliers (viral translation termination-reinitiation, blastocyst formation) are less representative but do not override the main theme. ","confidence":"High","size":9,"edges":15,"triangles":11,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0001731","count":3},{"id":"GO:0006376","count":3},{"id":"GO:0075525","count":3},{"id":"GO:1900363","count":3}]},{"hash":"579474132643623058","title":"NF-kB signaling and ubiquitination","description":"The top GO terms cluster around TNF-mediated signaling, activation of NF-kappaB-inducing kinase (NIK), regulation of I-kappaB phosphorylation, and JNK cascade control, all central to NF-kB pathway activation. Simultaneously, ubiquitination events (K63- and K6-linked) and histone modification processes imply regulation of transcription in response to this signaling. Altogether, these proteins appear to function in NF-kB signaling and ubiquitin-mediated transcriptional regulation, with chromatin-level control contributing to the response.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000620","count":2},{"id":"GO:0007250","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0070535","count":2}]},{"hash":"1942740811027977161","title":"Innate immune signaling and apoptosis regulation","description":"Proteins in this cluster show enrichment for innate immune pathway regulation (TLR signaling, NF-kappaB activation via NIK, JNK cascade) and cell fate control (apoptosis and necroptosis regulation), plus ubiquitination and transcriptional regulation. The dominant theme ties inflammatory signaling to checks on cell survival, suggesting these proteins collectively regulate immune signaling and programmed cell death.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0060544","count":2},{"id":"GO:0034121","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0071157","count":2}]},{"hash":"944617615877848492","title":"Neural signaling with circadian and reproductive links","description":"These proteins cluster around neural signaling processes (postsynaptic membrane organization, action potential, GABA receptor clustering, serotonin signaling, histamine response) and also touch on circadian regulation (REM sleep) and neural/reproductive development (optic nerve morphogenesis, ovulation cycle rhythm), suggesting a theme of nervous system signaling with circadian and reproductive context. The connections are present but not strongly cohesive across all terms, so confidence is moderate.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001941","count":1},{"id":"GO:0001508","count":1},{"id":"GO:0007340","count":1},{"id":"GO:0071420","count":1},{"id":"GO:0007210","count":1}]},{"hash":"254631744350422243","title":"Developmental transcription and GTPase signaling","description":"The GO terms show DNA-templated transcription, small GTPase-mediated signaling, and multiple development-related processes (skeletal, brain, and multicellular development), suggesting a cluster of proteins involved in regulating gene expression and signaling during development. Additional terms on protein complex formation, cell division, and vesicular transport fit into the broader context of coordinating signaling and trafficking during growth and differentiation, reinforcing the developmental regulation theme.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0007264","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0070208","count":3},{"id":"GO:0007275","count":3}]},{"hash":"1078654733965198587","title":"Neurodevelopment and Synaptic Signaling","description":"The terms cluster around nervous system development and function (Schwann cell development, axonogenesis, visual perception, excitatory postsynaptic potential), with cell adhesion and general development also represented. A couple outliers (heart development, plant signaling) exist but do not dominate.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007160","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0014044","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0007601","count":4}]},{"hash":"2203371491818950440","title":"Axon Guidance and Neural Development","description":"This cluster centers on axon guidance and neural development, with terms like commissural neuron axon guidance, branchiomotor neuron axon guidance, and semaphorin-plexin signaling in axon guidance, plus otic placode and sympathetic ganglion development. A few terms (receptor tyrosine kinase activation, complement pathway, cuticle molting) are less related but do not overturn the prevailing neural-development theme.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007171","count":1},{"id":"GO:0071679","count":1},{"id":"GO:0061549","count":1},{"id":"GO:0018996","count":1},{"id":"GO:0021785","count":1}]},{"hash":"1392545271309369961","title":"Unknown","description":"The nine proteins show a mix of regulatory GO terms spanning signaling pathways (positive regulation of GTPase activity, JNK cascade), neural development and survival (dendrite extension, neuron apoptotic regulation), stem cell maintenance, cytokinesis, and immune signaling (T cell anergy). The diversity and lack of a single dominant function, plus the presence of obsolete terms, make it hard to identify a cohesive biological theme. Therefore a precise label cannot be confidently assigned.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":1},{"id":"GO:0010794","count":1},{"id":"GO:0046328","count":1},{"id":"GO:1903861","count":1},{"id":"GO:0043525","count":1}]},{"hash":"1366696475182022779","title":"Unknown","description":"The top GO terms describe a highly diverse set of processes including immune cell differentiation, signaling pathways, neural differentiation, and general transcription/kinase regulation. The lack of a single cohesive biological theme across these terms makes it unclear what single function characterizes this cluster, so I label it Unknown.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901187","count":2},{"id":"GO:0002268","count":2},{"id":"GO:0035544","count":2},{"id":"GO:0061408","count":2},{"id":"GO:1904743","count":2}]},{"hash":"1343662671665320971","title":"Unknown","description":"The top terms are a mix of immune-related processes (complement activation via lectin pathway; phagocytosis recognition; leukocyte tethering/rolling; basophil activation; NK cell chemotaxis regulation) and unrelated developmental/biogenesis terms (forebrain morphogenesis; spermatogenesis; ribosomal large subunit export from nucleus; negative regulation of RNA polymerase II regulatory region DNA binding). Because there is no unifying biological function linking all nine proteins, there is no clear representative theme for the cluster; thus Unknown with no confidence. ","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048853","count":2},{"id":"GO:0007283","count":2},{"id":"GO:0000055","count":2},{"id":"GO:1903026","count":2},{"id":"GO:2000502","count":1}]},{"hash":"1119185541115739167","title":"Brain and inner ear development (hearing)","description":"The top GO terms point mainly to neural and sensory organ development, including midbrain and brain development, inner ear development, and sensory perception of sound, suggesting a cluster of proteins involved in neural/ear development and auditory function. While there are some general transcription regulation terms and a few unrelated terms, the strongest theme is brain and inner ear development associated with hearing and locomotor behavior.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030901","count":4},{"id":"GO:0007626","count":3},{"id":"GO:1903142","count":3},{"id":"GO:0045944","count":3},{"id":"GO:0000122","count":3}]},{"hash":"115710431532178454","title":"Lectin receptor signaling and leukocyte activation","description":"The top GO terms are dominated by innate immune processes: stimulatory C-type lectin receptor signaling, complement activation via the lectin pathway, phagocytosis, leukocyte tethering/rolling, and basophil activation, all indicating innate immune recognition and leukocyte activation. A few development-related terms appear as outliers; overall the cluster centers on lectin-mediated innate immunity and leukocyte function.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002223","count":3},{"id":"GO:2000502","count":2},{"id":"GO:0060355","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0006910","count":2}]},{"hash":"514901041853089524","title":"Multi-substrate membrane transport","description":"The proteins cluster around diverse transmembrane transport activities for various substrates (nitrate, sodium, phosphate, fucose, arabinose, sialic acid, xenobiotics), indicating a shared role in moving molecules across membranes. A couple of outliers (lung development, DNA-templated transcription) exist but do not define the core theme, so the dominant signal is membrane transport of multiple substrates.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030324","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0035435","count":1},{"id":"GO:0006004","count":1},{"id":"GO:0042128","count":1}]},{"hash":"1614834822742374584","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048535","count":1},{"id":"GO:0071385","count":1},{"id":"GO:0045292","count":1},{"id":"GO:0061158","count":1},{"id":"GO:0002943","count":1}]},{"hash":"720050030392404682","title":"Embryonic development and tissue morphogenesis","description":"Top GO terms indicate involvement in development and morphogenesis across multiple tissues (muscle organ morphogenesis, endocrine system development, placental/trophoblast differentiation, EMT in heart development, germline formation, sensory organ development). The presence of intracellular signaling and regulation of tyrosine kinase activity suggests common regulatory mechanisms guiding these developmental processes. This points to a broad developmental/morphogenetic theme rather than a single pathway, supporting the chosen label.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042694","count":1},{"id":"GO:0007301","count":1},{"id":"GO:0035556","count":1},{"id":"GO:0048644","count":1},{"id":"GO:0061099","count":1}]},{"hash":"689988628760992450","title":"Chaperone-mediated protein folding and quality control","description":"This cluster centers on chaperone-driven protein folding and quality control, with recurring terms for protein refolding, chaperone-mediated complex assembly, and detection of misfolded proteins, indicating a cohesive theme of proteostasis. Immune signaling terms (TNF production, T cell\u2013mediated response) are present but seem secondary to the folding/quality-control core, while ROS regulation and nuclear terms may reflect broader stress-associated processes.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1903427","count":6},{"id":"GO:1904469","count":6},{"id":"GO:0002842","count":6},{"id":"GO:0019068","count":6},{"id":"GO:0051131","count":6}]},{"hash":"2111343412304835563","title":"Microtubule-Driven Cell Division and Neuronal Development","description":"The top GO terms cluster around microtubule nucleation and organization, mitotic processes (spindle dynamics, cytokinesis, cell division), and neuronal development (neuron differentiation and migration). This points to a core theme of microtubule-mediated cytoskeletal dynamics driving both cell division and neuronal morphogenesis, with a few peripheral signals (like IL-4 response) that are less central to the main function. Overall, a microtubule/cell division\u2013focused developmental cluster best fits the data.","confidence":"Medium","size":8,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007020","count":6},{"id":"GO:0007049","count":6},{"id":"GO:0030182","count":6},{"id":"GO:1903087","count":6},{"id":"GO:1902408","count":5}]},{"hash":"1399159189698924363","title":"Endosomal Sorting and Vesicle Trafficking","description":"The strongest signals are for multivesicular body sorting/assembly and phagosome-lysosome fusion, pointing to endosomal trafficking and vesicle maturation as the core theme. Other terms (cell cycle, growth, immune signaling) may be ancillary or context-dependent, but vesicle sorting and degradation processes best tie the cluster together.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043124","count":5},{"id":"GO:0071985","count":5},{"id":"GO:0035264","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0010458","count":5}]},{"hash":"673991139985334276","title":"Actin Cytoskeleton Remodeling and Cell Polarity","description":"The cluster is enriched for actin-related processes: positive regulation of actin polymerization, filopodium and podosome assembly, and cell shape/polarity maintenance, with links to small GTPase signaling and neuronal-related terms like brain development and synaptic vesicle regulation. These together point to a theme of actin-driven protrusions and polarity control across cell types, rather than a single, narrow pathway.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031384","count":4},{"id":"GO:2000300","count":4},{"id":"GO:0010796","count":4},{"id":"GO:0071963","count":3},{"id":"GO:0007420","count":3}]},{"hash":"672973003898337995","title":"Diverse Membrane Transporters","description":"This cluster is dominated by GO terms for transmembrane transport across a wide range of substrates (nitrate, sodium, phosphate, sugars, vitamins, xenobiotics, etc.), indicating the proteins primarily function as membrane transporters with broad substrate specificity rather than a single metabolic pathway.","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":1},{"id":"GO:0006004","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0015706","count":1},{"id":"GO:0006855","count":1}]},{"hash":"1566965951186655471","title":"RNA processing and splicing regulation","description":"This cluster is driven by RNA processing and regulation: spliceosome-mediated splicing, alternative splicing control, mRNA modifications and stabilization, and regulatory ncRNA\u2013mediated gene silencing, with incidental ties to translation initiation components.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0001731","count":1},{"id":"GO:0006376","count":1},{"id":"GO:0075525","count":1},{"id":"GO:1900363","count":1}]},{"hash":"672508476734521215","title":"Vacuolar amino acid transport","description":"This cluster centers on importing various amino acids (tyrosine, glutamate, serine, proline, glutamine) into the vacuole, indicating a shared function in vacuolar amino acid transport. A few outlier terms related to NF-kappaB signaling and mitotic cell cycle are incidental and do not define the main theme. Overall, the dominant signal is amino acid transport into vacuoles.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0090514","count":1},{"id":"GO:0006867","count":1},{"id":"GO:0090515","count":1}]},{"hash":"538754832846659464","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":12,"triangles":7,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":6},{"id":"GO:0048026","count":6},{"id":"GO:0000464","count":5},{"id":"GO:0071035","count":4},{"id":"GO:0071031","count":4}]},{"hash":"585881041477225081","title":"Neurovascular development","description":"This cluster's top GO terms center on angiogenesis and endothelial cell migration, and also neural development terms like cerebral cortex and hippocampus development, pointing to coordinated growth of brain tissue and its vasculature (neurovascular development). Some terms (DNA replication, cholesterol biosynthesis) reflect common cellular processes but do not define a different primary theme.","confidence":"High","size":8,"edges":7,"triangles":2,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0043536","count":5},{"id":"GO:0001525","count":5},{"id":"GO:0007100","count":4},{"id":"GO:0021987","count":4},{"id":"GO:0006260","count":4}]},{"hash":"1803870136573263232","title":"Cytoskeleton-Driven Mitosis and Morphogenesis","description":"The top GO terms cluster around cytoskeletal dynamics and cell division (spindle orientation, minus- and plus-end microtubule activities, metaphase alignment, cytokinesis, actomyosin ring assembly) and also include development-related processes (root development, ureteric bud invasion) and cell junction maintenance. This suggests a unifying theme of cytoskeleton-dependent control of mitosis and tissue morphogenesis across organisms, hence the label.","confidence":"Medium","size":8,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0009904","count":3},{"id":"GO:0051296","count":3},{"id":"GO:0031534","count":3},{"id":"GO:0072092","count":3},{"id":"GO:0000915","count":3}]},{"hash":"1651924286934053723","title":"Plant cytoskeleton and development","description":"The terms cluster around cytoskeletal dynamics and plant development: minus-end and plus-end microtubule processes, actomyosin contractile ring assembly, and plant-specific cytokinesis by cell plate formation, plus chloroplast movement and root development. Although a couple of kidney-development terms appear, the dominant signal is cytoskeleton-driven developmental processes in plants, suggesting the proteins act in microtubule-based organization during growth.","confidence":"Medium","size":8,"edges":14,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0072218","count":2},{"id":"GO:0009904","count":2},{"id":"GO:0051296","count":2},{"id":"GO:0031534","count":2},{"id":"GO:0072092","count":2}]},{"hash":"1874832134860646221","title":"Spliceosome Assembly and mRNA Processing","description":"The dominant GO terms point to spliceosome assembly and mRNA splicing, supported by related RNA-processing activities such as mitochondrial mRNA polyadenylation, mRNA stability, and miRNA-mediated silencing, indicating a cluster focused on RNA processing rather than signaling or other functions.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000387","count":1},{"id":"GO:0000349","count":1},{"id":"GO:0010738","count":1},{"id":"GO:0048024","count":1},{"id":"GO:0097222","count":1}]},{"hash":"1771279409280055809","title":"Neural development and proliferation","description":"The cluster shows strongest signals for neural development and proliferation, such as substantia nigra development, neuroblast proliferation, and regulation of neuroblast proliferation, alongside general cell proliferation. While a few immune-related terms appear, the dominant pattern points to brain development and neuronal growth.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008283","count":2},{"id":"GO:0021762","count":2},{"id":"GO:0010629","count":1},{"id":"GO:2000222","count":1},{"id":"GO:0043316","count":1}]},{"hash":"683843630776660167","title":"Unknown","description":"The GO terms cover disparate processes: phosphorylation regulation, GTPase signaling, development of kidney tubules, synaptic vesicle endocytosis, apoptosis, amphetamine response, diaphragm contraction, protein methylation, and calcium transport. Without a unifying biological theme or direct interactions (no edges, max degree 0), there isn\u2019t a coherent function tying these proteins together. As a result, this cluster is best described as Unknown.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010801","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0072221","count":2},{"id":"GO:1900242","count":2},{"id":"GO:0006919","count":2}]},{"hash":"974300976325652771","title":"Cell Signaling and Trafficking","description":"These proteins show terms from major signaling pathways (Toll, TGF-\u03b2 receptor, MAPK) alongside intracellular trafficking/organellar dynamics (ER tubular networks, Golgi retention, membrane invagination), with a hint of autophagy and development-related migration. The mix suggests a core theme around signaling coupled to intracellular organization rather than a single focused process, justifying a Cell Signaling and Trafficking label. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045752","count":1},{"id":"GO:0010324","count":1},{"id":"GO:0007179","count":1},{"id":"GO:0031954","count":1},{"id":"GO:0071787","count":1}]},{"hash":"803835591945428776","title":"RNA Pol II Transcription Regulation","description":"This cluster is dominated by transcription-related GO terms: DNA-templated transcription, positive regulation of DNA binding, and negative regulation of transcription by RNA polymerase II, along with related regulation of RNA Pol II activity. ER stress and protein folding in the endoplasmic reticulum appear as secondary associations, suggesting the core function is transcriptional regulation by RNA Pol II with some ER-related processing context.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043388","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0035269","count":2},{"id":"GO:1903026","count":2}]},{"hash":"34312077161018607","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":13,"triangles":7,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:1990416","count":3},{"id":"GO:0048701","count":3},{"id":"GO:1904780","count":2},{"id":"GO:0071035","count":2}]},{"hash":"337466762214741641","title":"Immune activation and cytokine production","description":"The GO terms center on adaptive immune signaling and cytokine activities, including IL-4 production, B cell tolerance induction, and type IV hypersensitivity. Other terms reflect inflammation and leukocyte trafficking (chemotaxis, responses to VEGF and prostaglandin E). While a few items touch on general signaling or cell cycle processes, the dominant theme is immune activation and cytokine-mediated regulation.","confidence":"Medium","size":8,"edges":10,"triangles":0,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001402","count":6},{"id":"GO:0035924","count":6},{"id":"GO:0071380","count":6},{"id":"GO:0001806","count":6},{"id":"GO:1905050","count":6}]},{"hash":"1162787525729534809","title":"Unknown","description":"The top GO terms span a mix of transcriptional regulation, cell cycle processes, broad developmental pathways, and even a plant-specific chloroplast import term, with no clear, cohesive function linking the eight proteins. The heterogeneity (animal development terms alongside plant chloroplast targeting) and lack of interaction edges suggest this is a scattered set rather than a single functional module.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0045736","count":2},{"id":"GO:0045038","count":2},{"id":"GO:0016055","count":2},{"id":"GO:0051225","count":2}]},{"hash":"1875561655058191445","title":"Kinase and GTPase signaling regulation","description":"The cluster\u2019s top GO terms cluster around negative regulation of protein kinase activity and phosphorylation, plus positive regulation of GTPase activity, suggesting a core theme of signaling pathway modulation. Additional terms touch on muscle relaxation and synaptic vesicle processes, which fit within signaling contexts, while a couple terms appear incidental (sporulation membrane formation, kidney development). Overall, the dominant pattern is regulation of signaling enzymes rather than a single structural function.","confidence":"Medium","size":8,"edges":7,"triangles":2,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":5},{"id":"GO:0010801","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0072221","count":4},{"id":"GO:0032120","count":4}]},{"hash":"779659095118678282","title":"Neuronal development and myelination","description":"The cluster is dominated by nervous system\u2013related processes: positive regulation of synapse assembly, myelination, cell adhesion (homophilic/heterophilic), paranodal junction assembly, and axonal fasciculation, pointing to a cohesive module of neuron wiring and insulation; a couple of terms are bone- or ear-related outliers, but the core theme centers on neuronal adhesion, synapse formation, and myelination.","confidence":"High","size":8,"edges":8,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0043931","count":2},{"id":"GO:0042552","count":2},{"id":"GO:0007156","count":2},{"id":"GO:0007157","count":2}]},{"hash":"60275677985943142","title":"Developmental Kinase Signaling","description":"The terms cluster around developmental processes (brain, skin, multicellular development) and signaling-related phosphorylation control (positive regulation of GTPase activity, serine/threonine kinase activity, autophosphorylation), suggesting a group of proteins that coordinate development via phosphorylation-based signaling pathways.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0071902","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0031954","count":2}]},{"hash":"739020604062922344","title":"Growth signaling and cell division control","description":"The cluster centers on growth-regulation and proliferation processes, highlighted by TORC1 signaling and mitotic spindle assembly/cell division, with supporting roles for intracellular trafficking (COPII budding and ribosomal subunit export) and broad regulatory contexts (gene expression regulation, xenobiotic response). While some terms like ossification and androgen receptor signaling are more tissue-specific, the overarching pattern ties to coordination of growth signals with the cell cycle and associated transport pathways.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090114","count":3},{"id":"GO:0035690","count":3},{"id":"GO:1904263","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0000056","count":3}]},{"hash":"1886530377452386236","title":"Inflammatory signaling and proteolysis","description":"The top GO terms highlight immune signaling pathways, including TNF-mediated signaling, non-canonical NF-kappaB signaling, and Fc-epsilon receptor signaling, pointing to inflammatory regulation. Concurrently, several terms relate to protein turnover and deubiquitination (proteasomal catabolic process, protein deubiquitination, endopeptidase activity regulation), suggesting regulation of signaling by proteolysis. While there are a couple of broader terms (RNA catabolic process, Wnt planar polarity), the strongest theme centers on immune signaling with ubiquitin/ proteolysis control of that signaling. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006401","count":1},{"id":"GO:0002862","count":1},{"id":"GO:0010499","count":1},{"id":"GO:0038095","count":1},{"id":"GO:0010972","count":1}]},{"hash":"2240483139223707636","title":"Diverse nutrient and ion transmembrane transport","description":"This cluster is characterized by multiple transmembrane transport GO terms covering phosphate, nitrate, glucose, and vitamin/ascorbate transport, plus xenobiotic transport, suggesting a group of membrane transport proteins handling a variety of nutrients and ions. A non-transport regulatory term is present in the set, likely noise or context-specific, but the dominant theme is transmembrane transport. ","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0006817","count":2},{"id":"GO:0019852","count":2},{"id":"GO:0070837","count":2}]},{"hash":"1819163512356997768","title":"Innate Immune Signaling and Lymphoid Development","description":"The top terms cluster around innate immune response and NF-kappaB-related regulation, with links to lymph node development and responses to fungal origin, suggesting a core theme of immune signaling and development. Peripheral terms like cytoskeletal localization and apoptosis appear ancillary and do not redefine the main function.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0035372","count":3},{"id":"GO:0001502","count":2},{"id":"GO:0071375","count":2}]},{"hash":"1166405625541917991","title":"Unknown","description":"There are no GO terms to guide a functional label, and the cluster has no edges or shared annotations (Edges: 0, Triangles: 0, Max Degree: 0), so a coherent common function cannot be inferred.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1739641706148300401","title":"Cartilage and tendon development with cell adhesion","description":"This cluster mainly features GO terms tied to connective tissue development (tendon development, cartilage development, endochondral ossification) and cell\u2013matrix interactions (integrin biosynthetic process, cell adhesion). These together point to a cohesive role in skeletal tissue formation and adhesion within the extracellular matrix, with immune-related terms appearing as secondary signals. ","confidence":"High","size":8,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035989","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0034381","count":2},{"id":"GO:0060351","count":2},{"id":"GO:0030853","count":2}]},{"hash":"1867986329586546526","title":"Potassium Ion Homeostasis and Membrane Potential Regulation","description":"The top GO terms cluster around potassium ion homeostasis, potassium transport, and regulation/stabilization of membrane potential, including membrane repolarization in cardiac cells. While there are peripheral signals (GPCR signaling, saliva secretion, blood pressure), the dominant theme tying these proteins together is ion homeostasis and membrane excitability, especially involving potassium dynamics. This suggests a coherent function in maintaining membrane potential through potassium handling.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030007","count":3},{"id":"GO:0050976","count":2},{"id":"GO:0060075","count":2},{"id":"GO:0030322","count":2},{"id":"GO:0098914","count":2}]},{"hash":"1353608415735368418","title":"PI3K-AKT Growth and Differentiation Signaling","description":"Based on top GO terms, the proteins appear to modulate insulin signaling and PI3K/AKT pathway activity, with positive regulation of apoptotic and proliferative processes, and responses to VEGF. This points to a cohesive role in growth, survival, and differentiation signaling, with context in keratinocytes and skeletal development.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043065","count":5},{"id":"GO:0008285","count":5},{"id":"GO:0035924","count":4},{"id":"GO:1905050","count":4},{"id":"GO:2001275","count":4}]},{"hash":"2014097305010939198","title":"Steroid hormone and lipid biosynthesis","description":"These proteins cluster around steroid-related production: testosterone, glucocorticoid, androgen, and C21-steroid hormone biosynthesis, alongside lipid-related biosynthetic processes (very long-chain fatty acids, sphinganine, and related lipids). While there are some miscellaneous biosynthesis terms, the strongest and most frequent signals point to steroid hormone and lipid biosynthesis as the core theme.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0061370","count":3},{"id":"GO:0042761","count":3},{"id":"GO:0006666","count":3},{"id":"GO:0009710","count":3},{"id":"GO:0042574","count":3}]},{"hash":"1932877051848041671","title":"Neurodevelopmental Signaling and Apoptosis","description":"The cluster shows strong enrichment for neurogenesis and apoptotic processes, along with RTK signaling and PI3K/AKT\u2013mediated pathways, transcriptional regulation, and differentiation cues. This pattern suggests a cohesive role in neural development, balancing cell fate decisions, survival, and differentiation. While some immune-related terms appear (e.g., Th2 cytokine production), the dominant theme centers on neural development and survival signaling, giving a plausible, cohesive interpretation for the cluster.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0022008","count":5},{"id":"GO:0006915","count":5},{"id":"GO:0006351","count":3},{"id":"GO:0007169","count":3},{"id":"GO:0097350","count":3}]},{"hash":"30424301442965866","title":"Neural development and mitochondrial energy metabolism","description":"This cluster shows GO terms tied to brain development (substantia nigra, cerebellum) and to energy production (creatine/phosphocreatine metabolism, phosphorylation, mitochondrial electron transport, and complex II assembly), suggesting proteins involved in neuronal development supported by mitochondrial energetics.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":1},{"id":"GO:0006950","count":1},{"id":"GO:0046314","count":1},{"id":"GO:0030644","count":1},{"id":"GO:0021762","count":1}]},{"hash":"1412639555677625394","title":"Synaptic vesicle exocytosis and neurotransmitter secretion","description":"The top GO terms are dominated by synaptic vesicle exocytosis and neurotransmitter secretion, with supporting calcium signaling and phosphatidylinositol-mediated pathways, pointing to vesicle trafficking and rapid synaptic transmission. Some terms (VEGF signaling, abscisic acid-activated signaling) appear less directly related and may reflect broader signaling roles or annotation noise; overall, the cluster centers on vesicle exocytosis and neurotransmitter release.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000300","count":2},{"id":"GO:0036324","count":2},{"id":"GO:0007520","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0048015","count":2}]},{"hash":"1104075913254522812","title":"Steroid and lipid biosynthesis","description":"This cluster's GO terms center on biosynthetic pathways for steroids and lipids, including testosterone, androgen, C21-steroid hormone, and glucocorticoids, along with lipid-derived metabolites such as very long-chain fatty acids and sphingolipids. While a few terms relate to other biosynthetic routes (retinal, tropane alkaloids, mycolic acid), the overarching theme is enzymatic synthesis of steroid hormones and lipid metabolites.","confidence":"High","size":8,"edges":7,"triangles":3,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0061370","count":6},{"id":"GO:0042761","count":6},{"id":"GO:0006666","count":6},{"id":"GO:0009710","count":6}]},{"hash":"2245485007645621863","title":"Growth Factor Receptor Signaling and Morphogenesis","description":"This cluster centers on GO terms for PDGF and HGF receptor signaling, plus related responses to HGF and morphogenetic processes (e.g., salivary gland morphogenesis, hair cell differentiation). The common theme is growth factor\u2013mediated signaling driving development and differentiation, with supporting signals like proteolysis regulation and lipid kinase activity.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048008","count":2},{"id":"GO:0048903","count":2},{"id":"GO:0045861","count":2},{"id":"GO:0048012","count":2},{"id":"GO:0033137","count":1}]},{"hash":"1611231480171659068","title":"Purine Salvage and Nucleotide Catabolism","description":"The top GO terms are dominated by salvage and catabolic processes for purine nucleotides (purine nucleoside interconversion, purine ribonucleoside salvage, inosine and deoxyguanosine catabolic processes, nucleotide catabolic process), with related salvage pathways like methionine and nicotinate salvage also present. A couple of immune signaling terms (IL-2 production, T cell differentiation) appear but are represented by single terms and do not define a cohesive immune function for the cluster. Overall, the cluster seems best characterized by nucleotide metabolism and salvage rather than a single immune-related function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019686","count":1},{"id":"GO:0019509","count":1},{"id":"GO:0019358","count":1},{"id":"GO:0006148","count":1},{"id":"GO:0046638","count":1}]},{"hash":"2023649073337927374","title":"Synaptic Vesicle Trafficking and Exocytosis","description":"The top GO terms cluster around vesicle transport and exocytosis, including ER-Golgi trafficking, Golgi to vacuole transport, autophagosome-related pathways, acrosome reaction, exocytic insertion of neurotransmitter receptors, receptor localization to synapse, and spontaneous neurotransmitter secretion. Together, these indicate a cohesive theme of vesicle delivery and release at synapses, with related autophagic trafficking processes.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033194","count":1},{"id":"GO:0007340","count":1},{"id":"GO:0097352","count":1},{"id":"GO:0098967","count":1},{"id":"GO:0006896","count":1}]},{"hash":"1205411617289829127","title":"Glycosylation and cell wall biosynthesis","description":"The top GO terms are dominated by glycosylation processes (O-linked GalNAc via serine/threonine) and biosynthesis/organization of cell wall or extracellular matrix components (teichoic acid, cellulose, hyaluronan). This points to a cohesive theme of proteins involved in glycan modification and construction of cell wall or extracellular polysaccharide structures, with a few outlier terms (liver regeneration, immunoglobulin production) that may reflect broad/ambiguous annotations. Overall, the cluster seems best described by glycosylation and cell wall biosynthesis functions.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097421","count":2},{"id":"GO:0016266","count":1},{"id":"GO:0071555","count":1},{"id":"GO:0018243","count":1},{"id":"GO:0030213","count":1}]},{"hash":"1239426192503283132","title":"Glycan Biosynthesis and Metabolism","description":"The proteins show enrichment for carbohydrate-related processes: N-acetylglucosamine metabolic process, proteoglycan biosynthesis (chondroitin sulfate, heparan sulfate), fucose biosynthesis, and related glycan/metabolic activities (including xylogalacturonan metabolism). Although a few terms touch on development or sporulation, the strongest signals cluster around glycan biosynthesis and carbohydrate metabolism, suggesting a theme tied to glycan production and modification.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006044","count":2},{"id":"GO:0030435","count":2},{"id":"GO:0045150","count":2},{"id":"GO:0035118","count":1},{"id":"GO:0050650","count":1}]},{"hash":"2011536660722719115","title":"Neural migration, axon guidance, and synapse assembly","description":"This cluster is dominated by GO terms linked to neuronal development and connectivity: neuron migration within the brain, axon guidance in dorsal/ventral axes, synapse assembly, and cell-cell adhesion components (homophilic/heterophilic). Retinal development and behavioral regulation terms further support a neural wiring/ circuit organization theme. Overall, a cohesive neural development and synaptic organization cluster.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045463","count":2},{"id":"GO:0022028","count":2},{"id":"GO:0060489","count":2},{"id":"GO:0033563","count":2},{"id":"GO:0007416","count":2}]},{"hash":"1889636505940591234","title":"Embryonic development and neural axon guidance","description":"These terms cluster around embryonic development with a strong emphasis on neural axon guidance and patterning (axon fasciculation and guidance for sensory, commissural, and branchiomotor neurons) and organogenesis (heart tube left/right patterning, kidney development, sympathetic ganglion development). The common thread is developmental signaling guiding tissue morphogenesis and neural wiring, with one outlier term related to molting that may be incidental. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007171","count":1},{"id":"GO:0072221","count":1},{"id":"GO:0009405","count":1},{"id":"GO:0097155","count":1},{"id":"GO:0016525","count":1}]},{"hash":"1530745311167712948","title":"Cardiac GPCR-Ca2+/cAMP Signaling","description":"This cluster's strongest links point to GPCR-triggered pathways that regulate calcium release and adenylate cyclase/cAMP signaling, aligning with heart development and cardiac muscle hypertrophy in response to stress. While some terms reflect broader GPCR contexts (opsin signaling, Fc-epsilon signaling, amphetamine response), the core theme appears to be calcium and cAMP regulation in a cardiac signaling framework.","confidence":"Medium","size":7,"edges":11,"triangles":6,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0001975","count":5},{"id":"GO:0008284","count":5},{"id":"GO:0051281","count":5},{"id":"GO:0038095","count":5}]},{"hash":"2128684493336053156","title":"Protein quality control and folding","description":"Most enriched terms converge on proteostasis: folding of proteins in the endoplasmic reticulum and quality-control/trash removal by the ubiquitin\u2013proteasome system, including nuclear protein QC and export regulation. A few terms touch on broader cellular processes (e.g., translation frameshifting, kinase activity), but the dominant signal is protein folding and QC pathways.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":1},{"id":"GO:0071630","count":1},{"id":"GO:0090084","count":1},{"id":"GO:0071374","count":1},{"id":"GO:0034975","count":1}]},{"hash":"2156880812840586845","title":"Unknown","description":"The proteins map to a wide mix of unrelated processes (transcription elongation, metal response, steroid receptor assembly, protein unfolding, cell-cycle checkpoint signaling, respiration regulation, viral replication, deubiquitinase activity, peroxisome import, and oxidative protein catabolism), with no clear common theme to tie them into a specific functional cluster.","confidence":"","size":7,"edges":8,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0032968","count":1},{"id":"GO:0010288","count":1},{"id":"GO:0006463","count":1},{"id":"GO:0043335","count":1},{"id":"GO:0033314","count":1}]},{"hash":"718655151024892275","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":2},{"id":"GO:0006376","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0071456","count":2},{"id":"GO:1900363","count":2}]},{"hash":"1729283133586060358","title":"T-cell signaling and axon growth regulation","description":"The dominant GO terms point to immune signaling (beta selection, T cell receptor signaling) and neural development (positive/negative regulation of axon extension/axogenesis). Additional terms about phosphorylation and focal adhesion imply broader signaling and cytoskeletal regulation linking immune activation with neuronal growth processes. This combination supports a label around signaling that influences both T-cell activity and axon growth.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043366","count":6},{"id":"GO:0051893","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0045773","count":6},{"id":"GO:0033138","count":6}]},{"hash":"17011912043759405","title":"RNA splicing and post-transcriptional regulation","description":"These proteins are linked to multiple RNA processing and post-transcriptional regulation GO terms: splicing via the spliceosome, splice-site recognition, regulation of alternative splicing, mRNA modification and stabilization, and related translation initiation/termination processes. The overarching theme is RNA metabolism and post-transcriptional control of gene expression, with a minor outlier related to development. Confidence: High.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":1},{"id":"GO:0006376","count":1},{"id":"GO:0075525","count":1},{"id":"GO:1900363","count":1},{"id":"GO:0045292","count":1}]},{"hash":"708883477986516902","title":"Neuronal differentiation and migration","description":"The terms include clear neuronal development signals such as striatal medium spiny neuron differentiation and cortical radial glia-guided migration extension, plus related processes like regulation of JNK signaling and cell\u2013cell adhesion. While a couple terms (potassium import, lysosome localization) are broader, the dominant theme is neural differentiation and neuronal migration.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903286","count":2},{"id":"GO:0061462","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0022407","count":2},{"id":"GO:0097117","count":2}]},{"hash":"2176485104388858490","title":"Protein acetylation (N-terminal and lysine)","description":"Most of the top GO terms map to acetylation processes, including N-terminal acetylation (protein amino acids and methionine), peptidyl-lysine N6-acetylation, and spermidine acetylation, indicating a cohesive functional theme around acetyl group transfer/processing. Other mentions (sporulation, heterochromatin, leaf formation) appear peripheral or reflect broader chromatin and developmental associations, but the acetylation signal dominates.","confidence":"Medium","size":7,"edges":8,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0018003","count":3},{"id":"GO:0030435","count":3},{"id":"GO:0006348","count":3},{"id":"GO:0006474","count":2},{"id":"GO:0009447","count":2}]},{"hash":"685977483897421906","title":"Photoreceptor outer segment protein localization","description":"This cluster centers on proteins localized to or organized within the photoreceptor outer segment, including terms for localization to the OS and OS organization, suggesting a role in trafficking/assembly of OS proteins in retinal cells. Supporting terms for ER quality control (ERAD, ER protein folding) align with the secretory pathway needs of OS components, while other terms appear ancillary.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0051291","count":2},{"id":"GO:0010288","count":1},{"id":"GO:1903546","count":1},{"id":"GO:0090084","count":1}]},{"hash":"872122327145886049","title":"RNA Splicing and Translation Regulation","description":"The GO terms cluster around spliceosome-driven mRNA splicing, regulation and recognition of splice sites, and links to translation initiation and ribosome assembly, plus regulatory ncRNA\u2013mediated gene silencing. This points to a coherent module of post-transcriptional RNA processing linked to translation control.","confidence":"High","size":7,"edges":12,"triangles":8,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0010610","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0006378","count":3}]},{"hash":"677179044501421512","title":"Developmental ECM Remodeling and Cell Migration","description":"The cluster centers on integrin signaling, hyaluronan metabolism, and metallopeptidase activity, with associated processes in cell migration and extracellular matrix remodeling (extravasation, substrate-dependent migration) and development-related morphogenesis (cartilage, dendrite regeneration, endodermal differentiation). This suggests a cohesive theme of ECM remodeling enabling cell movement during development and tissue remodeling.","confidence":"High","size":7,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031104","count":3},{"id":"GO:0003429","count":3},{"id":"GO:0045123","count":3},{"id":"GO:0006929","count":3},{"id":"GO:0007229","count":3}]},{"hash":"2260127228398418763","title":"RNA Splicing and Translation Regulation under Stress","description":"Top GO terms indicate RNA processing (spliceosome-mediated splicing, splice-site recognition, preinitiation complex formation) and translation regulation (translation initiation/termination reinitiation), alongside stress-related responses (insulin stimulus, hypoxia, mRNA stability in response to stress). Together, these suggest a coherent cluster of proteins involved in RNA processing and translational control under cellular stress conditions.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0032869","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0048026","count":4},{"id":"GO:0010610","count":4},{"id":"GO:0001731","count":3}]},{"hash":"2164290201909385187","title":"Immune signaling and tissue remodeling","description":"The top GO terms point to immune and inflammatory processes (type IV hypersensitivity, IL-4 production, B cell tolerance induction) and responses to signaling molecules (prostaglandin E, VEGF), alongside tissue remodeling signals (cartilage condensation, metallopeptidase activity). Together they suggest a theme of immune-mediated signaling coupled with extracellular matrix remodeling during development or inflammation, rather than a single narrow function.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001502","count":6},{"id":"GO:0071226","count":6},{"id":"GO:0001402","count":5},{"id":"GO:0035924","count":5},{"id":"GO:0071380","count":5}]},{"hash":"2142318478798022165","title":"Ubiquitin-Driven NF-\u03baB/JNK Signaling","description":"Proteins in this cluster are enriched for ubiquitin-dependent proteolysis and multiple ubiquitin linkage types (K63, K6, autoubiquitination), linked with signaling pathways such as TNF-mediated signaling, NF-\u03baB activation, and JNK cascade regulation. This points to a cohesive role in ubiquitin-mediated regulation of inflammatory signaling and related chromatin modifications, justifying a label centered on ubiquitin-driven signaling pathways.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:2000620","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0007250","count":3}]},{"hash":"1973219787542849026","title":"Unknown","description":"The GO terms are highly diverse, spanning cell division, ubiquitin-related processes, apoptosis, DNA binding regulation, metal ion response, chaperone regulation, immune response modulation, steroid receptor assembly, gluconeogenesis, and plant cytokinin signaling. With no clear common function or pathway linking these terms and no edges observed, there is no cohesive theme to label a specific function for this cluster.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0016579","count":1},{"id":"GO:0042981","count":1},{"id":"GO:0043392","count":1},{"id":"GO:0010288","count":1}]},{"hash":"1388345659813660191","title":"Mitochondrial energy production and protein quality control","description":"Top GO terms center on mitochondrial electron transport and complex II assembly, plus oxidative stress response and protein maintenance, suggesting a cluster of proteins involved in mitochondrial energy production and quality control. A few terms appear obsolete or peripheral, likely noise.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":1},{"id":"GO:0034553","count":1},{"id":"GO:0070301","count":1},{"id":"GO:0006464","count":1},{"id":"GO:0055114","count":1}]},{"hash":"1072255863193007641","title":"Translation and Ribosome Biogenesis","description":"The top GO terms center on cytoplasmic translation steps (initiation, elongation, termination) and ribosomal subunit biogenesis, indicating a cluster focused on the protein synthesis machinery; a few outliers (antibiotic response, glial proliferation) are likely incidental.","confidence":"High","size":7,"edges":13,"triangles":9,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0000288","count":3},{"id":"GO:2000767","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0014009","count":3}]},{"hash":"2222254129070774251","title":"Brain and sensory nervous system development","description":"Predominant GO terms describe development of brain regions and sensory-related nervous system structures (brain development, inner ear development, PNS neuron development, globus pallidus development, locomotory behavior). This points to a cluster of proteins involved in neural/sensory system formation and maturation. A few terms touch embryonic development and transcription regulation, but the neural development theme is strongest.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0007626","count":3},{"id":"GO:0048839","count":3},{"id":"GO:0090009","count":3},{"id":"GO:0000122","count":3}]},{"hash":"554126591824430570","title":"Membrane Transport and Lipid Metabolism","description":"This cluster is driven by terms about moving molecules across membranes (xenobiotic transmembrane transport, amino acid transmembrane transport, phospholipid translocation, ceramide translocation, phytochelatin import into vacuole) and a lipid-related catabolic process (very long-chain fatty acid). Together, they point to a membrane-transport and lipid-handling functional theme, with a few outliers that are less connected to this core. ","confidence":"Medium","size":7,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0036246","count":1},{"id":"GO:0002489","count":1},{"id":"GO:0046689","count":1},{"id":"GO:0006855","count":1},{"id":"GO:0099040","count":1}]},{"hash":"1446659850281839382","title":"Ubiquitin-like modification and selective autophagy (yeast)","description":"The cluster is dominated by GO terms for ubiquitin-like post-translational modifications (protein sumoylation, urmylation) and ubiquitin-dependent quality control (ERAD). It also features several autophagy-related processes, notably cytoplasm-to-vacuole targeting (Cvt pathway), piecemeal microautophagy of the nucleus, and nucleophagy, indicating a shared theme of proteostasis via ubiquitin-like conjugation and selective autophagy in yeast.","confidence":"High","size":7,"edges":11,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0051726","count":2},{"id":"GO:0032258","count":2},{"id":"GO:0032447","count":2}]},{"hash":"2273040606219333235","title":"Developmental and stress-response cluster","description":"The proteins are enriched for developmental processes (skeletal system development, multicellular organism development) and core cellular activities (DNA-templated transcription, DNA replication, mitotic cell cycle), along with stress and defense signals (intrinsic apoptotic signaling from ER stress, response to cadmium, defense response to Gram-positive bacteria). This pattern suggests a theme of developmental programs that coordinate cell cycle and genome maintenance with cellular stress responses, rather than a single isolated function.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006349","count":5},{"id":"GO:0001501","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0000278","count":5}]},{"hash":"2040544613365992257","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0006260","count":1},{"id":"GO:0010867","count":1},{"id":"GO:0032219","count":1}]},{"hash":"361458464366692985","title":"Viral entry and replication machinery","description":"The top GO terms cluster around stages of the viral life cycle: uncoating, virion assembly, and RNA-templated DNA biosynthesis (reverse transcription), as well as symbiont entry into host and lipid droplet organization, which viruses often exploit. Some terms like protein folding and positive regulation of protein secretion may reflect general host processes hijacked during infection, while a term such as sepal formation appears to be an annotation artifact rather than a viral function. Overall, the cluster points to a virus-entry/replication module.","confidence":"Medium","size":7,"edges":11,"triangles":6,"max_degree":6,"top_function":"protein folding","top_go_terms":[{"id":"GO:0019061","count":4},{"id":"GO:0006457","count":4},{"id":"GO:0048453","count":4},{"id":"GO:0006278","count":4},{"id":"GO:0019068","count":4}]},{"hash":"482335433823990995","title":"Potassium Transport and Membrane Potential","description":"The top GO terms cluster around potassium ion import/export and transmembrane transport, stabilization and repolarization of membrane potential, and even atrial cardiac muscle cell repolarization, all pointing to a module of ion transporters and channels that regulate excitability. While sensory perception and temperature responses are present, the core signal is potassium-driven membrane potential regulation in excitable tissues like nerves and heart.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":4},{"id":"GO:0050976","count":3},{"id":"GO:0098914","count":3},{"id":"GO:0002024","count":3},{"id":"GO:1990573","count":3}]},{"hash":"1368903399657314598","title":"Organelle transcription and RNA processing","description":"The terms point to gene expression processes in organelles, dominated by mitochondrial transcription (and its termination/regulation) and plastid/chloroplast transcription and rRNA transcription, plus related ribosome assembly and RNA processing/splicing within mitochondria and plastids. This suggests a cohesive theme around organellar transcription and RNA maturation, with a few nuclear-associated terms contributing minimally. Therefore, a concise label highlighting organelle-focused transcription/RNA processing is appropriate.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006393","count":1},{"id":"GO:0008380","count":1},{"id":"GO:0009658","count":1},{"id":"GO:1903108","count":1},{"id":"GO:0006390","count":1}]},{"hash":"1016441623465502468","title":"Cell Cycle and Cytoskeleton Dynamics","description":"This cluster centers on cell cycle progression (G1/S transition; meiotic chromosome movement) and actin cytoskeleton regulation (stress fiber assembly; Rho signaling), suggesting coordinated control of cell division and cytoskeleton. Some terms (spermatogenesis, synaptic plasticity, trophectodermal morphogenesis, tRNA processing) are less directly connected and may reflect broader gene functions or annotation noise, but the core theme points to division-coupled cytoskeletal dynamics.","confidence":"Medium","size":7,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007283","count":1},{"id":"GO:0008033","count":1},{"id":"GO:0051759","count":1},{"id":"GO:0031915","count":1},{"id":"GO:0001831","count":1}]},{"hash":"606117395642680388","title":"Mitochondrial lipid metabolism and remodeling","description":"The most represented functions are lipid biosynthesis and mitochondrial-associated lipid processes (cardiolipin remodeling, ether lipid biosynthesis, triglyceride biosynthesis) along with mitochondrial ATP synthesis, pointing to a core theme of membrane lipid metabolism tied to mitochondrial function. A couple of development terms appear incidental to organismal context rather than core cluster function. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":2},{"id":"GO:0042551","count":2},{"id":"GO:0042775","count":1},{"id":"GO:0016024","count":1},{"id":"GO:0035965","count":1}]},{"hash":"100702400829514958","title":"Cardiac Electrical Activity and Ion Transport","description":"The top GO terms cluster around cardiac action potential generation and repolarization, heart-rate regulation via cardiac conduction, and potassium ion transport across membranes, plus resting membrane potential, indicating a cohesive theme of cardiac electrical activity and ion homeostasis. Some terms related to temperature, touch, and pain are likely incidental.","confidence":"High","size":7,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0098914","count":4},{"id":"GO:0050976","count":3},{"id":"GO:0086091","count":3},{"id":"GO:0002024","count":3},{"id":"GO:1990573","count":3}]},{"hash":"742468463026752822","title":"Potassium Transport and Membrane Potential Regulation","description":"The GO terms cluster around maintaining and adjusting membrane potential: stabilization and regulation of resting potential, potassium ion transmembrane transport, and intracellular potassium ion homeostasis, with a cardiac-specific note on repolarization. A mechanosensation term can align with ion-channel\u2013mediated touch sensing, but the dominant signal is ionic homeostasis and electrical excitability. A few unrelated biosynthetic/development terms are likely noise. Overall, the cluster represents a coherent potassium- and membrane-potential regulation module.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030322","count":2},{"id":"GO:0098914","count":2},{"id":"GO:0050976","count":2},{"id":"GO:0060075","count":2},{"id":"GO:0071805","count":2}]},{"hash":"203636424475450965","title":"Chondroitin/Dermatan Proteoglycan Synthesis in Cartilage","description":"The top GO terms cluster around biosynthesis of sulfated proteoglycans\u2014especially chondroitin sulfate and dermatan sulfate\u2014tied to cartilage development, endochondral ossification, and bone morphogenesis. This points to a shared function in synthesizing ECM proteoglycans essential for skeletal tissue formation, despite a lack of observed interactions in the network data.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007040","count":2},{"id":"GO:0050650","count":2},{"id":"GO:0050653","count":2},{"id":"GO:0051216","count":2},{"id":"GO:0001958","count":2}]},{"hash":"1569392966001842543","title":"Developmental transcription and circadian regulation","description":"This cluster centers on transcriptional control (DNA-templated transcription) and circadian regulation of gene expression, with several development-related terms such as outflow tract septum morphogenesis, cardiac muscle cell proliferation, embryonic hindlimb morphogenesis, and amygdala development. The mix suggests a module of transcription regulators active in diverse developmental contexts and influenced by circadian rhythms, rather than a single, narrow pathway.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0003148","count":4},{"id":"GO:0021764","count":4},{"id":"GO:0045872","count":4},{"id":"GO:0035116","count":3}]},{"hash":"2179770499568492611","title":"Neural and organ development","description":"These proteins are annotated with GO terms spanning brain and neural patterning (brain development, cerebral cortex regionalization, subthalamic nucleus development, atrioventricular node development) as well as non-neural organogenesis (eye development, limb morphogenesis, nail plate morphogenesis, organ induction, somatotropin-secreting cell development). The common thread is involvement in broad embryonic developmental programs across multiple tissues, indicating a general development cluster rather than a single tissue-specific module.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":7},{"id":"GO:0043010","count":7},{"id":"GO:0021763","count":7},{"id":"GO:0035880","count":7},{"id":"GO:0035852","count":7}]},{"hash":"1549369794793445421","title":"Calcium-Regulated Muscle Morphogenesis","description":"Most top GO terms point to calcium signaling and muscle development (positive regulation of voltage-gated calcium channel activity, calcium ion transmembrane transport, regulation of muscle relaxation, muscle cell fate specification, ventricular cardiac muscle tissue morphogenesis). Some entries pertain to neural/eye or fungal processes, which may reflect broader calcium roles or annotation noise, but the dominant theme is calcium-dependent muscle development and function.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1901387","count":3},{"id":"GO:0072221","count":2},{"id":"GO:0032120","count":2},{"id":"GO:1901077","count":2},{"id":"GO:0008594","count":2}]},{"hash":"378182794612608317","title":"Carbohydrate Metabolism and Energy Regulation","description":"The top GO terms cluster around carbohydrate metabolism (gluconeogenesis, fructose metabolism, carbohydrate phosphorylation) and regulation of glycolysis, suggesting a shared focus on energy production and metabolic control; other terms reference stress responses and development, likely reflecting broad annotations rather than a single pathway.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":1},{"id":"GO:0009410","count":1},{"id":"GO:0016311","count":1},{"id":"GO:0007585","count":1},{"id":"GO:0006094","count":1}]},{"hash":"1900523935463883963","title":"Nuclear transcription and DNA replication regulation","description":"Most terms point to nuclear processes: DNA-templated transcription, DNA replication, and regulation of protein export from the nucleus, with additional notes on cell-cycle re-entry. Although there are a few signaling and adhesion-related terms present, the dominant theme seems to be nuclear gene expression and DNA replication/cell cycle control, suggesting these proteins cluster around nuclear functions and cell-cycle regulation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0051897","count":2},{"id":"GO:0010641","count":2},{"id":"GO:0043277","count":2},{"id":"GO:0014068","count":2}]},{"hash":"1259520792388653833","title":"Innate Immune Activation and Leukocyte Trafficking","description":"Most of the top GO terms relate to innate immunity, including complement activation, phagocytosis recognition, leukocyte tethering/rolling, NK cell chemotaxis regulation, and basophil activation, which together point to processes governing leukocyte recruitment and activation. A few terms about nephrogenesis appear as outliers, but the immune-related terms dominate, suggesting the cluster reflects innate immune activation and leukocyte trafficking.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000502","count":1},{"id":"GO:0060355","count":1},{"id":"GO:0001867","count":1},{"id":"GO:0006910","count":1},{"id":"GO:0050901","count":1}]},{"hash":"1601739824833640392","title":"Neural and organ development","description":"The top GO terms point to developmental processes across the nervous system (motor neuron axon guidance, forebrain/midbrain/cerebellum development, neuromuscular process) and across various organs (heart, inner ear, thyroid gland), plus multicellular organism development. This consistent emphasis on development across tissues suggests a cohesive cluster of proteins involved in vertebrate development, hence the label Neural and organ development.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008045","count":2},{"id":"GO:0030878","count":2},{"id":"GO:0021549","count":2},{"id":"GO:0050905","count":2},{"id":"GO:0030901","count":2}]},{"hash":"62366586451717144","title":"Neural crest development with immune signaling","description":"The top terms include neural crest\u2013derived processes such as melanocyte migration, trigeminal nerve organization, outer ear morphogenesis, and axon guidance, alongside immune-related activities like neutrophil clearance, dendritic cell cytokine production, LPS response, and mast cell differentiation, suggesting a cluster centered on neural crest\u2013driven development with concurrent immune signaling.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097350","count":2},{"id":"GO:1902287","count":2},{"id":"GO:0000187","count":2},{"id":"GO:0042473","count":2},{"id":"GO:0060374","count":2}]},{"hash":"2250124568069490154","title":"Plant AGP glycosylation and mucilage biosynthesis","description":"This cluster centers on arabinogalactan protein (AGP) metabolism and related glycosylation pathways, including O-linked glycosylation in hydroxyproline-rich proteins, plus mucilage and seed coat biosynthesis and root hair development. These terms collectively point to plant cell wall glycoprotein production and modification, with AGP glycosylation as a unifying theme.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":3},{"id":"GO:0006486","count":2},{"id":"GO:0080147","count":2},{"id":"GO:0010405","count":2},{"id":"GO:0010493","count":2}]},{"hash":"89731415049901880","title":"Neural development and axon guidance","description":"The cluster is enriched for neural development and axon guidance terms, including motor neuron and retinal ganglion cell axon guidance as well as visual perception and general multicellular development. Some DNA-related terms (replication, transcription, repair) and cell cycle appear but likely reflect housekeeping processes rather than core function. This supports a neurodevelopmental theme with emphasis on axon guidance and vision pathways.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009611","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0001890","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0007601","count":2}]},{"hash":"831770946977677435","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042403","count":1},{"id":"GO:0006044","count":1},{"id":"GO:0002002","count":1},{"id":"GO:0050427","count":1},{"id":"GO:0030573","count":1}]},{"hash":"1133204029224581466","title":"Embryonic and Tissue Development","description":"The top GO terms point to developmental processes across multiple tissues (in utero embryonic development, cerebral cortex development, neuron maturation, cardiac muscle proliferation, antral ovarian follicle growth), suggesting a shared theme of embryonic and tissue-specific development. While some terms relate to metabolism (tRNA modification, cobalamin biosynthesis), the dominant pattern is development across organs, so a broad developmental label fits best.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":3},{"id":"GO:0002098","count":2},{"id":"GO:0009236","count":2},{"id":"GO:0048240","count":2},{"id":"GO:0021987","count":2}]},{"hash":"325831816117601136","title":"DNA Damage Response and Meiotic Recombination","description":"The cluster clearly clusters terms related to DNA repair and recombination (interstrand cross-link repair, regulation of double-strand break repair via homologous recombination, resolution of mitotic recombination intermediates, DNA replication) and meiotic processes (synaptonemal complex assembly). Additional cues come from cellular responses to gamma radiation and melanocyte apoptotic process, indicating a broader DNA damage response context, while a few terms like cell adhesion and insulin secretion appear as outliers or multifunctional notes. Overall, the dominant theme ties to genome maintenance during replication and meiosis.","confidence":"Medium","size":6,"edges":7,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007155","count":1},{"id":"GO:0007130","count":1},{"id":"GO:0036297","count":1},{"id":"GO:0010569","count":1},{"id":"GO:1902362","count":1}]},{"hash":"120594296315180243","title":"Chondroitin sulfate proteoglycan biosynthesis and cartilage formation","description":"Most top GO terms are about proteoglycan biosynthesis (chondroitin/dermatan sulfate), sulfation, and cartilage-related processes (cartilage development, endochondral ossification). This points to a cluster of proteins involved in extracellular matrix proteoglycan production and cartilage formation, with a secondary context of tissue remodeling. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":1},{"id":"GO:0007386","count":1},{"id":"GO:0050650","count":1},{"id":"GO:0050653","count":1},{"id":"GO:0051216","count":1}]},{"hash":"171356056367011971","title":"Unknown","description":"The top terms are highly heterogeneous, spanning kidney development, fungal sporulation, synaptic processes, post-translational modification, and general signaling regulation, with no clear shared pathway or function. With zero edges among the six proteins, there is no cohesive biological theme to bind them, just a mix of unrelated processes. ","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097274","count":2},{"id":"GO:0010801","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0072221","count":1},{"id":"GO:0032120","count":1}]},{"hash":"211620519016166087","title":"Mitotic Microtubule Organization and Cytokinesis","description":"The top GO terms are centered on cell division, mitotic cytokinesis, microtubule nucleation, and cytoplasmic microtubule organization, all pointing to a core function in microtubule dynamics during cell division. Additional terms related to cell cycle and regulation of GTPase activity support a cytoskeletal/cell division theme; a few outliers (neuron migration, IL-4 response) appear ancillary but do not outweigh the dominant division/cytoskeleton signal.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0046835","count":2},{"id":"GO:0043547","count":2},{"id":"GO:1902408","count":1},{"id":"GO:0071353","count":1}]},{"hash":"1560859435732448630","title":"Tight junctions and glutamatergic signaling components","description":"This cluster centers on GO terms for tight junction assembly (bicellular and apical) and excitatory synaptic signaling (glutamatergic), supplemented by endosome trafficking and vesicle fusion processes, suggesting a group of membrane-associated proteins involved in junction formation and synaptic/trafficking roles.","confidence":"Medium","size":6,"edges":7,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070830","count":4},{"id":"GO:0060079","count":4},{"id":"GO:0045022","count":4},{"id":"GO:0051966","count":4},{"id":"GO:0043297","count":4}]},{"hash":"1031381061301268681","title":"Nuclear and ER protein folding and quality control","description":"The GO terms cluster around protein folding/refolding, ER-associated folding, and ubiquitin-proteasome\u2013mediated quality control in the nucleus, along with regulation of nuclear export and some nuclear membrane processes. This suggests a theme of protein homeostasis across nuclear and ER compartments, which justifies the label. Some terms (DNA replication, hormone response) are less connected, so the overall confidence is moderate.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":1},{"id":"GO:0000740","count":1},{"id":"GO:0071630","count":1},{"id":"GO:0090084","count":1},{"id":"GO:0042026","count":1}]},{"hash":"385719031669999751","title":"Unknown","description":"The GO terms span diverse processes (membrane potential, cardiac proliferation, Ras signaling, aerotaxis, drug response, smell, learning, yeast bud neck localization, carbon catabolite repression, and small GTPase signaling), with no clear common function tying them together. This lack of a coherent theme warrants an Unknown label with no confidence. ","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042391","count":2},{"id":"GO:0060038","count":1},{"id":"GO:0046580","count":1},{"id":"GO:0009454","count":1},{"id":"GO:0097332","count":1}]},{"hash":"1443852803432543910","title":"Migration, Growth Regulation, and Immune Signaling","description":"This cluster centers on cell migration (GO:0016477) and immune/inflammatory signaling (type IV hypersensitivity; VEGF and prostaglandin E responses), with concurrent regulation of growth and survival (negative regulation of Wnt signaling; negative regulation of cell proliferation; positive regulation of apoptotic process) and extracellular remodeling (metallopeptidase activity). The diverse GO terms suggest a coordinated program where cells migrate in a signaling-rich environment while integrating growth control and immune-related responses, with a stress-context hinted by cold acclimation.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":3},{"id":"GO:0090090","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0001402","count":2}]},{"hash":"339900702679685115","title":"Glycolysis and PLP-dependent protein modifications","description":"The cluster shows enrichment for glycolytic process and pyridoxine biosynthesis, plus a PLP-linked protein modification and redox-related terms like sulfhydration and NF-kappaB signaling. Despite several obsolete GO terms, the core themes point to metabolism (glycolysis) intertwined with pyridoxal phosphate\u2013dependent protein modifications, suggesting a cohesive functional module.","confidence":"Medium","size":6,"edges":11,"triangles":10,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0008615","count":2},{"id":"GO:0006096","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0019450","count":2}]},{"hash":"1147604192312257037","title":"Proteostasis and Protein Quality Control","description":"The terms center on protein folding (ER), nuclear and cellular quality control (ubiquitin-proteasome system), and regulation of protein maturation and export, painting a cohesive theme of maintaining protein homeostasis. Occasional unrelated terms (e.g., DNA replication) may be incidental annotations, but the dominant pattern supports a proteostasis focus.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":1},{"id":"GO:0071630","count":1},{"id":"GO:0090084","count":1},{"id":"GO:0071374","count":1},{"id":"GO:0034975","count":1}]},{"hash":"2219685528222616834","title":"Synaptic signaling regulation","description":"The top GO terms are dominated by neuronal signaling and plasticity elements, including negative regulation of protein kinase activity, regulation of neuronal synaptic plasticity, and regulation of synaptic vesicle endocytosis, plus amphetamine response. While a couple of terms (metanephric development, prospore membrane formation) are more peripheral, the core group points to proteins that modulate synaptic signaling and plasticity rather than a common metabolic or structural pathway. Therefore, a concise label is Synaptic signaling regulation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0048168","count":3},{"id":"GO:0010801","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0072221","count":2}]},{"hash":"1730341201606563071","title":"Cell-surface signaling and adhesion regulation","description":"The terms indicate signaling at the plasma membrane, including cell surface receptor signaling, integrin-mediated signaling, and regulation of cell motility, with VEGF signaling also involved. While a couple of terms touch on junctions or lysosome localization, the core pattern points to membrane-associated signaling and adhesion/migration control.","confidence":"Medium","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0061462","count":1},{"id":"GO:2000680","count":1},{"id":"GO:0071404","count":1},{"id":"GO:0007166","count":1},{"id":"GO:2001046","count":1}]},{"hash":"243140315798394398","title":"Multiorgan Development and Differentiation","description":"The top GO terms span several organ-specific development processes (trophoblast giant cell differentiation, lens development, ventricular septum morphogenesis) and general differentiation/assembly functions (gap junction assembly, transcription preinitiation complex assembly), indicating a broad theme of organogenesis and intercellular organization across tissues rather than a single pathway. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":2},{"id":"GO:0090309","count":1},{"id":"GO:0045898","count":1},{"id":"GO:0007568","count":1},{"id":"GO:0002088","count":1}]},{"hash":"66489988533843418","title":"DNA replication and repair machinery","description":"Most of the top GO terms point to DNA synthesis and repair processes (double-strand break repair by homologous recombination, DNA replication, leading/lagging strand elongation, nucleotide-excision repair, UV-damage excision repair). A few RNA processing terms appear but do not define the cluster, which is dominated by DNA replication/repair functions. This supports labeling the cluster as DNA replication and repair machinery.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043150","count":1},{"id":"GO:0006260","count":1},{"id":"GO:1903460","count":1},{"id":"GO:0006297","count":1},{"id":"GO:1904161","count":1}]},{"hash":"887244888768020499","title":"Developmental Growth and Vesicle Trafficking","description":"These proteins cluster around broad developmental processes (brain and skeletal development, multicellular growth) and vesicle trafficking steps (COPII budding, vesicle fusion), with associated growth signaling (TORC1) and GTPase regulation. The common theme appears to be coordination of organismal development with intracellular transport and signaling, rather than a single precise pathway, supporting the label Developmental Growth and Vesicle Trafficking.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0090114","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0006906","count":2},{"id":"GO:0070208","count":2}]},{"hash":"1091918579451361470","title":"Actin Filament Assembly and Cell Migration","description":"The terms point to actin-related processes, including actin filament bundle assembly and mitotic actomyosin contractile ring formation, plus motor activity. The cluster also highlights cell movement and shape changes (mesenchyme migration), muscle-related adaptation, and platelet aggregation\u2014contexts that all depend on actin cytoskeleton remodeling. Despite a few obsolete terms, the dominant theme is actin filament organization and contractile/motile functions.","confidence":"High","size":6,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1904623","count":2},{"id":"GO:1903475","count":2},{"id":"GO:0070527","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0051017","count":2}]},{"hash":"2110552928262110617","title":"Regulation of signaling and vesicle trafficking","description":"The cluster features several regulatory signaling terms (positive regulation of phosphatidylinositol biosynthesis, ERK1/ERK2 cascade, dopamine uptake) alongside vesicle-related processes (synaptic vesicle budding, phagosome-lysosome fusion, cytotoxic T cell degranulation). This suggests a theme around modulation of signaling pathways together with vesicle dynamics, rather than a single specific function. Some other items (gene expression regulation, cell proliferation) fit into broader regulatory roles, reinforcing a general signaling/trafficking regulatory theme.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010513","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0051586","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0010629","count":1}]},{"hash":"270841976621810134","title":"Embryonic development with transcriptional regulation","description":"The cluster includes neural crest migration, pancreas development, digestive tract morphogenesis, ureteric bud branching, and heart development via Wnt signaling, indicating broad embryonic organogenesis. It also features chromatin remodeling and negative regulation of transcription by RNA polymerase II, suggesting epigenetic control accompanies development. Together, these terms point to a group of proteins involved in orchestrating early development and chromatin-based transcriptional regulation.","confidence":"Medium","size":6,"edges":11,"triangles":7,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0001755","count":2},{"id":"GO:0031018","count":2},{"id":"GO:0090190","count":2},{"id":"GO:0048557","count":2}]},{"hash":"2102358381412420781","title":"Unknown","description":"The top terms span metabolism (cellular response to glucose stimulus), angiogenesis, immune defense (responses to Gram-positive bacteria and LPS, T cell signaling), and other signaling processes (cGMP, receptor pathways), as well as olfactory perception. This broad spread lacks a single, coherent biological function that ties the proteins together, and the cluster shows no interactions (Edges 0, Triangles 0, Max Degree 0). Therefore there isn\u2019t a clear theme to assign a specific, concise label.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071333","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0010754","count":3}]},{"hash":"755121893250384505","title":"RNAi Machinery and Translation Regulation","description":"The cluster is dominated by RNA interference-related GO terms such as RISC complex assembly and siRNA processing, pointing to core RNAi machinery. The presence of translation-related terms (translation, rRNA catabolic process) alongside antiviral/host-virus interaction terms suggests these proteins coordinate gene silencing with translational control and antiviral responses. Thus the common theme appears to be RNA silencing machinery connected to translation regulation and viral interactions.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0009047","count":2},{"id":"GO:0044387","count":2},{"id":"GO:0070919","count":2},{"id":"GO:0009636","count":2}]},{"hash":"2010095282580094101","title":"Unknown","description":"The top GO terms span energy metabolism, transcription elongation, DNA replication, mitochondrial inner membrane protein insertion, SNARE complex disassembly, autophagosome maturation, protein oligomerization, and bacterial competence. These functions are scattered across diverse cellular processes and compartments with no single shared pathway or theme linking all six proteins, so there isn\u2019t a coherent functional label to assign.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001171","count":1},{"id":"GO:0071712","count":1},{"id":"GO:0032968","count":1},{"id":"GO:0034214","count":1},{"id":"GO:0006260","count":1}]},{"hash":"1823040948253574312","title":"Translation control and ribosome dynamics under stress","description":"The top GO terms cluster around translation machinery (cytoplasmic translation, mitochondrial translational elongation, ribosome disassembly, translational fidelity, selenocysteine incorporation) and nutrient/oxidative stress responses (response to starvation, amino acid starvation, redox homeostasis). This points to a theme of regulating translation and ribosome function in response to nutritional or redox stress, rather than a single metabolic pathway. Some terms appear less directly connected (cell septum assembly, siRNA-mediated heterochromatin regulation), likely reflecting multifunctional proteins or annotation noise.","confidence":"High","size":6,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0042594","count":2},{"id":"GO:1903833","count":1},{"id":"GO:2000767","count":1},{"id":"GO:0032790","count":1}]},{"hash":"1468309800005083174","title":"Unknown","description":"The terms in this cluster cover a wide range of biological processes\u2014immune differentiation, neuronal development, lipid metabolism, protein secretion, and various growth-factor signaling pathways\u2014without a clear common function or shared molecular mechanism. Given zero edges/triangles and only single-term representations, there isn't a cohesive theme to name beyond Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030853","count":1},{"id":"GO:0010875","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0009306","count":1},{"id":"GO:0030948","count":1}]},{"hash":"2218235988847709141","title":"Ubiquitin-Proteasome-Autophagy Regulators","description":"These six proteins show strong representation of ubiquitin-related processes (deubiquitination, sumoylation), proteasome regulation, and autophagy-related pathways (aggrephagy, autophagosome maturation), with some influence on transcriptional regulation. The common thread is proteostasis: coordinating protein turnover and quality control through the ubiquitin-proteasome system and autophagy, rather than a single signaling pathway. Therefore, the label reflects a cohesive role in protein homeostasis and degradation pathways.","confidence":"High","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":4},{"id":"GO:0034140","count":2},{"id":"GO:1900186","count":2},{"id":"GO:1901799","count":2},{"id":"GO:0035973","count":2}]},{"hash":"544933623566026900","title":"Placenta and reproductive tissue development","description":"Top terms center on placenta development (including maternal placenta) and vagina development, with supporting signals like retinoic acid response and p38 MAPK cascade, plus transcriptional regulation and fat cell differentiation. This suggests a theme of developmental signaling and differentiation in reproductive tissues, rather than a single metabolic pathway, though some terms are less clearly connected.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:2001275","count":2},{"id":"GO:0071300","count":2},{"id":"GO:0001890","count":2},{"id":"GO:0045444","count":2}]},{"hash":"389554420865303689","title":"Embryonic and reproductive tissue development","description":"The terms show a broad pattern of developmental processes across multiple tissues and reproductive contexts (vascular, limb, gonadal, placental), with several entries reflecting regulatory actions. This points to a general developmental/differentiation theme rather than a single, specific pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001955","count":1},{"id":"GO:1900004","count":1},{"id":"GO:0008584","count":1},{"id":"GO:0060173","count":1},{"id":"GO:1904684","count":1}]},{"hash":"1405561054278172408","title":"Unknown","description":"The top GO terms are highly heterogeneous, covering metabolism, immune regulation, GPCR signaling, surfactant homeostasis, and broad developmental/hormonal processes (hormone secretion, organ identity, and tubule development). There is no clear, single theme or shared function uniting these terms, so a coherent, specific label cannot be confidently assigned.","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071329","count":1},{"id":"GO:0043031","count":1},{"id":"GO:1904938","count":1},{"id":"GO:0007189","count":1},{"id":"GO:0043129","count":1}]},{"hash":"984652436427003688","title":"Unknown","description":"The GO terms are scattered across immune signaling (stimulatory C-type lectin receptor signaling), xenobiotic transport, copper ion transport/homeostasis, mineral/bone development, and other unrelated processes (including obsolete terms). With zero edges and no coherent shared function, there isn\u2019t a single interpretable theme to bind this cluster; if anything, copper-related terms recur but do not define a clear cluster function.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002223","count":2},{"id":"GO:0006855","count":1},{"id":"GO:0035593","count":1},{"id":"GO:1902311","count":1},{"id":"GO:0051603","count":1}]},{"hash":"461026814293239127","title":"T cell signaling and ubiquitin-regulated NF-kappaB activity","description":"The GO terms point to immune cell signaling, especially T cell functions (T follicular helper differentiation, T cell proliferation), combined with ubiquitin-dependent protein turnover and regulation of NF-kappaB signaling. The presence of polyubiquitination and NF-kappaB induction links suggests a cohesive theme of ubiquitin-mediated regulation of T cell\u2013associated signaling pathways, including germinal center and inflammatory responses, despite some broader immune signals like LPS. This supports a focused label around T cell signaling modulated by ubiquitin and NF-kappaB activity.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002635","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0061470","count":3},{"id":"GO:0007250","count":2},{"id":"GO:0007026","count":2}]},{"hash":"1765442195326996319","title":"Unknown","description":"The GO terms mix ubiquitination/ERAD-related processes with diverse membrane transport and metabolism terms (phosphate, xenobiotics, ascorbate, and aromatic compounds), showing no clear, cohesive function for the cluster.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0070534","count":2},{"id":"GO:0050999","count":2},{"id":"GO:0035435","count":2}]},{"hash":"1184715846782888209","title":"Unknown","description":"The top GO terms span both immune processes (complement activation pathways and phagolysosome activity) and neural development (axon guidance, optic nerve morphogenesis), plus a few diverse developmental and endocrine terms. With no clear single theme or connectivity among the proteins (Edges 0, Triangles 0), there isn\u2019t a confident, cohesive label to assign beyond Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":1},{"id":"GO:0006924","count":1},{"id":"GO:0001845","count":1},{"id":"GO:0006590","count":1},{"id":"GO:0097155","count":1}]},{"hash":"932196883682544694","title":"Plant development and proteostasis","description":"The top GO terms include chlorophyll biosynthetic process and stamen formation, indicating plant development, while ubiquitin-dependent protein catabolic process and proteasome assembly, plus protein urmylation, point to proteostasis and protein turnover. The mix of chloroplast-associated functions with protein quality control suggests a cluster involved in plant growth/differentiation coupled with protein homeostasis. While some terms are more general (e.g., redox homeostasis, tRNA modification), the prominent plant-development and proteostasis signals give a coherent, though broad, theme.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015995","count":2},{"id":"GO:0006511","count":2},{"id":"GO:0048455","count":2},{"id":"GO:0043248","count":2},{"id":"GO:0000087","count":1}]},{"hash":"217131500473209414","title":"Unknown","description":"The top GO terms are scattered across diverse processes, including heart morphogenesis, kidney development, transcriptional regulation, phosphorylation control, GTPase activity, immune cell chemotaxis, and vesicle processes. With no edges or cohesive functional thread tying the proteins together, and only a couple of kidney-related terms among many unrelated functions, there isn\u2019t a clear unifying theme to name a specific cluster function. Therefore, Unknown with None. ","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055010","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0035502","count":2},{"id":"GO:0010801","count":1},{"id":"GO:0043547","count":1}]},{"hash":"1036617772989913488","title":"Neural development and axon guidance","description":"The top GO terms indicate a strong emphasis on nervous system development and axon pathfinding, including commissural and branchiomotor neuron axon guidance, sympathetic ganglion development, otic placode development, and semaphorin-plexin signaling. A few other differentiation terms are present but do not override the clear neural-development and axon-guidance theme, so this label best represents the cluster's function.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0040015","count":1},{"id":"GO:0048235","count":1},{"id":"GO:0050873","count":1},{"id":"GO:0007171","count":1},{"id":"GO:0071679","count":1}]},{"hash":"2192088393950188177","title":"Actin-driven cytoskeleton remodeling and membrane signaling","description":"The GO terms cluster around actin crosslink formation, cytoskeletal dynamics, exocytosis, cell adhesion, and cell-surface signaling, suggesting a shared function in actin-mediated remodeling that coordinates signaling and trafficking at the plasma membrane. Confidence: Medium","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007026","count":2},{"id":"GO:0007166","count":1},{"id":"GO:0023051","count":1},{"id":"GO:0006887","count":1},{"id":"GO:0007155","count":1}]},{"hash":"1885804023712107459","title":"Chromatin regulation and transcription control","description":"This cluster is characterized by GO terms centered on epigenetic programming of gene expression, histone catabolic processes, and negative regulation of transcription by RNA polymerase II, with additional signals from protein sumoylation and DNA methylation\u2013related processes. While there are a few peripheral terms (e.g., peroxisomal protein import, placenta morphogenesis), the strongest and most coherent theme is chromatin-level regulation of transcription. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043045","count":2},{"id":"GO:0016925","count":2},{"id":"GO:0045869","count":2},{"id":"GO:0016558","count":2},{"id":"GO:0036205","count":2}]},{"hash":"1691596949006250825","title":"RNA Pol II Transcription Regulation and PIC Assembly","description":"Based on the recurring GO terms, this cluster centers on regulation of transcription by RNA polymerase II, including regulation of preinitiation complex assembly and transcription initiation. Terms also reference histone acetylation and transcription factor activity, supporting a transcriptionally focused cluster, despite some terms being obsolete. The overall theme ties the proteins to transcriptional control rather than a specific pathway.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007221","count":2},{"id":"GO:0061408","count":2},{"id":"GO:0043966","count":2},{"id":"GO:0045898","count":2},{"id":"GO:0043457","count":2}]},{"hash":"169701460482053314","title":"Growth Factor Signaling and Immune-Vascular Response","description":"The top GO terms point to growth-factor\u2013mediated signaling (PI3K/AKT, PDGF receptor pathways) and responses to vascular/immune cues (VEGF, prostaglandin), with additional immune-related and remodeling activities (type IV hypersensitivity, metallopeptidase activity). This suggests a cohesive module centered on growth factor signaling influencing vascular and immune remodeling, even though a couple of terms appear less directly connected.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043277","count":2},{"id":"GO:0051897","count":2},{"id":"GO:0010641","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0046827","count":2}]},{"hash":"465313726764688152","title":"Proteoglycan biosynthesis and glycosaminoglycan metabolism","description":"The top GO terms cluster around biosynthesis and metabolism of proteoglycans and their glycosaminoglycan chains (chondroitin sulfate, heparan sulfate, dermatan sulfate), as well as related proteoglycan metabolism and localization. Although a couple terms touch on development, the dominant theme is extracellular matrix proteoglycans, indicating these proteins are linked to building/remodeling ECM glycosaminoglycans.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":1},{"id":"GO:0060676","count":1},{"id":"GO:0002063","count":1},{"id":"GO:0015014","count":1},{"id":"GO:0015768","count":1}]},{"hash":"281387447557072409","title":"RNA splicing and translation regulation","description":"The cluster is dominated by spliceosome-related terms (regulation of mRNA splicing, mRNA splicing via spliceosome, splice site recognition) as well as translation-related terms (translation, formation of translation preinitiation complex) and ribosome biogenesis, with an additional note on regulatory ncRNA-mediated gene silencing. This suggests a cohesive module linking RNA processing/splicing to initiation of protein synthesis, possibly in stress or regulatory contexts. ","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0010610","count":3},{"id":"GO:0048025","count":3},{"id":"GO:0000398","count":2}]},{"hash":"719455195895472446","title":"Immune and Angiogenic Signaling","description":"The terms cluster around defense against Gram-positive bacteria, inflammatory mediators (prostaglandin E), and angiogenic programs (VEGF signaling, angiogenesis), with related tissue remodeling (MMP activity) and PI3K signaling, suggesting a unit that coordinates immune responses with vascular remodeling.","confidence":"High","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0045766","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0071333","count":2},{"id":"GO:0001402","count":1}]},{"hash":"593126710363298935","title":"Developmental Signaling and Tissue Differentiation","description":"The terms indicate development- and differentiation-related processes across multiple tissues: cell-matrix adhesion and axon guidance point to morphogenesis and neural connectivity; VEGF response ties to angiogenesis during development; skeletal system and multicellular organism development reflect broader morphogenesis; differentiation terms (keratinocyte, brown fat) and PI3K/AKT signaling highlight signaling-driven lineage specification and survival. The cluster seems to capture a developmental/differentiation program rather than a single pathway.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":3},{"id":"GO:0008045","count":3},{"id":"GO:0035924","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0007275","count":2}]},{"hash":"2146356557437969080","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0048701","count":2},{"id":"GO:1990417","count":1},{"id":"GO:1990120","count":1}]},{"hash":"621306866286938759","title":"Neural development and synaptic vesicle exocytosis","description":"This cluster is enriched for terms involving brain development, positive regulation of dendrite extension, and presynaptic dense core vesicle exocytosis, all pointing to neural growth and synaptic function. Rho signaling regulation aligns with cytoskeletal remodeling essential for dendrite formation and vesicle trafficking, supporting a cohesive neural development/synaptic theme. Some metabolic terms appear but do not override the dominant neural-related functions.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0007420","count":4},{"id":"GO:0010794","count":4},{"id":"GO:1901002","count":4},{"id":"GO:0099525","count":4}]},{"hash":"280885479305685800","title":"Fatty acid oxidation and branched-chain amino acid catabolism","description":"The GO terms cluster around fatty acid degradation (long- and medium-chain beta-oxidation) and branched-chain amino acid catabolism (leucine, valine), indicating a metabolism-oriented cluster focused on lipid and BCAA utilization. The presence of carbohydrate phosphorylation and negative regulation of glycolytic process suggests coordinated metabolic regulation rather than anabolic pathways; a single steroid biosynthetic term is likely peripheral.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045820","count":2},{"id":"GO:0046835","count":2},{"id":"GO:0033540","count":1},{"id":"GO:0006694","count":1},{"id":"GO:0019439","count":1}]},{"hash":"1692902902155872859","title":"Unknown","description":"There are no edges, no triangles, no shared top GO terms, and thus no obvious functional signal linking these six proteins. Without a common enriched function or interaction pattern, a specific, descriptive label cannot be assigned.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"472059463534437933","title":"Ubiquitin-Proteasome Regulation of Mitosis","description":"The top GO terms point to ubiquitin-dependent processes\u2014protein autoubiquitination, K11-linked ubiquitination, SCF-dependent proteasomal degradation, and ubiquitin-dependent protein catabolic processes\u2014together with cell cycle control terms like mitotic cell cycle and G2/M transition. This indicates a cohesive theme of regulatory protein turnover by the ubiquitin-proteasome system guiding mitosis, with a largely incidental peroxisome import term. Overall, the cluster appears to function in ubiquitin-mediated proteolysis linked to cell cycle progression.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":3},{"id":"GO:0030433","count":3},{"id":"GO:1902564","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0070979","count":2}]},{"hash":"1511304610301474716","title":"Nematode xenobiotic detoxification and stress response","description":"The GO terms cluster around detoxification and stress response in nematodes, including cellular response to xenobiotic stimulus, oxidant detoxification, and responses to nitric oxide and calcium signaling. While some terms reflect nematode-specific biology (molting cycle, pharyngeal pumping), the dominant theme is detoxification and stress-response pathways in nematodes.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0031457","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0050667","count":1}]},{"hash":"866468977393438205","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0042817","count":1},{"id":"GO:0009229","count":1},{"id":"GO:0009230","count":1},{"id":"GO:0009443","count":1}]},{"hash":"879227036726080168","title":"Proteoglycan/GAG biosynthesis","description":"The GO terms point to biosynthesis and metabolism of proteoglycans and their glycosaminoglycan chains (chondroitin sulfate, heparan sulfate, dermatan sulfate), along with proteoglycan metabolic processes and related extracellular matrix localization. This suggests a cohesive role in glycosaminoglycan production and ECM assembly, despite some obsolete terms in the set.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":1},{"id":"GO:0060676","count":1},{"id":"GO:0002063","count":1},{"id":"GO:0015014","count":1},{"id":"GO:0015768","count":1}]},{"hash":"1710537047671693592","title":"Axon guidance and neural development","description":"This cluster is characterized by GO terms centered on axon guidance, semaphorin signaling, and neural development (e.g., auditory receptor cell development, neural differentiation), indicating a primary theme of neural development and pathfinding as the shared function among these proteins. While there are a few immune/hematopoietic terms in the mix, they appear less representative of the cluster\u2019s core function.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1903465","count":2},{"id":"GO:0035701","count":2},{"id":"GO:0007411","count":2},{"id":"GO:0097350","count":2},{"id":"GO:1904597","count":2}]},{"hash":"1480631668678702935","title":"Fucosylation and glycan biosynthesis","description":"Based on the top GO terms, the cluster is enriched for fucose-containing glycan processing: L-fucose catabolic process, Lewis a epitope biosynthesis, and glycosylation-related terms (fucosylation and protein glycosylation). Although there are a couple unrelated terms (ion transport), the recurring theme centers on glycan modification involving fucose, suggesting proteins involved in glycosylation pathways and fucose-containing glycans.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006828","count":2},{"id":"GO:0098703","count":2},{"id":"GO:0042355","count":1},{"id":"GO:0002361","count":1},{"id":"GO:0010493","count":1}]},{"hash":"894864657753307146","title":"Unknown","description":"There are no GO terms or connections provided to tie these proteins to a common function (no edges, no triangles, empty Top Terms). Four proteins were re-added by ReCIPE, but without a shared signal there is no clear theme to name the cluster beyond Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2045448914938696386","title":"Ribosome biogenesis and rRNA processing","description":"Dominant terms are maturation of 5.8S rRNA and LSU rRNA from tricistronic rRNA transcripts, both key steps in ribosome biogenesis; the other terms are either secondary or less represented, suggesting the cluster centers on ribosomal RNA maturation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000466","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0007420","count":1},{"id":"GO:0070317","count":1},{"id":"GO:0043547","count":1}]},{"hash":"1475263534982423742","title":"Protein and polyamine acetylation","description":"This cluster is dominated by GO terms related to acetylation steps, including N-terminal methionine and serine acetylation, peptidyl-lysine N6-acetylation, and spermidine/putrescine acetylation, pointing to a common theme of acetyl group transfer/modification. Some terms also touch on chromatin regulation and basic metabolism, but the acetylation-focused signals are most representative of the cluster's function. ","confidence":"Medium","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009447","count":5},{"id":"GO:0017196","count":5},{"id":"GO:2000025","count":5},{"id":"GO:0060358","count":5},{"id":"GO:0032918","count":5}]},{"hash":"2195772586868024065","title":"Unknown","description":"The Top Terms span disparate processes: sialic acid biosynthesis, metal ion transport (zinc, copper), phosphatase/dephosphorylation activity, carbohydrate metabolism, lipid biosynthesis, plus hormone response and vascular regulation. There is no single coherent function uniting these terms, so a confident, specific cluster label cannot be assigned.","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0046380","count":2},{"id":"GO:0071577","count":2},{"id":"GO:0046839","count":2},{"id":"GO:0016311","count":2},{"id":"GO:0005975","count":2}]},{"hash":"704281382869227751","title":"RNA processing and transcriptional regulation under stress","description":"Dominant GO terms center on transcription regulation by RNA polymerase II, mRNA splicing via the spliceosome, mRNA stability in response to stress, and regulatory ncRNA\u2013mediated gene silencing, with additional notes on positive regulation of splicing. This pattern indicates a cluster of proteins involved in RNA processing and transcriptional control, particularly under stress conditions.","confidence":"High","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045944","count":2},{"id":"GO:0010610","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2}]},{"hash":"309152885793158111","title":"Cytoskeletal dynamics in mitosis and cytokinesis","description":"The top GO terms point to microtubule organization and dynamics (plus/minus end depolymerization, spindle orientation), actomyosin contractile ring assembly, and cell plate cytokinesis, with related developmental processes such as chloroplast movement and root development. This suggests a coherent module focused on cytoskeletal control during cell division and plant development, despite some peripheral terms.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0009904","count":3},{"id":"GO:0051296","count":3},{"id":"GO:0031534","count":3},{"id":"GO:0072092","count":3},{"id":"GO:0000915","count":3}]},{"hash":"786037164790852825","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0071035","count":1},{"id":"GO:0071031","count":1},{"id":"GO:0031124","count":1},{"id":"GO:0016973","count":1}]},{"hash":"83190930307640253","title":"Proteostasis: folding, maturation, and degradation","description":"The GO terms emphasize protein quality control and maturation, including ER protein folding, ubiquitin-proteasome\u2013mediated nuclear quality control, and regulation of protein export from the nucleus, pointing to a shared theme of maintaining cellular protein homeostasis through folding, maturation, degradation, and regulated trafficking. Some terms (e.g., DNA replication, hormone response) appear less directly related and may reflect broader regulatory links, but the core signal supports a proteostasis-focused cluster.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0071630","count":2},{"id":"GO:0090084","count":2},{"id":"GO:0071374","count":2}]},{"hash":"92541092361961913","title":"Plant nitrate and peptide transport with hormone signaling","description":"These proteins show a coherent theme of nutrient transport in plants, highlighted by nitrate transport/assimilation and response, plus peptide (dipeptide/oligopeptide) transmembrane transport. The presence of auxin-activated signaling and gibberellin homeostasis further indicates plant hormone regulation linked to nutrient uptake. A couple terms (siRNA processing, histone acetylation) are unrelated outliers, but the dominant pattern supports a plant nutrient transport and hormone signaling cluster.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010167","count":1},{"id":"GO:0042938","count":1},{"id":"GO:0009635","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0035672","count":1}]},{"hash":"1568798726314047765","title":"Organ Development and Signaling Regulation","description":"This cluster centers on developmental processes (heart and metanephric kidney development) and broad signaling regulation (GTPase activity, phosphorylation, sumoylation), with additional neuronal signaling-related terms (voltage-gated potassium channel clustering, synaptic vesicle endocytosis). While some terms are heterogeneous or species-specific, the dominant theme is regulation of development and cellular signaling, rather than a single precise function.","confidence":"Medium","size":5,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008284","count":3},{"id":"GO:0045163","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0010801","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1629133144530196108","title":"Unknown","description":"The Top Terms are very heterogeneous, ranging from DNA repair (HR) to various development and signaling processes (brain development, gastrulation, osteoblast differentiation, kinase activity regulation, peroxisome targeting). There isn\u2019t a single coherent functional theme linking these proteins; only the HR repair term appears with low support. Therefore, no clear representative label can be assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000724","count":2},{"id":"GO:0007420","count":1},{"id":"GO:0070317","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0001649","count":1}]},{"hash":"1812928839819463511","title":"COPII-mediated ER-Golgi vesicle trafficking","description":"The top GO terms are dominated by COPII-coated vesicle budding and ER-to-Golgi/retrograde transport, indicating a cluster enriched for secretory pathway vesicle trafficking. Developmental and mitotic terms appear related but secondary to the vesicle transport signature.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090114","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0007420","count":5},{"id":"GO:0035264","count":5},{"id":"GO:0008283","count":5}]},{"hash":"2273437262417375283","title":"Immune signaling and gene regulation","description":"This cluster centers on immune-related signaling and transcriptional control, with terms like microglial activation, cellular response to IL-4, SMAD/TGF-beta signaling, and defense against protozoa. The presence of alternative splicing and regulation of histone deacetylation suggests epigenetic and RNA-processing regulation that often accompanies immune responses, tying the cluster to inflammatory signaling and gene expression control.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031063","count":2},{"id":"GO:0000380","count":2},{"id":"GO:0034670","count":1},{"id":"GO:0043353","count":1},{"id":"GO:0071353","count":1}]},{"hash":"869360712827154268","title":"Unknown","description":"The GO terms span lipid metabolism, immune and apoptotic signaling, autophagy regulation, and miscellaneous metabolic processes, with no single unifying function evident and only minimal cluster connectivity. Therefore there isn\u2019t a coherent theme to name the cluster, leading to an Unknown label.","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042632","count":1},{"id":"GO:0071222","count":1},{"id":"GO:0060368","count":1},{"id":"GO:0001300","count":1},{"id":"GO:0070782","count":1}]},{"hash":"1693362063222687959","title":"Unknown","description":"The GO terms span neural development and excitability (cerebellum maturation, Purkinje cell signaling, calcium channel transport), sensory detection (pain, CO2), endocrine (aldosterone biosynthesis), smooth muscle control (micturition), and immune regulation, with no single unifying function across the cluster. This makes it unclear to assign a coherent, specific label.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021590","count":1},{"id":"GO:0060081","count":1},{"id":"GO:0086047","count":1},{"id":"GO:0061577","count":1},{"id":"GO:0003031","count":1}]},{"hash":"2007356516864353667","title":"Phosphorylation and GTPase signaling regulators","description":"The cluster is enriched for GO terms involving regulation of phosphorylation (negative regulation of protein kinase activity; negative regulation of peptidyl-threonine phosphorylation) and regulation of GTPase activity, with additional hints at nuclear import and vesicle regulation. This pattern suggests proteins that broadly modulate signaling pathways, rather than a single concrete process, making a label centered on phosphorylation and GTPase signaling regulators appropriate.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0006607","count":3},{"id":"GO:0010801","count":2},{"id":"GO:0072221","count":2}]},{"hash":"381530351370518058","title":"Embryonic morphogenesis and neural differentiation","description":"This cluster\u2019s top GO terms center on embryonic development across multiple tissues (limb morphogenesis, forebrain/cortex regionalization, skeletal system, pituitary development, etc.) and neural differentiation/fate specification, suggesting a broad theme of early organogenesis with neural specification. The label reflects both morphogenesis and neural differentiation represented in the terms.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035116","count":3},{"id":"GO:0021796","count":3},{"id":"GO:0003148","count":3},{"id":"GO:0021524","count":3},{"id":"GO:0021902","count":3}]},{"hash":"349390358152327267","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0071035","count":5},{"id":"GO:0071031","count":5},{"id":"GO:0031124","count":5},{"id":"GO:0016973","count":5},{"id":"GO:2000616","count":5}]},{"hash":"1202410969175103718","title":"RNA processing and splicing regulation","description":"This cluster centers on RNA metabolism: ncRNA-mediated gene silencing, SSU rRNA maturation, translation preinitiation, and spliceosome-driven mRNA splicing, including alternative splicing and mRNA modification. Together these terms indicate a focus on RNA processing and regulation of gene expression at post-transcriptional stages.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0000462","count":1},{"id":"GO:0001731","count":1},{"id":"GO:0006376","count":1},{"id":"GO:0075525","count":1}]},{"hash":"28524127728599282","title":"RNA processing and ribosome biogenesis","description":"This cluster centers on RNA handling: splicing, mRNA modification, and ribosome-related processes, including ribosome biogenesis and translation initiation. While a few terms are incidental (e.g., blastocyst formation), the majority point to RNA processing and protein synthesis machinery.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0001731","count":1},{"id":"GO:0006376","count":1},{"id":"GO:0075525","count":1},{"id":"GO:1900363","count":1}]},{"hash":"1329448839327437866","title":"Transmembrane transport of small metabolites and ions","description":"This cluster is dominated by GO terms for transmembrane transport of small molecules and ions (fructose, oxalate, sulfate, bicarbonate) and related pH regulation, suggesting a cohesive theme of membrane transport across membranes. A few terms (sound perception, sporulation, sperm capacitation, gastric acid secretion) appear but are likely incidental; the core signal is transport activity for metabolites and ions.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015755","count":1},{"id":"GO:0051454","count":1},{"id":"GO:0019532","count":1},{"id":"GO:1902358","count":1},{"id":"GO:0015701","count":1}]},{"hash":"762130733087284666","title":"Developmental Regulation and Cell Cycle","description":"The cluster shows enrichment across developmental terms (cell morphogenesis, skeletal system development, multicellular organism development) along with core DNA-related processes (DNA replication, DNA-templated transcription, mitotic cell cycle) and gene expression regulation, suggesting proteins that coordinate growth and development through transcriptional control and cell cycle progression, with some stress-related signaling also represented.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000902","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0007275","count":3}]},{"hash":"480798141483894459","title":"Developmental Signaling and Differentiation","description":"The GO terms are dominated by developmental and growth-regulating signals: positive regulation of canonical Wnt signaling, Hippo signaling, forebrain development, and keratinocyte differentiation, which point to roles in development and cell fate decisions. Other terms touch on differentiation, growth control, and responses to growth factors (VEGF) or apoptosis, suggesting a cluster spanning signaling pathways that govern development and proliferation rather than a single enzymatic function. Confidence reflects a coherent developmental theme, albeit with some broader terms present.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007100","count":3},{"id":"GO:0030216","count":3},{"id":"GO:0006813","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0090263","count":3}]},{"hash":"477006291603260095","title":"Nuclear RNA processing and transcription/replication regulation","description":"The GO terms cluster around nuclear gene-expression processes: mRNA splicing via the spliceosome and ribosomal subunit export occur in the nucleus, while regulation of DNA-templated replication initiation and RNA Pol II DNA-binding regulation point to transcriptional and replication control. While there are no observed edges among the proteins, these functions nonetheless converge on nuclear regulation of gene expression and DNA replication.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0032298","count":1},{"id":"GO:1903026","count":1}]},{"hash":"369853293979911668","title":"Protein quality control and folding","description":"The GO terms cluster around proteostasis: ER protein folding, nuclear ubiquitin-proteasome quality control, and regulation of protein export from the nucleus, pointing to protein folding, maturation, and degradation pathways; a few terms seem tangential (DNA replication, parathyroid hormone response), but the overall theme centers on protein quality control and trafficking.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":1},{"id":"GO:0071630","count":1},{"id":"GO:0090084","count":1},{"id":"GO:0071374","count":1},{"id":"GO:0034975","count":1}]},{"hash":"2294459545887927761","title":"Mitotic progression and transcription regulation","description":"The cluster\u2019s GO terms cluster around mitosis and cell cycle processes (cell cycle, mitotic cell cycle phase transition, cell division, regulation of mitotic cell cycle, histoblast morphogenesis) and transcriptional regulation (regulation of transcription by RNA polymerase II, positive regulation of DNA-templated transcription, activation of protein kinase activity). This suggests proteins coordinating mitotic progression with transcriptional control during development, making the label \"Mitotic progression and transcription regulation\" a concise and representative summary.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007488","count":1},{"id":"GO:0007049","count":1},{"id":"GO:0008283","count":1},{"id":"GO:0044772","count":1},{"id":"GO:0051301","count":1}]},{"hash":"1441641904318935268","title":"Ubiquitin-Proteasome Regulation and Inflammatory Signaling","description":"These proteins cluster around the ubiquitin-proteasome system, with terms for deubiquitination, proteasomal degradation (including ubiquitin-independent routes) and proteasome assembly, alongside inflammatory signaling pathways (TNF, NF-kappaB) and receptors like Fc-epsilon. This points to a cohesive theme of regulated protein turnover tied to inflammatory signaling, with some related cell-cycle and PCP notes likely reflecting broader regulatory cross-talk.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":3},{"id":"GO:0002862","count":2},{"id":"GO:0010499","count":2},{"id":"GO:0038095","count":2},{"id":"GO:0010972","count":2}]},{"hash":"2091947308922992058","title":"Neural development with DNA repair and transcription","description":"The top terms heavily emphasize neural development (neural tube closure, nervous system and forebrain development, dendrite morphogenesis) alongside DNA maintenance activities (DNA repair, replication, DNA-templated transcription, mitotic cell cycle), suggesting a cluster of proteins involved in neural development that also engage in DNA-level processes in proliferating neural progenitors.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006281","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0006260","count":3}]},{"hash":"1963975701793434563","title":"RNA Splicing and Translation Regulation","description":"This cluster is dominated by spliceosome-mediated mRNA processing and splicing regulation (cis/alternative splicing, splice site recognition) along with components involved in initiating translation, and stress-related mRNA stability regulation, indicating RNA-level regulation of gene expression.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":5},{"id":"GO:0048025","count":4},{"id":"GO:0001731","count":3},{"id":"GO:0006376","count":3},{"id":"GO:0075525","count":3}]},{"hash":"1468417581915180110","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036297","count":1},{"id":"GO:0000710","count":1},{"id":"GO:0008584","count":1},{"id":"GO:1904431","count":1},{"id":"GO:0006296","count":1}]},{"hash":"2200493054322718764","title":"Unknown","description":"There are no GO terms or network connections linking these proteins (no edges and no terms listed), so no clear shared function can be inferred. The cluster is best described as Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1692557873623086671","title":"Unknown","description":"This cluster shows no GO terms and no edges (Edges: 0, Triangles: 0), so there is no shared function to assign. With no functional signal among the proteins, a coherent label cannot be inferred.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"603231862567362923","title":"Lipid handling and inflammatory signaling regulation","description":"The GO terms cluster around lipid metabolism and handling (positive regulation of cholesterol efflux; LDL particle clearance) and fatty acid response (linoleic acid), with concurrent regulation of inflammatory/angiogenic signaling pathways (negative regulation of TNF- and VEGF receptor signaling) and a protein secretion function. Some differentiation terms appear as noise, but the dominant theme ties to lipid metabolism and modulation of inflammatory signaling.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030853","count":1},{"id":"GO:0010875","count":1},{"id":"GO:0021707","count":1},{"id":"GO:0009306","count":1},{"id":"GO:0030948","count":1}]},{"hash":"414861189798850696","title":"Neuronal development and synaptic trafficking","description":"GO terms point to neuronal development and synaptic function: brain development, regulation of synaptic vesicle endocytosis and exocytosis, and cellular responses to dopamine, plus neuronal migration. Additional terms like tubulin complex assembly and mitochondrial fission reflect cytoskeletal and organelle dynamics that support developing/dopaminergic neurons. Together these suggest a cluster centered on neural development with emphasis on synaptic vesicle trafficking and cytoskeletal remodeling.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":1},{"id":"GO:1905289","count":1},{"id":"GO:0003400","count":1},{"id":"GO:1900242","count":1},{"id":"GO:0000266","count":1}]},{"hash":"1635220835305156212","title":"Translation and tRNA modification factors","description":"The cluster shows strong representation of translation (GO:0006412) and regulation of translational fidelity, plus tRNA-related processes (tRNA queuosine biosynthetic process). While a few cohesion-related and obsolete RNA polymerase import terms appear, the dominant theme is protein synthesis and RNA processing, justifying the label.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":1},{"id":"GO:0006450","count":1},{"id":"GO:0034087","count":1},{"id":"GO:0007064","count":1},{"id":"GO:1990022","count":1}]},{"hash":"2007800360939348311","title":"Developmental signaling and differentiation","description":"This cluster is dominated by GO terms related to development across multiple tissues (brain, skin, bone/osteoblasts, seminiferous tubules) and multicellular organism development, with supporting signals such as phospholipase C-activating GPCR signaling and regulation of GTPase activity. The overall theme points to developmental processes and associated signaling rather than a single specific function, hence the label Developmental signaling and differentiation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007200","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0072520","count":2},{"id":"GO:0043588","count":2}]},{"hash":"1534178505266759512","title":"Unknown","description":"The terms are eclectic, ranging from intracellular trafficking (ER to Golgi transport) and carbohydrate catabolic processes to plant development (flower/leaf morphogenesis), nitric oxide regulation, amyloid-beta formation, and Wnt secretion, with no single dominant function linking the proteins. There are no edges or coherent clustering signals to define a specific shared role, so no meaningful label can be assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0046477","count":1},{"id":"GO:0009911","count":1},{"id":"GO:0045019","count":1},{"id":"GO:0009965","count":1}]},{"hash":"1531401573593553773","title":"Immune signaling and inflammatory response","description":"The top terms center on responses to immune/inflammatory cues (IL-4 production, B cell tolerance, hypersensitivity) and inflammatory mediators (prostaglandin E, VEGF) with associated signal transduction, suggesting a cohesive theme of immune signaling and inflammation. A few terms (cold acclimation, centrosome separation) are less connected, but do not override the dominant immune-related signals.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046827","count":4},{"id":"GO:0001402","count":3},{"id":"GO:0035924","count":3},{"id":"GO:0071380","count":3},{"id":"GO:0001806","count":3}]},{"hash":"1827795140447671586","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000472","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0007420","count":1}]},{"hash":"681461631812090870","title":"Intracellular signaling and trafficking regulators","description":"The GO terms point to regulatory roles in signaling (positive regulation of GTPase activity, serine dephosphorylation, TORC1 signaling) alongside intracellular transport and localization activities (mRNA transport, peroxisome targeting), with some developmental associations; this suggests the proteins act as broad regulators coordinating signaling and intracellular trafficking rather than a single, tight function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0070262","count":2},{"id":"GO:0038202","count":2},{"id":"GO:0051028","count":2},{"id":"GO:0007420","count":1}]},{"hash":"1615817895667968381","title":"GTPase signaling and actin cytoskeleton regulation","description":"Based on the GO terms, several entries point to modulation of intracellular signaling (positive regulation of GTPase activity; negative regulation of PKC signaling; regulation of calcineurin-NFAT signaling) and cytoskeletal organization (actin cytoskeleton organization). This suggests a cluster whose function centers on controlling signaling pathways that influence the actin cytoskeleton, rather than a single enzyme or process. Other terms (ER unfolded protein response regulation, BMP secretion, etc.) are regulatory nuances that reflect broader cellular signaling contexts but do not override the core theme.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090334","count":1},{"id":"GO:0043547","count":1},{"id":"GO:1900103","count":1},{"id":"GO:0090038","count":1},{"id":"GO:0051531","count":1}]},{"hash":"978144651987164964","title":"Vascular development and smooth muscle signaling","description":"The top terms cluster around vascular morphogenesis and signaling: dorsal aorta development, pericardium morphogenesis, VEGF response, nitric oxide biosynthesis regulation, smooth muscle cell migration, and cell-matrix adhesion; Notch target transcription and receptor clustering further suggest endothelial\u2013smooth muscle communication. Together, these indicate a group of proteins involved in vascular development and remodeling.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014909","count":2},{"id":"GO:0007161","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0045429","count":2},{"id":"GO:0003344","count":2}]},{"hash":"2220861946892087490","title":"Axon guidance and neural development","description":"The top GO terms cluster around neural development and axon pathfinding, including semaphorin-plexin signaling, commissural and branchiomotor neuron axon guidance, and otic placode and sympathetic ganglion development. Some outliers (fertilization, cuticle collagen) exist, but the dominant theme supports neuronal wiring during development.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007338","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0007171","count":1},{"id":"GO:0071679","count":1},{"id":"GO:0061549","count":1}]},{"hash":"825080138339621567","title":"Unknown","description":"No GO terms were listed for this cluster, so there is no shared functional signal to define a specific label. With only structural network info (5 proteins, 8 edges, 5 triangles, max degree 4) and no top GO terms, there is no clear common theme to label.","confidence":"","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[]},{"hash":"2260856763326560074","title":"Steroid, retinoid, and xenobiotic metabolism","description":"These proteins point to enzymes that modify a wide range of small hydrophobic molecules, including steroid hormones (progesterone, testosterone) and retinoids, as well as catabolic/oxidative transformations of plant-derived and lipid compounds (coumarin, camphor, alkaloids, kaurene/kaurenoic acid, fatty acid omega-oxidation). The common theme is metabolic biotransformation rather than a single specific pathway. The macrophage chemotaxis term appears as an outlier. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042448","count":1},{"id":"GO:0061370","count":1},{"id":"GO:0042904","count":1},{"id":"GO:0046226","count":1},{"id":"GO:0010241","count":1}]},{"hash":"1597754862918338316","title":"Ribosome Biogenesis and Translation","description":"The top terms point strongly to ribosome assembly and translation-related processes (ribosome biogenesis, ribosomal subunit biogenesis, and tRNA modification). Cell cycle and cell division terms further support a growth-related theme, while stress/metal transport terms appear less central. Overall, this cluster centers on building the translation machinery and supporting protein synthesis.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":1},{"id":"GO:1901001","count":1},{"id":"GO:1903833","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0046677","count":1}]},{"hash":"81844838263712604","title":"Negative regulation of autophagy and protein turnover","description":"This cluster centers on negative regulation of degradation and turnover pathways, with terms like negative regulation of autophagosome maturation, aggrephagy, and negative regulation of proteasomal protein catabolic process. Supporting signals include protein sumoylation and transcriptional regulation, suggesting the proteins act as broad negative regulators of protein homeostasis and related trafficking processes.","confidence":"Medium","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":4},{"id":"GO:0034140","count":3},{"id":"GO:1900186","count":3},{"id":"GO:1901799","count":3},{"id":"GO:0035973","count":3}]},{"hash":"1806200753404819210","title":"Unknown","description":"The terms cover melanin biosynthesis, plasmid maintenance/recombination, transcription antitermination, and various metabolic and developmental processes (propionate and bile acid metabolism, fatty-acyl-CoA metabolism, seed coat development), spanning bacteria and plants. There is no unifying cellular process evident among these terms, so no coherent cluster function can be inferred. Label: Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042438","count":2},{"id":"GO:0006276","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0031564","count":1},{"id":"GO:0042150","count":1}]},{"hash":"260662138190612497","title":"Developmental morphogenesis and tissue remodeling","description":"This cluster centers on processes involved in tissue and organ development and remodeling, including lung morphogenesis (epithelial tube branching), bone formation and resorption, basement membrane remodeling, and Wnt signaling\u2019s role in development. Though a few terms relate to immune or peptide metabolism, the dominant theme is morphogenesis and extracellular matrix remodeling across tissues.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035593","count":3},{"id":"GO:0051603","count":3},{"id":"GO:0046697","count":3},{"id":"GO:0001957","count":3},{"id":"GO:0060441","count":3}]},{"hash":"2205211697065467498","title":"Mitochondrial nucleotide and metabolite transport","description":"The top GO terms are dominated by transport across mitochondrial membranes for several metabolites and cofactors (ADP, phosphate, ornithine, pyridoxal phosphate, and nucleotides), plus a mitochondrial membrane dynamics term. This points to a cohesive theme of mitochondrial metabolite trafficking and related mitochondrial processes, with a note of associated cellular stress responses (e.g., to superoxide and amino acid starvation). Despite one obsolete term, the main signal is clear: a mitochondria-centered transport/metabolism cluster. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097274","count":4},{"id":"GO:0035435","count":3},{"id":"GO:1990519","count":3},{"id":"GO:0031921","count":3},{"id":"GO:0000303","count":3}]},{"hash":"1686519158283892077","title":"Redox homeostasis and xenobiotic metabolism","description":"These proteins cluster around redox regulation (oxidation-reduction processes, cell redox homeostasis) and detoxification/metabolism of xenobiotics (glutathione metabolism, naphthalene and glucuronoside catabolic processes). Additional terms like response to UV and antibiotic stress reflect related stress responses, but the core theme appears to be balancing redox state while processing xenobiotics, justifying a label focused on redox and detoxification metabolism.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0071236","count":1},{"id":"GO:0045454","count":1},{"id":"GO:0030855","count":1},{"id":"GO:0030420","count":1}]},{"hash":"818164691497775337","title":"Diverse lipid and secondary metabolite biosynthesis","description":"The top GO terms show biosynthetic processes for lipids, steroids/hormones, alkaloids, and antibiotics, indicating a cluster centered on producing a variety of small molecules rather than a single pathway. This supports a label around diverse lipid- and secondary-metabolite biosynthesis rather than a specific enzymatic route.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0061370","count":3},{"id":"GO:0042761","count":3},{"id":"GO:0006666","count":3},{"id":"GO:0009710","count":3},{"id":"GO:0042574","count":3}]},{"hash":"93420603440868470","title":"Plant fatty acid metabolism and seed coat development","description":"The top GO terms cluster around fatty acid metabolism across multiple chain lengths (long-, medium-, very long-chain), fatty-acid transport, and acyl-CoA metabolism, indicating lipid processing. The presence of plant-specific processes like seed coat development and phenylpropanoid metabolism suggests this cluster reflects Plant lipid metabolism connected to seed coat formation and secondary metabolism, rather than a single universal pathway. Confidence: Medium","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0008206","count":1},{"id":"GO:0044539","count":1},{"id":"GO:0036112","count":1},{"id":"GO:0010214","count":1}]},{"hash":"1602977671794792940","title":"RNA modification and ribosome biogenesis","description":"This cluster is characterized by GO terms tied to RNA modification\u2014rRNA methylation (guanine-N7), rRNA methylation\u2014and tRNA wobble uridine modification\u2014as well as ribosomal small subunit export from the nucleus, pointing to RNA processing and ribosome assembly. Adjacent terms about protein methylation/hydroxylation are secondary, and a few immune-related terms may reflect annotation breadth in a small cluster.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":2},{"id":"GO:0070555","count":1},{"id":"GO:0070476","count":1},{"id":"GO:0031167","count":1},{"id":"GO:0030961","count":1}]},{"hash":"1797106154009868084","title":"Vesicle Trafficking & Virus-Host Interaction","description":"This cluster is dominated by GO terms for endosome transport and vesicle fusion regulation (recycling endosome to Golgi, plasma membrane to endosome transport, Rab signaling), pointing to vesicular trafficking roles. It also includes host-virus interaction terms (host-mediated activation of viral genome replication, virus-regulated viral protein levels), suggesting a connection between trafficking pathways and viral processes. The overall theme is vesicle trafficking machinery that may be engaged or co-opted during viral infection.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044829","count":2},{"id":"GO:0070309","count":1},{"id":"GO:1902018","count":1},{"id":"GO:0071955","count":1},{"id":"GO:0031338","count":1}]},{"hash":"1037986063194686800","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0051092","count":2},{"id":"GO:0048535","count":2},{"id":"GO:0007014","count":2},{"id":"GO:2000620","count":2}]},{"hash":"1967242871533050887","title":"Immune and inflammatory signaling","description":"Terms cluster around immune responses (interleukin-4 production, B cell tolerance, type IV hypersensitivity) and inflammatory signaling (VEGF and prostaglandin stimuli), with a few less connected terms. This suggests the cluster represents immune/inflammatory signaling activity.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":3},{"id":"GO:0001402","count":2},{"id":"GO:0035924","count":2},{"id":"GO:0071380","count":2},{"id":"GO:0001806","count":2}]},{"hash":"2164924524519225155","title":"Unknown","description":"The set of terms is very heterogeneous, mixing cementum mineralization with multiple signaling pathways (JNK, NF-kappaB, Rho) and lipid biosynthesis processes (very long-chain fatty acids, elongation, sphingolipids), plus virus-related regulation terms. There isn't a single cohesive functional theme tying these terms together, so a specific, representative label cannot be confidently assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071529","count":1},{"id":"GO:0007254","count":1},{"id":"GO:0042761","count":1},{"id":"GO:0030497","count":1},{"id":"GO:0030148","count":1}]},{"hash":"1908710001759294425","title":"Cell signaling and stress responses","description":"The listed GO terms point to diverse signaling and regulatory processes: TGF-beta/SMAD pathway components, neuronal action potential and cardiac conduction, oxidative and metabolic stress responses, and even protein folding/chaperone-related assembly. This suggests a cluster of proteins involved in general signal transduction and stress response rather than a single precise function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042542","count":1},{"id":"GO:0032515","count":1},{"id":"GO:0009749","count":1},{"id":"GO:0061077","count":1},{"id":"GO:0007179","count":1}]},{"hash":"2240235024401692543","title":"Ubiquitin-Dependent Proteostasis","description":"The cluster's top GO terms are dominated by ubiquitin-related processes (ubiquitin-dependent ERAD, ubiquitin-dependent protein catabolic process) and protein handling (protein unfolding, peroxisome matrix import), indicating a shared theme of maintaining protein quality and turnover. While a few terms touch cell cycle or metabolism, the dominant pattern supports a proteostasis-focused label.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016558","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0000921","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0032968","count":1}]},{"hash":"1500943843722730121","title":"Mitotic Entry and Cytokinesis Regulation","description":"The cluster\u2019s strongest signals are G1/S transition of the mitotic cell cycle, positive regulation of actomyosin contractile ring assembly, and regulation of protein localization to the division site involved in cytokinesis, along with meiotic recombination checkpoint signaling. These collectively point to cell-cycle entry and division processes, suggesting a shared role in mitosis/cytokinesis. A few terms (lead ion response, sphingomyelin catabolic process) appear less related and may reflect broader or incidental annotations, but they do not dominate the set.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0010288","count":4},{"id":"GO:1903501","count":4},{"id":"GO:0072462","count":4},{"id":"GO:0000082","count":4},{"id":"GO:0001946","count":4}]},{"hash":"1569368347025104894","title":"Secretory vesicle trafficking and membrane remodeling","description":"This cluster\u2019s GO terms cluster around vesicle formation and trafficking within the secretory pathway, including exosomal secretion, multivesicular body assembly, membrane fission, and Golgi retention. While a few terms touch on mitosis, the dominant pattern is vesicle trafficking and membrane remodeling, suggesting a cohesive vesicle/secretory pathway role.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903541","count":1},{"id":"GO:0030447","count":1},{"id":"GO:1902902","count":1},{"id":"GO:0030713","count":1},{"id":"GO:0031468","count":1}]},{"hash":"728273293561785787","title":"Neuronal development and survival signaling","description":"The cluster's terms cluster around regulation of signaling pathways (positive regulation of GTPase activity, regulation of JNK cascade, and positive regulation of canonical Wnt signaling) and neuronal morphology or fate (dendrite extension, neuron apoptotic process, and stem cell maintenance), suggesting a cohesive role in neuronal growth, development, and survival through signaling regulation.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0010794","count":1}]},{"hash":"1011158717353046490","title":"Translation Regulation and mRNA Decay","description":"The top GO terms cluster around translation control (regulation/termination, cytoplasmic translation, ribosome dynamics) and mRNA turnover (deadenylation-dependent decay). This points to a module involved in post-transcriptional gene expression regulation, including translation initiation/termination and mRNA stability. A few terms like viral replication or glial proliferation appear but are not central to the cluster; they may reflect broader RNA-related processes.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006449","count":1},{"id":"GO:0000288","count":1},{"id":"GO:0002184","count":1},{"id":"GO:2000767","count":1},{"id":"GO:0046677","count":1}]},{"hash":"1425304226180421346","title":"Unknown","description":"The top GO terms are a mix of vesicle trafficking/lysosome-related processes (phagosome-lysosome fusion, synaptic vesicle budding, vacuole fusion) and diverse regulatory/developmental processes (negative regulation of gene expression, regulation of neuroblast/osteoblast proliferation, beta selection). There\u2019s no clear, single function tying all four proteins together, so a specific label isn\u2019t confidently supported.","confidence":"","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010629","count":3},{"id":"GO:2000222","count":3},{"id":"GO:0043316","count":3},{"id":"GO:0090385","count":3},{"id":"GO:0070142","count":3}]},{"hash":"1871954819041673557","title":"Mitochondrial ETC and Apoptosis","description":"The cluster is dominated by GO terms related to mitochondrial electron transport (cytochrome c to oxygen and ubiquinol to cytochrome c), cytochrome c-heme linkage, and apoptotic processes, with accompanying oxidative stress signals (hydrogen peroxide metabolism and regulation). While a few terms like photosynthesis or carbon monoxide response appear, the strongest signals point to mitochondrial respiration and redox-regulated apoptosis, suggesting a mitochondria-centered functional theme.","confidence":"Medium","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006470","count":2},{"id":"GO:0006123","count":2},{"id":"GO:0015979","count":2},{"id":"GO:0018063","count":2},{"id":"GO:0006915","count":2}]},{"hash":"79652773645254606","title":"Vesicle trafficking and endosomal secretion","description":"Top terms cluster around endosome localization, exosomal secretion, phagosome-lysosome fusion, and vesicle budding, all core aspects of vesicle trafficking and secretion. While a few terms touch on immunity or neural development, the shared theme is intracellular vesicle transport and secretion, suggesting these proteins participate in endosomal/secretory pathways.","confidence":"Medium","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0036010","count":2},{"id":"GO:0070830","count":2},{"id":"GO:1990182","count":2},{"id":"GO:0010629","count":1},{"id":"GO:2000222","count":1}]},{"hash":"1552154666338629707","title":"Developmental transcriptional regulation","description":"This cluster combines GO terms for DNA-templated transcription, transcription initiation regulation, and developmental processes across multiple organs (neural glial differentiation, gonad development, gland/trachea development), suggesting a group of proteins that regulate gene expression during development rather than a single pathway.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:2000020","count":2},{"id":"GO:0021861","count":2},{"id":"GO:0021943","count":2},{"id":"GO:0070384","count":2}]},{"hash":"16677081528045485","title":"Broad-spectrum transmembrane transporters for ions and metabolites","description":"The GO terms show multiple transmembrane transport activities across diverse substrates (potassium, phosphate, glucose, ascorbate/dehydroascorbic acid, xenobiotics, etc.), pointing to a group of membrane transporter proteins with broad substrate specificity rather than a single-substrate enzyme. The mix of ion and metabolite transport terms, along with a small, sparsely connected cluster, supports labeling this as a transporter-focused group.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0035435","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0006817","count":2},{"id":"GO:0019852","count":2}]},{"hash":"397060102320077230","title":"Diverse substrate membrane transporters","description":"The top GO terms cluster around transmembrane transport of a wide range of substrates (phosphate ions, xenobiotics, various sugars, nitrate/nitrite, sialic acid, vitamins, and related metabolites). This suggests the proteins function as membrane transporters rather than enzymes or signaling proteins, even though the cluster is small with no edges. The common theme is transport across membranes for diverse substrates.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":2},{"id":"GO:0006855","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0015706","count":2},{"id":"GO:0015751","count":2}]},{"hash":"751276815564851712","title":"Cholinergic signaling and neuronal stress response","description":"This cluster is anchored by cholinergic synaptic transmission and supported by signals of neuronal excitability (potassium transport), phosphorylation, and responses to hormones, nutrients, ethanol, and oxidative/metabolic stress. The pattern points to neuronal signaling at cholinergic synapses with modulation by metabolic and hormonal cues, rather than a single, tightly defined pathway.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":2},{"id":"GO:1901381","count":1},{"id":"GO:0007568","count":1},{"id":"GO:0007584","count":1},{"id":"GO:0045471","count":1}]},{"hash":"1661075958876205440","title":"Immune signaling and inflammatory response","description":"This cluster centers on immune and inflammatory processes, with terms like interleukin-4 production, positive regulation of B cell tolerance induction, and type IV hypersensitivity, plus inflammatory signaling such as responses to prostaglandin E and VEGF and chemotaxis. While a couple terms touch on broader aspects like cell cycle or cold acclimation, the dominant theme is cytokine-mediated immune activation and inflammatory signaling.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001402","count":1},{"id":"GO:0035924","count":1},{"id":"GO:0071380","count":1},{"id":"GO:0001806","count":1},{"id":"GO:1905050","count":1}]},{"hash":"142687830068456486","title":"Spliceosome and mRNA Processing","description":"The top GO terms cluster around spliceosome assembly and function (tri-snRNP assembly, splice site recognition, and cis-splicing via the spliceosome) as well as broader mRNA processing and modification. While a translation initiation term appears, the dominant signal is mRNA splicing machinery, indicating these proteins are primarily involved in RNA splicing and processing. This makes the label Spliceosome and mRNA Processing a precise and representative name for the cluster.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":1},{"id":"GO:0000244","count":1},{"id":"GO:0006376","count":1},{"id":"GO:0075525","count":1},{"id":"GO:1900363","count":1}]},{"hash":"594195211311641450","title":"Developmental transcription regulation","description":"These four proteins show GO terms centered on both positive and negative regulation of transcription by RNA polymerase II, alongside multiple development-related terms (neural crest formation, heart and midbrain development, visual perception). The common theme is transcriptional control governing developmental processes, suggesting a cluster of proteins involved in regulating development through transcription. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045944","count":2},{"id":"GO:0014029","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0000122","count":2}]},{"hash":"895287907363051603","title":"Immune signaling and inflammatory responses","description":"The cluster\u2019s top GO terms cluster around immune activation and inflammation, including IL-4 production, B cell tolerance induction, type IV hypersensitivity, and responses to inflammatory stimuli (VEGF and prostaglandin E), plus chemotaxis. While a few terms relate to cell cycle or remodeling (mitotic centrosome separation, metallopeptidase activity, cold acclimation), the predominant theme is immune signaling and inflammatory processes.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001402","count":4},{"id":"GO:0035924","count":4},{"id":"GO:0071380","count":4},{"id":"GO:0001806","count":4},{"id":"GO:1905050","count":4}]},{"hash":"1941631237153590398","title":"Membrane Lipid Localization and Cholesterol Regulation","description":"The strongest signals are lipid localization, protein localization to membrane raft, SREBP signaling, and negative regulation of cholesterol biosynthesis, pointing to membrane lipid organization and cholesterol metabolism. Obsolete terms and unrelated processes (e.g., podocyte development, inflammatory term) are present but don\u2019t define the core theme. Therefore, this cluster appears to reflect membrane lipid localization and cholesterol regulation. ","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070584","count":3},{"id":"GO:0072249","count":3},{"id":"GO:1901585","count":3},{"id":"GO:1903044","count":3},{"id":"GO:0052547","count":3}]},{"hash":"274636470486137965","title":"Glycoprotein modification and processing","description":"These four proteins show GO terms centered on glycoprotein processing and modification, including N-linked glycosylation via asparagine and post-translational/co-translational modification, suggesting a shared role in glycoprotein maturation. The inclusion of glycoprotein catabolic process and S-layer organization hints at cell-surface glycoproteins, though the core theme remains glycosylation-related processing. Overall, a cohesive interpretation is glycoprotein modification pathways.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006516","count":1},{"id":"GO:0043687","count":1},{"id":"GO:0018279","count":1},{"id":"GO:0045232","count":1},{"id":"GO:0043686","count":1}]},{"hash":"2266545365349414026","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0085020","count":3},{"id":"GO:0030433","count":3}]},{"hash":"1065650140097203915","title":"GPCR signaling and leukocyte chemotaxis","description":"The top terms center on leukocyte chemotaxis (neutrophils, monocytes) and GPCR-related processes (internalization, signaling via cAMP/kinase and small GTPases). While a couple terms touch on smooth muscle contraction, the strongest shared theme is GPCR-driven chemotactic signaling in immune cells.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090023","count":1},{"id":"GO:2000479","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0071417","count":1},{"id":"GO:0035645","count":1}]},{"hash":"626313798908577562","title":"RNA Splicing and Translation Regulation","description":"The top GO terms center on mRNA processing and splicing (spliceosome-mediated splicing, splice site recognition, and regulation of alternative splicing) plus components of translation (formation of translation preinitiation complex and viral translation termination-reinitiation) and mRNA maturation processes (polyadenylation, modification, and stabilization). This pattern suggests a cohesive module focused on post-transcriptional RNA processing and the regulation of translation, hence the chosen label.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":2},{"id":"GO:0006376","count":2},{"id":"GO:0075525","count":2},{"id":"GO:1900363","count":2},{"id":"GO:0045292","count":2}]},{"hash":"1680284566481223504","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0010610","count":2},{"id":"GO:1990417","count":1}]},{"hash":"1069363839891503383","title":"Neuronal Ion Transport and Signaling","description":"Dominant GO terms center on sodium/potassium transport across the plasma membrane and intracellular potassium homeostasis, pointing to a core function in maintaining neural ionic gradients. The co-occurrence of neural development and signaling terms (BDNF receptor signaling and pain perception) suggests this cluster captures proteins involved in neuronal signaling and development in an ion-transport context.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030007","count":3},{"id":"GO:0098719","count":3},{"id":"GO:0097623","count":3},{"id":"GO:0007275","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1344746620945332385","title":"Unknown","description":"The GO terms are spread across immune signaling (B cell receptor signaling, type 2 immune response, memory T cell differentiation) and unrelated processes (t-circle formation, distal tubule morphogenesis, circadian rhythm, ubiquitination regulation, even a dubious term about male analia development). With 4 proteins and mostly single-term annotations, there is no clear, cohesive function tying the cluster together, so an Unknown label is appropriate.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904431","count":1},{"id":"GO:0072156","count":1},{"id":"GO:0048294","count":1},{"id":"GO:2000312","count":1},{"id":"GO:0042092","count":1}]},{"hash":"1045461243222832735","title":"Synaptic receptor trafficking and plasticity","description":"Reasoning: The top GO terms cluster around neurotransmitter receptor trafficking to the postsynaptic membrane, synaptic vesicle exocytosis, and synaptic potentiation, indicating a core theme of receptor insertion/recycling and synaptic strength changes. Immune-related terms and autophagosome docking are present but seem less central, so the label emphasizes synaptic receptor trafficking and plasticity.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":2},{"id":"GO:0050853","count":2},{"id":"GO:1902259","count":1},{"id":"GO:0098967","count":1},{"id":"GO:0016240","count":1}]},{"hash":"236660642741223901","title":"Embryonic morphogenesis and neural crest development","description":"The GO terms are dominated by processes involved in embryonic development and morphogenesis: pharyngeal arch artery morphogenesis, neural crest\u2013cell migration in heart formation, dorsal/ventral pattern formation, anterior neural tube closure, skeletal system morphogenesis, and lung morphogenesis. These point to a coherent cluster of proteins participating in early developmental patterning and organ formation, with a few terms (axon regeneration, folic acid response, FGF signaling regulation) likely related signaling events or downstream effects in development. Overall, a neural crest/embryonic morphogenesis theme best fits the set.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061626","count":1},{"id":"GO:0003147","count":1},{"id":"GO:1904657","count":1},{"id":"GO:0009953","count":1},{"id":"GO:0031103","count":1}]},{"hash":"1206783159554230072","title":"Vesicle trafficking and membrane transport","description":"Most terms cluster around intracellular transport and membrane trafficking: protein transport, Rab signaling, synaptic vesicle budding, phagosome-lysosome fusion, and general vesicle trafficking processes. Energy-related terms (proton motive force-driven ATP synthesis) and regulatory terms (negative regulation of gene expression, axonogenesis) can be related to the energetic and regulatory context in which trafficking operates and vesicle dynamics influence development and cellular responses.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050771","count":2},{"id":"GO:0015031","count":2},{"id":"GO:0032482","count":2},{"id":"GO:0099132","count":1},{"id":"GO:0015986","count":1}]},{"hash":"524513876223862091","title":"GPCR signaling and leukocyte chemotaxis","description":"The terms point to GPCR-related signaling (GPCR internalization, regulation of cAMP/PKA activity, GTPase activity) and leukocyte trafficking (positive regulation of neutrophil and monocyte chemotaxis). Prostaglandin signaling and smooth muscle context further support a GPCR-mediated inflammatory signaling theme, tying immune cell chemotaxis to vascular/smooth muscle responses.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090023","count":1},{"id":"GO:2000479","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0071417","count":1},{"id":"GO:0035645","count":1}]},{"hash":"112545500611765669","title":"GPCR-Prostaglandin Signaling in Immune and Vascular Cells","description":"The terms cluster around prostaglandin stimulus responses, GPCR signaling and internalization, and regulation of leukocyte chemotaxis alongside smooth muscle contraction, suggesting a shared GPCR-mediated signaling axis linking immune cell recruitment and vascular smooth muscle function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090023","count":4},{"id":"GO:2000479","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0071417","count":4},{"id":"GO:0035645","count":4}]},{"hash":"660667081317714396","title":"RNA processing and ribosome maturation","description":"Based on the top GO terms, the cluster centers on RNA processing activities: mRNA splicing via the spliceosome, spliceosomal snRNP assembly, and maturation of 5S rRNA, pointing to RNA processing/ribosome biogenesis. The other terms are unrelated outliers (plant development and immune regulation), likely representing noisy or multifunctional annotations. Overall, this label reflects the dominant signal in the cluster.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":1},{"id":"GO:0000387","count":1},{"id":"GO:0000481","count":1},{"id":"GO:0010588","count":1},{"id":"GO:0045585","count":1}]},{"hash":"301848898900588663","title":"Developmental transcriptional regulation","description":"The top terms center on regulation of transcription, notably transcription elongation by RNA polymerase II and regulation of DNA-templated transcription, suggesting core involvement in gene expression control. Supporting terms point to developmental contexts (sensory organ precursor fate determination, imaginal disc-related development) and modest links to cell cycle and chromatin modification, which fit a developmental transcriptional regulation theme. Given the small cluster size and some scattered, less-connected terms, this label is plausible but not definitively proven.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032968","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0016360","count":1},{"id":"GO:0051726","count":1},{"id":"GO:0043982","count":1}]},{"hash":"398301519967645070","title":"Translation fidelity and tRNA charging","description":"The top GO terms point to translational processes: maintenance and positive regulation of translational fidelity, tyrosyl-tRNA aminoacylation, and regulation of translational initiation, suggesting a core theme of translation quality control and tRNA charging. Some terms about development or organelle functions appear incidental, but the central motif remains translational control.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042219","count":1},{"id":"GO:1990145","count":1},{"id":"GO:0031564","count":1},{"id":"GO:0045903","count":1},{"id":"GO:0014032","count":1}]},{"hash":"747723676969087352","title":"Calcium-Dependent Signaling and Axonogenesis","description":"The enrichment centers on axonogenesis and regulation of the calcineurin-NFAT signaling cascade with protein dephosphorylation, both hallmark features of calcium-dependent signaling that can influence neuronal growth. Although there are also translation/ribosome-related terms and immune-associated responses, the strongest and most specific themes link calcium-dependent signaling to axonal development, justifying a label around calcium signaling and neuronal growth rather than a single narrow function.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007409","count":2},{"id":"GO:0006470","count":2},{"id":"GO:0051531","count":2},{"id":"GO:0071226","count":2},{"id":"GO:0045948","count":1}]},{"hash":"1171432342975987580","title":"Unknown","description":"The top GO terms are a broad mix spanning proteolysis, amino acid catabolism, post-translational modification, regulation of GTPase activity, telomere maintenance, and ribosomal export, with obsolete terms included. This lack of a coherent shared function or pathway among the proteins suggests no clear common theme, so a meaningful label cannot be assigned beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033345","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0006517","count":1},{"id":"GO:0006559","count":1},{"id":"GO:0031274","count":1}]},{"hash":"1736916328408843959","title":"Unknown","description":"The GO terms are a mix of glycosylation, neural regeneration, Notch-related transcription, and multiple tissue development processes, with no single cohesive function spanning all terms; therefore no clear, representative label can be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009312","count":1},{"id":"GO:0018279","count":1},{"id":"GO:0031104","count":1},{"id":"GO:0007221","count":1},{"id":"GO:0097241","count":1}]},{"hash":"2045615607594741407","title":"Unknown","description":"The terms span diverse processes (immune signaling, RNA processing, metal/selenium responses, chlorophyll biosynthesis, nodulation) with no common function or pathway, and the network shows no connections, so a coherent functional label cannot be inferred.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070555","count":1},{"id":"GO:0019919","count":1},{"id":"GO:0002347","count":1},{"id":"GO:0001887","count":1},{"id":"GO:0006370","count":1}]},{"hash":"1962438489615343362","title":"NMDA receptor regulation and synaptic plasticity","description":"The terms highlight neuronal signaling and plasticity: regulation of NMDA receptor activity, chemical synaptic transmission, and regulation of synaptic plasticity by receptor localization to the synapse, along with ephrin and TGF-beta receptor signaling and receptor trafficking to endosomes. This points to a cohesive theme of synaptic signaling, receptor movement at the synapse, and plasticity in neural networks.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901187","count":1},{"id":"GO:0030511","count":1},{"id":"GO:0006461","count":1},{"id":"GO:0035264","count":1},{"id":"GO:0048712","count":1}]},{"hash":"448858859207139196","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0071157","count":2},{"id":"GO:0043066","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0000122","count":2}]},{"hash":"121474393784552600","title":"Immune RTK-PI3K signaling cluster","description":"The top GO terms point to cell surface receptor tyrosine kinase signaling, PI3K-AKT signaling, and immune responses (neutrophil clearance, Th2 cytokine production, type IV hypersensitivity), suggesting a core theme of immune signaling and inflammation. Some terms also touch on development and tissue remodeling (dendrite self-avoidance, collagen organization, myoblast differentiation), indicating these proteins may participate in broader signaling networks that influence immunity and tissue structure. Overall, the cluster seems best described as immune signaling with receptor and growth-factor\u2013driven components.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007169","count":3},{"id":"GO:0097350","count":3},{"id":"GO:0050925","count":3},{"id":"GO:0045663","count":3},{"id":"GO:1902955","count":3}]},{"hash":"1886496577753663238","title":"Amino acid and sulfur metabolism","description":"The top GO terms largely point to biosynthesis and catabolism of amino acids (tryptophan, isoleucine, threonine, cysteine) and sulfur-containing compounds (hydrogen sulfide, cyanide), plus related cofactor synthesis and amine metabolism. Although some terms are obsolete, the common thread is metabolic pathways for amino acids and sulfur compounds.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018871","count":1},{"id":"GO:0019499","count":1},{"id":"GO:0070814","count":1},{"id":"GO:0009097","count":1},{"id":"GO:0043278","count":1}]},{"hash":"1545398568902802853","title":"DNA Replication and Repair","description":"This cluster's top GO terms cluster around DNA replication and DNA strand elongation, plus a link to DNA repair (single strand break repair). A few items\u2014RNA maturation and cytokinesis\u2014are peripheral noise, but the core theme is genome maintenance.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":1},{"id":"GO:2000620","count":1},{"id":"GO:0045666","count":1},{"id":"GO:0006271","count":1},{"id":"GO:1990966","count":1}]},{"hash":"506682771592747134","title":"Vascular remodeling and immune cell migration","description":"The terms point to immune cell movement, angiogenesis, and tissue remodeling (embryo implantation, mammary development) with some coagulation-related processes, but there isn\u2019t a single dominant function linking all terms. This suggests a broad vascular-immune remodeling theme rather than a specific pathway, hence the label is broad and the connection modest.","confidence":"Low","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070946","count":1},{"id":"GO:1901299","count":1},{"id":"GO:0071674","count":1},{"id":"GO:0014910","count":1},{"id":"GO:0007566","count":1}]},{"hash":"1110733575361567377","title":"Motor neuron differentiation and axon guidance","description":"The cluster's top GO terms cluster around motor neuron development, including differentiation of various motor neuron types (visceral motor neurons and midbrain dopaminergic neurons), and pathfinding processes (axon guidance, peripheral nervous system axonogenesis) as well as migration (lateral motor column). Additional terms like cell-matrix adhesion and exocytosis reflect neuronal connectivity and synaptic function, supporting a cohesive theme of motor neuron development and axonal wiring.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070527","count":2},{"id":"GO:0007160","count":2},{"id":"GO:0008045","count":2},{"id":"GO:0097477","count":2},{"id":"GO:0048936","count":2}]},{"hash":"291090666994221979","title":"Innate Antiviral Immunity","description":"The top GO terms are innate immune response and defense response to virus, each appearing several times, indicating a cluster enriched for antiviral innate immunity. Other terms (cilium assembly, photoreceptor localization, and miscellaneous regulatory processes) are less represented and may reflect multifunctional proteins or annotations, but do not define the main theme. Therefore, this label captures the predominant function of the cluster.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0010288","count":2},{"id":"GO:1905515","count":2},{"id":"GO:1903546","count":2}]},{"hash":"336686430036876634","title":"Sterol and lipid biosynthesis","description":"This cluster's GO terms are dominated by sterol and lipid metabolism (cholesterol biosynthetic via lathosterol, ergosterol biosynthesis, ether lipid metabolism, and various sterol oxidations, plus fatty acid biosynthesis). A few terms pertain to immune or skin-related processes, which are likely peripheral annotations. Overall, the core function suggested is sterol and lipid biosynthesis and metabolism.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033490","count":1},{"id":"GO:0006633","count":1},{"id":"GO:0006675","count":1},{"id":"GO:0035754","count":1},{"id":"GO:0080064","count":1}]},{"hash":"957900422421887835","title":"Unknown","description":"The GO terms are highly diverse (signal transduction, development, membrane formation, synaptic endocytosis, muscle contraction, drug response) with no clear shared pathway or function, and there are no edges linking the proteins, so a coherent label cannot be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010801","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0072221","count":1},{"id":"GO:0032120","count":1},{"id":"GO:0033234","count":1}]},{"hash":"857448977298477311","title":"Stress-Responsive Transcription","description":"This cluster centers on transcription-related activity with broad cellular responses to various stressors, including radiation, metals, nitroglycerin, hypoxia, and other stress signals. The presence of DNA-templated transcription alongside multiple cellular stress response GO terms suggests these proteins participate in stress-induced transcriptional programs, despite some noise in the annotations.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0033169","count":2},{"id":"GO:1904843","count":1},{"id":"GO:0071480","count":1},{"id":"GO:0070207","count":1}]},{"hash":"988549906208860270","title":"Immune cell differentiation","description":"The top GO terms cluster around differentiation and development of immune cell lineages (hematopoietic stem cell proliferation, T cell differentiation in thymus, granulocyte differentiation, and regulation of alpha-beta T cell differentiation). While there are a few terms touching on broader or unrelated processes (exosomal secretion, nuclear membrane reassembly, etc.), the strongest common theme is differentiation of immune cells, justifying this label.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071425","count":1},{"id":"GO:0033077","count":1},{"id":"GO:0030851","count":1},{"id":"GO:1903955","count":1},{"id":"GO:0046638","count":1}]},{"hash":"630133672315690270","title":"Neurotransmitter Secretion and Vesicle Trafficking","description":"These terms consistently point to vesicle-mediated secretion and trafficking, including neurotransmitter release, receptor localization to synapses, and Golgi/ER-to-Golgi pathway organization, with acrosome-related exocytosis and related autophagy-linked processes supporting a secretory vesicle theme.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007340","count":2},{"id":"GO:0033194","count":1},{"id":"GO:0097352","count":1},{"id":"GO:0098967","count":1},{"id":"GO:0006896","count":1}]},{"hash":"1031996700506107519","title":"Immune signaling downregulation via deubiquitination","description":"Top GO terms cluster around negative regulation of multiple immune signaling pathways (TLR3, CD40, NOD2) and dampening of inflammatory responses. The inclusion of ubiquitin-specific deubiquitination terms (K63- and K6-linked) aligns with mechanisms that attenuate signaling cascades. B-1 B cell homeostasis and mucosal immune response terms suggest a broader role in regulating immune activity, especially at mucosal sites.","confidence":"High","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0034140","count":1},{"id":"GO:2000349","count":1},{"id":"GO:0071947","count":1},{"id":"GO:1902042","count":1},{"id":"GO:0032691","count":1}]},{"hash":"332128477397802300","title":"Unknown","description":"The GO terms here mix immune system processes (complement activation, leukocyte tethering/rolling, phagocytosis recognition, basophil activation, NK cell chemotaxis regulation) with developmental morphogenesis terms (metanephric and lymph vessel development). There isn\u2019t a single coherent function tying all four proteins together, suggesting the annotations are heterogeneous. Therefore, a specific, representative label cannot be determined.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000502","count":1},{"id":"GO:0060355","count":1},{"id":"GO:0001867","count":1},{"id":"GO:0006910","count":1},{"id":"GO:0050901","count":1}]},{"hash":"313001995465651278","title":"Unknown","description":"The proteins in this cluster show a broad and mixed set of GO terms, ranging from mitotic M phase to metabolic processes (alpha-glucan catabolic process, PRPP biosynthetic process), RNA modification (tRNA wobble position uridine thiolation and tRNA seleno-modification), redox/homeostasis, epithelial differentiation, protein urmylation, and necroptosis. There is no single dominant function or pathway tying these terms together, and the network is sparse (Edges: 1, Triangles: 0), so there is no coherent functional theme to label beyond Unknown.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000087","count":1},{"id":"GO:0030980","count":1},{"id":"GO:0002143","count":1},{"id":"GO:0006015","count":1},{"id":"GO:0045454","count":1}]},{"hash":"1059063493754807846","title":"Brain signaling and sleep-wake regulation","description":"The terms cluster around neuronal signaling and brain function, including action potential, GABA receptor clustering, dopamine secretion, histamine response, and LGN development, along with circadian sleep/wake regulation, reflexes, and autonomic heart-rate modulation, pointing to a cohesive CNS signaling and sleep regulation theme.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001508","count":2},{"id":"GO:0071420","count":2},{"id":"GO:0097112","count":2},{"id":"GO:0042320","count":2},{"id":"GO:0001988","count":2}]},{"hash":"486538944829108128","title":"Ubiquitin-dependent signaling and chromatin modification","description":"This cluster's frequent GO terms point to ubiquitin-mediated protein catabolism and autoubiquitination, with downstream effects on signaling pathways such as TNF/NF-kB (I-kappaB phosphorylation) and multiple chromatin-related processes (histone acetylation/methylation, histone ubiquitination). The presence of V(D)J recombination and dosage compensation hints to broader chromatin regulation roles, making ubiquitin-mediated control of signaling and chromatin a coherent theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:1903265","count":2},{"id":"GO:2000620","count":2},{"id":"GO:1903721","count":2},{"id":"GO:0090073","count":2}]},{"hash":"50105177498926900","title":"Seed oilbody biogenesis and lipid storage","description":"These proteins cluster around lipid droplet organization, seed oilbody biogenesis, and lipid storage, all pointing to a shared role in forming and storing lipids in seeds (oil bodies/TAG storage). The cohesive set of GO terms supports seed oilbody biogenesis and lipid storage as the core function.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034389","count":1},{"id":"GO:0010344","count":1},{"id":"GO:0019915","count":1}]},{"hash":"1762233090845603305","title":"Notch signaling and EMT in development","description":"The cluster centers on developmental signaling and cell-state change, highlighted by Notch signaling, mesoderm formation, and regulation of epithelial-to-mesenchymal transition, with supporting evidence from fucose-dependent protein glycosylation that can modulate Notch receptors; other terms appear ancillary to this core theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006004","count":1},{"id":"GO:0001707","count":1},{"id":"GO:0007219","count":1},{"id":"GO:0010717","count":1},{"id":"GO:0036066","count":1}]},{"hash":"2146527180900465780","title":"Unknown","description":"This cluster shows no GO terms, no edges or triangles, and no clear functional link among the four proteins, so a coherent theme cannot be inferred. The brief note about ReCIPE re-adding other proteins does not establish a shared function for this group.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"172377066619749520","title":"Purine nucleotide metabolism","description":"The top GO terms cluster around nucleotide biosynthesis and interconversion\u2014ADP/AMP phosphorylation, CDP and nucleoside monophosphate phosphorylation, AMP salvage, purine ribonucleotide interconversion, ITP metabolism, and NAD+ biosynthesis\u2014indicating a core theme of purine nucleotide metabolism and energy-related nucleotide processes. The brain and liver development terms likely reflect tissue-specific roles rather than the central function of the cluster. Confidence: Medium","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0046939","count":3},{"id":"GO:0046705","count":3},{"id":"GO:0006172","count":3},{"id":"GO:0015951","count":3}]},{"hash":"52877453845831548","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009611","count":1},{"id":"GO:0015937","count":1},{"id":"GO:0097171","count":1},{"id":"GO:0046444","count":1},{"id":"GO:1990966","count":1}]},{"hash":"1336711871335350142","title":"Proteoglycan Biosynthesis and ECM-Related Development","description":"The top GO terms are dominated by glycosaminoglycan biosynthesis (chondroitin sulfate, heparan sulfate) and UDP-sugar metabolism, together with extracellular matrix and tissue-development processes (lens transparency maintenance, kidney morphogenesis, cell adhesion molecule production). Some metabolic terms (thyroid hormone, insulin) appear but do not contradict the core proteoglycan/ECM theme, suggesting a cluster of proteins involved in proteoglycan synthesis and ECM-associated development.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":1},{"id":"GO:0033319","count":1},{"id":"GO:0042403","count":1},{"id":"GO:0015012","count":1},{"id":"GO:0032868","count":1}]},{"hash":"2173846595614171652","title":"TNF-NF-\u03baB signaling and ubiquitination","description":"The top GO terms cluster around TNF-mediated signaling, NF-\u03baB activation, JNK cascade regulation, and various ubiquitination processes (including K48-linked autoubiquitination). This points to a theme of inflammatory signaling modulated by ubiquitin pathways. Some terms about histone modification and peroxisome import are outliers, but the dominant signal is TNF-driven signaling with ubiquitination. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":2},{"id":"GO:0070936","count":1},{"id":"GO:2000620","count":1},{"id":"GO:1900095","count":1},{"id":"GO:0007250","count":1}]},{"hash":"1422368484753617036","title":"Mitochondrial Metabolite Transporters","description":"The top GO terms cluster around transport of various metabolites across mitochondrial membranes (phosphate, ADP, ornithine, pyridoxal phosphate, pyrimidine nucleotides), along with a note on mitochondrial membrane fission and related stress responses. This indicates a coherent group of mitochondrial transporter proteins involved in metabolite exchange and organelle dynamics.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097274","count":3},{"id":"GO:0035435","count":2},{"id":"GO:1990519","count":2},{"id":"GO:0031921","count":2},{"id":"GO:0000303","count":2}]},{"hash":"1636333671945658563","title":"ROBO-guided axon guidance and neural development","description":"The top GO terms are dominated by axon guidance (GO:0007411) and Roundabout signaling pathway (GO:0035385), pointing to ROBO-mediated axon pathfinding and broader nervous system development. While some terms touch other developmental processes, the strongest shared function among these proteins is participation in ROBO-driven neural guidance during development.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007411","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0001822","count":3},{"id":"GO:0007286","count":3},{"id":"GO:0007399","count":3}]},{"hash":"98641056219076474","title":"Unknown","description":"The GO terms are highly diverse, spanning signaling regulation (peptidyl-threonine phosphorylation, GTPase activity, sumoylation), development (metanephric tubule, larval fat body), membrane formation, vesicle trafficking, apoptosis, and drug response, with no single cohesive function tying the proteins together. With no edges and only three proteins, there isn't a clear shared theme to name the cluster beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010801","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0072221","count":1},{"id":"GO:0032120","count":1},{"id":"GO:0033234","count":1}]},{"hash":"26219172318686997","title":"SREBP-Driven Lipid Regulation","description":"The GO terms point to lipid metabolism and cholesterol control, notably SREBP signaling, lipid localization, and regulation (including negative regulation) of cholesterol biosynthesis, as well as membrane raft localization. Some terms appear obsolete or less connected (mitochondrion morphogenesis, podocyte development, IL-2 production), but the core pattern across the non-obsolete terms suggests involvement in lipid homeostasis and membrane lipid organization via SREBP pathways.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070584","count":1},{"id":"GO:0072249","count":1},{"id":"GO:1901585","count":1},{"id":"GO:1903044","count":1},{"id":"GO:0052547","count":1}]},{"hash":"757054578428682207","title":"Cytoskeletal dynamics and cell division","description":"Top GO terms point to cytoskeletal remodeling and division processes, including microtubule dynamics (plus- and minus-end activities), actomyosin contractile ring assembly, and cytokinesis. The presence of GTPase activity regulation reinforces a theme of cytoskeletal control. Some terms reflect plant-specific morphogenesis (chloroplast movement, root development), which can be linked to cytoskeletal function across species. Overall, the cluster seems to represent components governing cytoskeletal dynamics during cell division and morphogenesis.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0009904","count":1},{"id":"GO:0051296","count":1},{"id":"GO:0031534","count":1},{"id":"GO:0072092","count":1}]},{"hash":"1800380941037577557","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"The cluster is dominated by terms related to actin filament assembly and actomyosin contractile activity, including actin filament bundle assembly, mitotic actomyosin ring formation, and mesenchyme migration, plus platelet aggregation (all tied to cytoskeletal dynamics and cell movement). A couple of obsolete chromatin-related terms appear, but the primary signal points to actin-based cytoskeleton remodeling and migratory behavior.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904623","count":2},{"id":"GO:1903475","count":2},{"id":"GO:0070527","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0051017","count":2}]},{"hash":"581181045647252323","title":"Chromatin Organization and Nucleosome Assembly","description":"The GO terms point to chromatin-level processes: nucleosome assembly, heterochromatin organization, and histone modifications, with an overarching theme of chromatin structure and nuclear organization. Despite a couple obsolete terms, the cluster consistently centers on nucleosome/nuclear chromatin regulation, justifying a single chromatin-related label.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097298","count":2},{"id":"GO:0006334","count":2},{"id":"GO:0016584","count":2},{"id":"GO:0071169","count":2},{"id":"GO:0080182","count":2}]},{"hash":"383549978549897882","title":"Unknown","description":"Top terms cover lipid metabolism (lipid localization; SREBP signaling; negative regulation of cholesterol biosynthetic process), membrane raft localization, immune signaling (interleukin-2 production), and even kidney development, with several terms marked obsolete. The scattered functions do not point to a single, coherent biological process or pathway that unites the three proteins, so a concise, characteristic label cannot be derived.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070584","count":1},{"id":"GO:0072249","count":1},{"id":"GO:1901585","count":1},{"id":"GO:1903044","count":1},{"id":"GO:0052547","count":1}]},{"hash":"516219791023641823","title":"Plant Cytokinesis and Microtubule Dynamics","description":"The GO terms cluster around cytoskeletal remodeling and cell division\u2014actomyosin contractile ring assembly, cytokinesis by cell plate formation, mitotic metaphase chromosome alignment, and plus/minus-end microtubule dynamics with spindle orientation. Several plant-specific processes (chloroplast movement and root development) also point to developmental cytoskeletal regulation in plants. One term (ureteric bud invasion) is less directly related but may reflect broader tissue invasion processes. Overall, the cluster centers on cytoskeletal control of cell division and organ development in plants.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009904","count":3},{"id":"GO:0051296","count":3},{"id":"GO:0031534","count":3},{"id":"GO:0072092","count":3},{"id":"GO:0000915","count":3}]},{"hash":"87873035506432486","title":"Microtubule-driven cytokinesis and spindle dynamics","description":"The Top Terms emphasize microtubule-based processes such as minus-end directed microtubule sliding, establishment of meiotic spindle orientation, actomyosin contractile ring assembly, and cytokinesis. This indicates a cohesive theme around cytoskeletal organization governing cell division and spindle function, with some tissue-specific terms present but not overriding the core motif.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000742","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0021762","count":2},{"id":"GO:0009904","count":1},{"id":"GO:0051296","count":1}]},{"hash":"1200938047838964731","title":"Unknown","description":"The terms cover a mix of mitotic cell cycle regulation, steroid and fatty acid metabolism, transcriptional regulation, viral transcription, and signaling responses, with no single unifying function evident across the cluster. This makes a specific, representative label unreliable.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010389","count":1},{"id":"GO:0061370","count":1},{"id":"GO:0042761","count":1},{"id":"GO:0000411","count":1},{"id":"GO:0006706","count":1}]},{"hash":"20024485176300168","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048255","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0071035","count":1},{"id":"GO:0071031","count":1}]},{"hash":"1649610591782792528","title":"Unknown","description":"There are 3 proteins but no GO terms provided to tie them to a common function, and the network signals (2 edges, max degree 2, no triangles) do not reveal a clear theme. Therefore a specific, representative label cannot be assigned.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"180384246628148701","title":"Immune Signaling Regulators","description":"The top GO terms cluster around cytokine signaling and immune regulation (cellular response to IL-4, regulation of TGF-beta and interferon signaling, and regulation of complement-dependent cytotoxicity), suggesting the proteins function as modulators of immune signaling pathways. Some terms also reflect broad stress or regulatory processes (e.g., protein folding), but the core pattern points to immune signaling regulation.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1901856","count":2},{"id":"GO:0071353","count":2},{"id":"GO:0030511","count":2},{"id":"GO:0060334","count":2},{"id":"GO:0043524","count":2}]},{"hash":"1745536454972877469","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1990417","count":1},{"id":"GO:1990120","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0071035","count":1},{"id":"GO:0071051","count":1}]},{"hash":"1634430489055147557","title":"Bacterial quinone biosynthesis and fatty acid metabolism","description":"These proteins show strong links to quinone biosynthesis (menaquinone, phylloquinone) and fatty acid beta-oxidation, plus related catabolic pathways and antibiotic biosynthesis, which together suggest a prokaryotic metabolic cluster centered on energy production and secondary metabolite biosynthesis.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010124","count":3},{"id":"GO:0009234","count":3},{"id":"GO:0006574","count":3},{"id":"GO:0042372","count":3},{"id":"GO:0006635","count":3}]},{"hash":"2023567748340430752","title":"Proteasome- and NF-kappaB\u2013mediated immune signaling","description":"The cluster combines genes involved in proteasome function and ubiquitination (proteasome core complex assembly, protein deubiquitination, ubiquitin-independent protein catabolic process) with immune and inflammatory signaling (TNF-mediated signaling, non-canonical NF-kappaB signaling, Fc-epsilon receptor signaling, and negative regulation of inflammatory response). This points to a cohesive module where protein turnover interfaces with inflammatory/immune signaling, with a few secondary associations to Wnt PCP and cell-cycle regulation that are less central. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0002862","count":2},{"id":"GO:0010499","count":2},{"id":"GO:0038095","count":2},{"id":"GO:0010972","count":2},{"id":"GO:0060071","count":2}]},{"hash":"26296614284885902","title":"Transcription and RNA Processing Regulation","description":"The top GO terms cluster around DNA-templated transcription, transcription elongation/termination regulation, and RNA processing steps (pre-miRNA processing, miRNA catabolic process, and mRNA stabilization), suggesting a transcription/RNA-processing regulatory module. A couple of outlier terms (transformation competence, kidney development) are present but do not negate the core RNA biology signal.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0030420","count":2},{"id":"GO:1902219","count":1},{"id":"GO:1901724","count":1},{"id":"GO:0060567","count":1}]},{"hash":"842846318481064774","title":"Spliceosome-driven mRNA splicing and processing","description":"The GO terms are dominated by spliceosome-mediated mRNA splicing and processing, including splice site recognition and regulatory ncRNA-mediated gene silencing, suggesting a cohesive function in RNA splicing and mRNA maturation; a few translation-related terms appear incidental. ","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:1901407","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0001731","count":1},{"id":"GO:0006376","count":1}]},{"hash":"1640929591786792144","title":"Broad Developmental and Immune Processes","description":"The terms cover neural development (brain/midbrain), reproductive development (gonad development, fertilization, dosage compensation), bone differentiation, transcription regulation, and immune responses, indicating multiple distinct biological themes rather than a single cohesive function; the cluster\u2019s very weak connectivity (one edge, no triangles) supports a broad, non-specific grouping.","confidence":"Low","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0007549","count":1}]},{"hash":"1942947305484691831","title":"Hematopoietic, Skeletal, and Cardiac Development","description":"The terms show differentiation and maturation across multiple lineages: blood (myeloid, lymphocytes, definitive hemopoiesis), bone formation (osteoblast differentiation, ossification), and heart/muscle structure (heart contraction, sarcomerogenesis), with ubiquitin-mediated regulation as a contextual control mechanism.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060047","count":1},{"id":"GO:0030099","count":1},{"id":"GO:0001649","count":1},{"id":"GO:0060216","count":1},{"id":"GO:0048469","count":1}]},{"hash":"599229237632240817","title":"RNA transcription and ribosome biogenesis","description":"The terms indicate involvement in transcription by RNA polymerases I, II, and III (including tRNA transcription) and in ribosome biogenesis, aligning these proteins with core transcription machinery and ribosome assembly processes.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006386","count":1},{"id":"GO:0006385","count":1},{"id":"GO:0006366","count":1},{"id":"GO:0006360","count":1},{"id":"GO:0042797","count":1}]},{"hash":"971314764802163569","title":"GPCR signaling for immune chemotaxis and smooth muscle regulation","description":"These terms repeatedly point to GPCR-mediated signaling that drives immune cell chemotaxis (neutrophil and monocyte), with associated regulation of GTPase activity and PKA/cAMP signaling, and links to prostaglandin-induced responses and smooth muscle contraction regulation. The overlap of chemotaxis, GPCR internalization, prostaglandin response, and muscle tone suggests a cluster centered on GPCR signaling coordinating immune cell movement and smooth muscle function.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090023","count":2},{"id":"GO:2000479","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0071417","count":2},{"id":"GO:0035645","count":2}]},{"hash":"1402527531468050978","title":"Ubiquitination-Linked Apoptosis Regulation","description":"This cluster is enriched for GO terms describing protein ubiquitination with multiple linkage types (K48, K63, K6) and protein autoubiquitination, plus apoptotic process, suggesting a cohesive theme around ubiquitin-mediated regulation of apoptosis. A few terms relate to cell-cycle events (chiasma assembly, mitotic DNA replication termination) or developmental processes (photomorphogenesis, feminization of hermaphroditic germ-line), which may reflect broader regulatory roles or annotation noise, but the strongest signal is ubiquitination-driven regulation of apoptosis.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070936","count":2},{"id":"GO:0070534","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0085020","count":2},{"id":"GO:0006915","count":2}]},{"hash":"832186826921315486","title":"ER-to-Golgi COPI Vesicle Trafficking","description":"The top GO terms are dominated by ER-to-Golgi transport and COPI-related processes (ER to-Golgi vesicle transport, COPI coating and budding, protein exit from ER, and ER lumen retention), indicating a cohesive theme of ER-Golgi trafficking and vesicle formation. A few terms (placenta development, Wnt secretion, aggression) appear unrelated to this core function, likely incidental annotations. Overall, the cluster most plausibly represents proteins involved in ER-to-Golgi vesicular trafficking and COPI-coated vesicles.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0001893","count":1},{"id":"GO:1902003","count":1},{"id":"GO:0061357","count":1},{"id":"GO:0006621","count":1}]},{"hash":"1501778905665163943","title":"Ion and Metabolite Transmembrane Transport","description":"Proteins in this cluster share multiple transmembrane transport GO terms for ions and metabolites (sodium, potassium, arsenite, citrate, succinate, malate, phosphate), indicating a coordinated role in moving ions/metabolites across membranes; a single Toll signaling regulation term appears peripheral.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006814","count":1},{"id":"GO:0015743","count":1},{"id":"GO:0055085","count":1},{"id":"GO:0015700","count":1},{"id":"GO:0006813","count":1}]},{"hash":"66385511895697527","title":"Innate immune signaling and proteostasis regulation","description":"The cluster\u2019s terms cluster around regulation of innate immune signaling (TLR3 and MyD88-dependent TLR pathways, interferon signaling) along with protein homeostasis processes (proteasomal degradation, ubiquitin-dependent catabolic process, and autophagy/aggresophagy). This combination suggests a theme where immune signaling is tightly coordinated with protein quality control and stress responses (e.g., heat acclimation).","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034140","count":3},{"id":"GO:1900186","count":3},{"id":"GO:1901799","count":3},{"id":"GO:0060334","count":3},{"id":"GO:0010286","count":3}]},{"hash":"1461392746034100485","title":"Integrin signaling and ECM remodeling","description":"This cluster centers on processes tied to cell adhesion and interaction with the extracellular matrix, including integrin-mediated signaling, substrate-dependent cell migration, extracellular remodeling enzymes, and cartilage development terms. The mix suggests a theme of cells attaching to and remodeling the ECM to migrate or assemble tissues, with integrin signaling as a core driver.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":2},{"id":"GO:0031104","count":1},{"id":"GO:0045123","count":1},{"id":"GO:0007596","count":1},{"id":"GO:0030212","count":1}]},{"hash":"475046566093318445","title":"Innate immune signaling and tissue remodeling","description":"The top GO terms cluster mainly around innate immune pathways (Toll signaling, response to LPS, complement activation) with accompanying signals for tissue remodeling (angiogenesis, elastin catabolic process, fibrinolysis), suggesting a shared theme of immune signaling linked to extracellular matrix and vascular changes.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":2},{"id":"GO:0045752","count":1},{"id":"GO:0060309","count":1},{"id":"GO:0070946","count":1},{"id":"GO:0051919","count":1}]},{"hash":"740160500259895800","title":"Meiosis-Related Translational Regulation","description":"This cluster shows strong signals for translation and its regulation (GO:0006412 translation; GO:0017148 negative regulation of translation; GO:0002191 cap-dependent translational initiation) plus meiosis-specific processes (GO:0007060 male meiosis chromosome segregation; GO:0010032 meiotic chromosome condensation; GO:0007112 male meiosis cytokinesis) and related cell-cycle step (GO:0000082 G1/S transition). The convergence of translation control with meiotic chromosome dynamics suggests proteins that coordinate protein synthesis during meiosis, hence the label focusing on meiosis-associated translational regulation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0017148","count":1},{"id":"GO:0010507","count":1},{"id":"GO:0007060","count":1},{"id":"GO:0071549","count":1}]},{"hash":"1713354966470176295","title":"Neuronal signaling and stress response","description":"The top GO terms point to neural functions (neurotransmitter secretion and memory) combined with cellular stress responses (hypoxia) and regulation of apoptosis, suggesting a small neuronal module that links signaling with survival under stress. Despite few proteins and no interactions, this cohesive theme best explains the term set. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007613","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0007269","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0010801","count":1}]},{"hash":"2178431793378446780","title":"TCA Cycle and NADPH Regeneration","description":"The top terms cluster around central carbon metabolism (glyoxylate cycle, TCA, 2-oxoglutarate, isocitrate) and redox-related processes (NADPH regeneration, NADP+ biosynthesis) with an oxidative stress response. This points to a metabolic module dedicated to energy production and maintaining redox balance. Some terms (e.g., female gonad development) may reflect annotation noise rather than core function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006097","count":1},{"id":"GO:0006099","count":1},{"id":"GO:0006740","count":1},{"id":"GO:0006979","count":1},{"id":"GO:0006741","count":1}]},{"hash":"1149214787923890668","title":"Transcription and Redox Homeostasis","description":"The dominant terms pertain to RNA polymerase II/III transcription and elongation, plus cellular redox homeostasis and oxidative stress response, implying a coordinated transcriptional control linked to redox balance; a few outlier terms (ion transport, neural crest migration, nucleotide biosynthesis) may reflect noise rather than core function.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2000651","count":1},{"id":"GO:0003147","count":1},{"id":"GO:0098869","count":1},{"id":"GO:0006386","count":1},{"id":"GO:0009263","count":1}]},{"hash":"1305961099260957179","title":"Embryonic development and morphogenesis","description":"The top GO terms point to developmental processes across multiple tissues, including endocardial cushion EMT, placenta-related differentiation, left/right patterning, pancreatic cell development, and cartilage morphogenesis. This suggests the proteins cluster around embryogenesis and tissue differentiation rather than a single specific pathway, supporting a label centered on embryonic development and morphogenesis. Some terms about xenobiotic responses appear as single instances and do not define the cluster\u2019s core function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":1},{"id":"GO:0035270","count":1},{"id":"GO:0060806","count":1},{"id":"GO:0060707","count":1},{"id":"GO:0060972","count":1}]},{"hash":"1004602999177742960","title":"Unknown","description":"There are no GO terms listed to identify a shared function among the three proteins; without functional terms, edges alone do not reveal a cohesive group label. As a result, the cluster is best described as Unknown.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"1613388740895920056","title":"Lung branching morphogenesis and ECM remodeling","description":"The set of GO terms centers on basement membrane disassembly, collagen catabolic processes, proteolysis, and epithelial tube branching in lung morphogenesis, indicating a cluster of proteins involved in extracellular matrix remodeling during lung development. Some terms related to ossification or T cell cytotoxicity seem ancillary, but the core theme is ECM remodeling accompanying lung organogenesis.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050790","count":2},{"id":"GO:0034769","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0001913","count":2},{"id":"GO:0001957","count":2}]},{"hash":"771520125957998576","title":"Unknown","description":"There are no GO terms to indicate a shared function, and the network shows no edges or triangles among the listed proteins, suggesting no functional linkage within this cluster. Without a common theme, the appropriate label is Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1416474017119787557","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006012","count":1},{"id":"GO:0008204","count":1},{"id":"GO:0009243","count":1},{"id":"GO:0033499","count":1},{"id":"GO:0080110","count":1}]},{"hash":"634315598281125827","title":"Unknown","description":"The GO terms are scattered across nervous system development (myelination, photoreceptor morphogenesis/outer segment organization) and unrelated metabolic processes, with several terms marked obsolete. There is no single coherent function tying the proteins together, suggesting an Unknown cluster.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0022011","count":2},{"id":"GO:0019878","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0098924","count":1},{"id":"GO:0046328","count":1}]},{"hash":"2208827509596100950","title":"Cellular stress and metabolic regulation","description":"This cluster centers on cellular stress responses (oxidative stress, acidic pH, toxic substances) and apoptotic signaling, with accompanying metabolic processes (cholesterol biosynthesis, thyroid hormone generation) and nutrient signaling. The presence of nitric oxide signaling also hints at stress-related neuronal communication, suggesting a coherent theme of how cells cope with stress while modulating metabolism.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043154","count":3},{"id":"GO:0007584","count":3},{"id":"GO:1902177","count":3},{"id":"GO:0098924","count":3},{"id":"GO:0090346","count":3}]}]